diff --git a/docs/pyerrors.html b/docs/pyerrors.html
index aa6806c3..fb44da0a 100644
--- a/docs/pyerrors.html
+++ b/docs/pyerrors.html
@@ -3,14 +3,14 @@
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@@ -571,470 +571,471 @@ The following entries are optional:</li>
 </ul>
 </div>
 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">  0</span></a><span class="sa">r</span><span class="sd">&#39;&#39;&#39;</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="sd"># What is pyerrors?</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="sd">`pyerrors` is a python package for error computation and propagation of Markov chain Monte Carlo data.</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="sd">It is based on the gamma method [arXiv:hep-lat/0306017](https://arxiv.org/abs/hep-lat/0306017). Some of its features are:</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="sd">- automatic differentiation for exact liner error propagation as suggested in [arXiv:1809.01289](https://arxiv.org/abs/1809.01289) (partly based on the [autograd](https://github.com/HIPS/autograd) package).</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="sd">- treatment of slow modes in the simulation as suggested in [arXiv:1009.5228](https://arxiv.org/abs/1009.5228).</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="sd">- coherent error propagation for data from different Markov chains.</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="sd">- non-linear fits with x- and y-errors and exact linear error propagation based on automatic differentiation as introduced in [arXiv:1809.01289](https://arxiv.org/abs/1809.01289).</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="sd">- real and complex matrix operations and their error propagation based on automatic differentiation (Matrix inverse, Cholesky decomposition, calculation of eigenvalues and eigenvectors, singular value decomposition...).</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a>
-</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="sd">There exist similar publicly available implementations of gamma method error analysis suites in [Fortran](https://gitlab.ift.uam-csic.es/alberto/aderrors), [Julia](https://gitlab.ift.uam-csic.es/alberto/aderrors.jl) and [Python](https://github.com/mbruno46/pyobs).</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a>
-</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd">## Basic example</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a>
-</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">```python</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">import numpy as np</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">import pyerrors as pe</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a>
-</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd">my_obs = pe.Obs([samples], [&#39;ensemble_name&#39;]) # Initialize an Obs object</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd">my_new_obs = 2 * np.log(my_obs) / my_obs ** 2 # Construct derived Obs object</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">my_new_obs.gamma_method()                     # Estimate the statistical error</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">print(my_new_obs)                             # Print the result to stdout</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd">&gt; 0.31498(72)</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd">```</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>
-</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd"># The `Obs` class</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>
-</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a><span class="sd">`pyerrors` introduces a new datatype, `Obs`, which simplifies error propagation and estimation for auto- and cross-correlated data.</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd">An `Obs` object can be initialized with two arguments, the first is a list containing the samples for an observable from a Monte Carlo chain.</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd">The samples can either be provided as python list or as numpy array.</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd">The second argument is a list containing the names of the respective Monte Carlo chains as strings. These strings uniquely identify a Monte Carlo chain/ensemble.</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>
-</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a><span class="sd">```python</span>
-</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a><span class="sd">import pyerrors as pe</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>
-</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a><span class="sd">my_obs = pe.Obs([samples], [&#39;ensemble_name&#39;])</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a><span class="sd">```</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>
-</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a><span class="sd">## Error propagation</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>
-</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a><span class="sd">When performing mathematical operations on `Obs` objects the correct error propagation is intrinsically taken care of using a first order Taylor expansion</span>
-</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a><span class="sd">$$\delta_f^i=\sum_\alpha \bar{f}_\alpha \delta_\alpha^i\,,\quad \delta_\alpha^i=a_\alpha^i-\bar{a}_\alpha\,,$$</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a><span class="sd">as introduced in [arXiv:hep-lat/0306017](https://arxiv.org/abs/hep-lat/0306017).</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a><span class="sd">The required derivatives $\bar{f}_\alpha$ are evaluated up to machine precision via automatic differentiation as suggested in [arXiv:1809.01289](https://arxiv.org/abs/1809.01289).</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>
-</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a><span class="sd">The `Obs` class is designed such that mathematical numpy functions can be used on `Obs` just as for regular floats.</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>
-</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a><span class="sd">```python</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a><span class="sd">import numpy as np</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a><span class="sd">import pyerrors as pe</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>
-</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a><span class="sd">my_obs1 = pe.Obs([samples1], [&#39;ensemble_name&#39;])</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a><span class="sd">my_obs2 = pe.Obs([samples2], [&#39;ensemble_name&#39;])</span>
-</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>
-</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a><span class="sd">my_sum = my_obs1 + my_obs2</span>
-</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>
-</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a><span class="sd">my_m_eff = np.log(my_obs1 / my_obs2)</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>
-</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a><span class="sd">iamzero = my_m_eff - my_m_eff</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a><span class="sd"># Check that value and fluctuations are zero within machine precision</span>
-</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a><span class="sd">print(iamzero == 0.0)</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a><span class="sd">&gt; True</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a><span class="sd">```</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>
-</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a><span class="sd">## Error estimation</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>
-</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a><span class="sd">The error estimation within `pyerrors` is based on the gamma method introduced in [arXiv:hep-lat/0306017](https://arxiv.org/abs/hep-lat/0306017).</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a><span class="sd">After having arrived at the derived quantity of interest the `gamma_method` can be called as detailed in the following example.</span>
-</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>
-</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a><span class="sd">```python</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a><span class="sd">my_sum.gamma_method()</span>
-</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a><span class="sd">print(my_sum)</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a><span class="sd">&gt; 1.70(57)</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a><span class="sd">my_sum.details()</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a><span class="sd">&gt; Result	 1.70000000e+00 +/- 5.72046658e-01 +/- 7.56746598e-02 (33.650%)</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a><span class="sd">&gt;  t_int	 2.71422900e+00 +/- 6.40320983e-01 S = 2.00</span>
-</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a><span class="sd">&gt; 1000 samples in 1 ensemble:</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble_name&#39; : 1000 configurations (from 1 to 1000)</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>
-</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a><span class="sd">```</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>
-</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a><span class="sd">We use the following definition of the integrated autocorrelation time established in [Madras &amp; Sokal 1988](https://link.springer.com/article/10.1007/BF01022990)</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a><span class="sd">$$\tau_\mathrm{int}=\frac{1}{2}+\sum_{t=1}^{W}\rho(t)\geq \frac{1}{2}\,.$$</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a><span class="sd">The window $W$ is determined via the automatic windowing procedure described in [arXiv:hep-lat/0306017](https://arxiv.org/abs/hep-lat/0306017).</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a><span class="sd">The standard value for the parameter $S$ of this automatic windowing procedure is $S=2$. Other values for $S$ can be passed to the `gamma_method` as parameter.</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>
-</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a><span class="sd">```python</span>
-</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a><span class="sd">my_sum.gamma_method(S=3.0)</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a><span class="sd">my_sum.details()</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a><span class="sd">&gt; Result	 1.70000000e+00 +/- 6.30675201e-01 +/- 1.04585650e-01 (37.099%)</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a><span class="sd">&gt;  t_int	 3.29909703e+00 +/- 9.77310102e-01 S = 3.00</span>
-</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a><span class="sd">&gt; 1000 samples in 1 ensemble:</span>
-</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble_name&#39; : 1000 configurations (from 1 to 1000)</span>
-</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>
-</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a><span class="sd">```</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>
-</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a><span class="sd">The integrated autocorrelation time $\tau_\mathrm{int}$ and the autocorrelation function $\rho(W)$ can be monitored via the methods `pyerrors.obs.Obs.plot_tauint` and `pyerrors.obs.Obs.plot_tauint`.</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>
-</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a><span class="sd">If the parameter $S$ is set to zero it is assumed that the dataset does not exhibit any autocorrelation and the windowsize is chosen to be zero.</span>
-</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a><span class="sd">In this case the error estimate is identical to the sample standard error.</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>
-</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a><span class="sd">### Exponential tails</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>
-</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a><span class="sd">Slow modes in the Monte Carlo history can be accounted for by attaching an exponential tail to the autocorrelation function $\rho$ as suggested in [arXiv:1009.5228](https://arxiv.org/abs/1009.5228). The longest autocorrelation time in the history, $\tau_\mathrm{exp}$, can be passed to the `gamma_method` as parameter. In this case the automatic windowing procedure is vacated and the parameter $S$ does not affect the error estimate.</span>
-</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>
-</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a><span class="sd">```python</span>
-</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a><span class="sd">my_sum.gamma_method(tau_exp=7.2)</span>
-</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a><span class="sd">my_sum.details()</span>
-</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a><span class="sd">&gt; Result	 1.70000000e+00 +/- 6.28097762e-01 +/- 5.79077524e-02 (36.947%)</span>
-</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a><span class="sd">&gt;  t_int	 3.27218667e+00 +/- 7.99583654e-01 tau_exp = 7.20,  N_sigma = 1</span>
-</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a><span class="sd">&gt; 1000 samples in 1 ensemble:</span>
-</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble_name&#39; : 1000 configurations (from 1 to 1000)</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a><span class="sd">```</span>
-</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>
-</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a><span class="sd">For the full API see `pyerrors.obs.Obs.gamma_method`.</span>
-</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>
-</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a><span class="sd">## Multiple ensembles/replica</span>
-</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>
-</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a><span class="sd">Error propagation for multiple ensembles (Markov chains with different simulation parameters) is handled automatically. Ensembles are uniquely identified by their `name`.</span>
-</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>
-</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a><span class="sd">```python</span>
-</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a><span class="sd">obs1 = pe.Obs([samples1], [&#39;ensemble1&#39;])</span>
-</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a><span class="sd">obs2 = pe.Obs([samples2], [&#39;ensemble2&#39;])</span>
-</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>
-</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a><span class="sd">my_sum = obs1 + obs2</span>
-</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a><span class="sd">my_sum.details()</span>
-</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a><span class="sd">&gt; Result   2.00697958e+00</span>
-</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a><span class="sd">&gt; 1500 samples in 2 ensembles:</span>
-</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble1&#39; : 1000 configurations (from 1 to 1000)</span>
-</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble2&#39; : 500 configurations (from 1 to 500)</span>
-</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a><span class="sd">```</span>
-</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>
-</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a><span class="sd">`pyerrors` identifies multiple replica (independent Markov chains with identical simulation parameters) by the vertical bar `|` in the name of the data set.</span>
-</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>
-</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a><span class="sd">```python</span>
-</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a><span class="sd">obs1 = pe.Obs([samples1], [&#39;ensemble1|r01&#39;])</span>
-</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a><span class="sd">obs2 = pe.Obs([samples2], [&#39;ensemble1|r02&#39;])</span>
-</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>
-</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a><span class="sd">&gt; my_sum = obs1 + obs2</span>
-</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a><span class="sd">&gt; my_sum.details()</span>
-</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a><span class="sd">&gt; Result   2.00697958e+00</span>
-</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a><span class="sd">&gt; 1500 samples in 1 ensemble:</span>
-</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble1&#39;</span>
-</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a><span class="sd">&gt;     · Replicum &#39;r01&#39; : 1000 configurations (from 1 to 1000)</span>
-</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a><span class="sd">&gt;     · Replicum &#39;r02&#39; : 500 configurations (from 1 to 500)</span>
-</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a><span class="sd">```</span>
-</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>
-</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a><span class="sd">### Error estimation for multiple ensembles</span>
-</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>
-</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a><span class="sd">In order to keep track of different error analysis parameters for different ensembles one can make use of global dictionaries as detailed in the following example.</span>
-</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>
-</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a><span class="sd">```python</span>
-</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a><span class="sd">pe.Obs.S_dict[&#39;ensemble1&#39;] = 2.5</span>
-</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a><span class="sd">pe.Obs.tau_exp_dict[&#39;ensemble2&#39;] = 8.0</span>
-</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a><span class="sd">pe.Obs.tau_exp_dict[&#39;ensemble3&#39;] = 2.0</span>
-</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a><span class="sd">```</span>
-</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>
-</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a><span class="sd">In case the `gamma_method` is called without any parameters it will use the values specified in the dictionaries for the respective ensembles.</span>
-</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a><span class="sd">Passing arguments to the `gamma_method` still dominates over the dictionaries.</span>
-</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>
+                        <input id="pyerrors-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="pyerrors-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="sa">r</span><span class="sd">&#39;&#39;&#39;</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="sd"># What is pyerrors?</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="sd">`pyerrors` is a python package for error computation and propagation of Markov chain Monte Carlo data.</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="sd">It is based on the gamma method [arXiv:hep-lat/0306017](https://arxiv.org/abs/hep-lat/0306017). Some of its features are:</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="sd">- automatic differentiation for exact liner error propagation as suggested in [arXiv:1809.01289](https://arxiv.org/abs/1809.01289) (partly based on the [autograd](https://github.com/HIPS/autograd) package).</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="sd">- treatment of slow modes in the simulation as suggested in [arXiv:1009.5228](https://arxiv.org/abs/1009.5228).</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="sd">- coherent error propagation for data from different Markov chains.</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="sd">- non-linear fits with x- and y-errors and exact linear error propagation based on automatic differentiation as introduced in [arXiv:1809.01289](https://arxiv.org/abs/1809.01289).</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="sd">- real and complex matrix operations and their error propagation based on automatic differentiation (Matrix inverse, Cholesky decomposition, calculation of eigenvalues and eigenvectors, singular value decomposition...).</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a>
+</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="sd">There exist similar publicly available implementations of gamma method error analysis suites in [Fortran](https://gitlab.ift.uam-csic.es/alberto/aderrors), [Julia](https://gitlab.ift.uam-csic.es/alberto/aderrors.jl) and [Python](https://github.com/mbruno46/pyobs).</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a>
+</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd">## Basic example</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a>
+</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">```python</span>
+</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">import numpy as np</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">import pyerrors as pe</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a>
+</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd">my_obs = pe.Obs([samples], [&#39;ensemble_name&#39;]) # Initialize an Obs object</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">my_new_obs = 2 * np.log(my_obs) / my_obs ** 2 # Construct derived Obs object</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">my_new_obs.gamma_method()                     # Estimate the statistical error</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd">print(my_new_obs)                             # Print the result to stdout</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd">&gt; 0.31498(72)</span>
+</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd">```</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>
+</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a><span class="sd"># The `Obs` class</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>
+</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd">`pyerrors` introduces a new datatype, `Obs`, which simplifies error propagation and estimation for auto- and cross-correlated data.</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd">An `Obs` object can be initialized with two arguments, the first is a list containing the samples for an observable from a Monte Carlo chain.</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd">The samples can either be provided as python list or as numpy array.</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a><span class="sd">The second argument is a list containing the names of the respective Monte Carlo chains as strings. These strings uniquely identify a Monte Carlo chain/ensemble.</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>
+</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a><span class="sd">```python</span>
+</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a><span class="sd">import pyerrors as pe</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>
+</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a><span class="sd">my_obs = pe.Obs([samples], [&#39;ensemble_name&#39;])</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a><span class="sd">```</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>
+</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a><span class="sd">## Error propagation</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>
+</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a><span class="sd">When performing mathematical operations on `Obs` objects the correct error propagation is intrinsically taken care of using a first order Taylor expansion</span>
+</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a><span class="sd">$$\delta_f^i=\sum_\alpha \bar{f}_\alpha \delta_\alpha^i\,,\quad \delta_\alpha^i=a_\alpha^i-\bar{a}_\alpha\,,$$</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a><span class="sd">as introduced in [arXiv:hep-lat/0306017](https://arxiv.org/abs/hep-lat/0306017).</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a><span class="sd">The required derivatives $\bar{f}_\alpha$ are evaluated up to machine precision via automatic differentiation as suggested in [arXiv:1809.01289](https://arxiv.org/abs/1809.01289).</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>
+</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a><span class="sd">The `Obs` class is designed such that mathematical numpy functions can be used on `Obs` just as for regular floats.</span>
+</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>
+</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a><span class="sd">```python</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a><span class="sd">import numpy as np</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a><span class="sd">import pyerrors as pe</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>
+</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a><span class="sd">my_obs1 = pe.Obs([samples1], [&#39;ensemble_name&#39;])</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a><span class="sd">my_obs2 = pe.Obs([samples2], [&#39;ensemble_name&#39;])</span>
+</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>
+</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a><span class="sd">my_sum = my_obs1 + my_obs2</span>
+</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>
+</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a><span class="sd">my_m_eff = np.log(my_obs1 / my_obs2)</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>
+</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a><span class="sd">iamzero = my_m_eff - my_m_eff</span>
+</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a><span class="sd"># Check that value and fluctuations are zero within machine precision</span>
+</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a><span class="sd">print(iamzero == 0.0)</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a><span class="sd">&gt; True</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a><span class="sd">```</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>
+</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a><span class="sd">## Error estimation</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>
+</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a><span class="sd">The error estimation within `pyerrors` is based on the gamma method introduced in [arXiv:hep-lat/0306017](https://arxiv.org/abs/hep-lat/0306017).</span>
+</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a><span class="sd">After having arrived at the derived quantity of interest the `gamma_method` can be called as detailed in the following example.</span>
+</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>
+</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a><span class="sd">```python</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a><span class="sd">my_sum.gamma_method()</span>
+</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a><span class="sd">print(my_sum)</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a><span class="sd">&gt; 1.70(57)</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a><span class="sd">my_sum.details()</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a><span class="sd">&gt; Result	 1.70000000e+00 +/- 5.72046658e-01 +/- 7.56746598e-02 (33.650%)</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a><span class="sd">&gt;  t_int	 2.71422900e+00 +/- 6.40320983e-01 S = 2.00</span>
+</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a><span class="sd">&gt; 1000 samples in 1 ensemble:</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble_name&#39; : 1000 configurations (from 1 to 1000)</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>
+</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a><span class="sd">```</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>
+</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a><span class="sd">We use the following definition of the integrated autocorrelation time established in [Madras &amp; Sokal 1988](https://link.springer.com/article/10.1007/BF01022990)</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a><span class="sd">$$\tau_\mathrm{int}=\frac{1}{2}+\sum_{t=1}^{W}\rho(t)\geq \frac{1}{2}\,.$$</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a><span class="sd">The window $W$ is determined via the automatic windowing procedure described in [arXiv:hep-lat/0306017](https://arxiv.org/abs/hep-lat/0306017).</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a><span class="sd">The standard value for the parameter $S$ of this automatic windowing procedure is $S=2$. Other values for $S$ can be passed to the `gamma_method` as parameter.</span>
+</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>
+</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a><span class="sd">```python</span>
+</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a><span class="sd">my_sum.gamma_method(S=3.0)</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a><span class="sd">my_sum.details()</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a><span class="sd">&gt; Result	 1.70000000e+00 +/- 6.30675201e-01 +/- 1.04585650e-01 (37.099%)</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a><span class="sd">&gt;  t_int	 3.29909703e+00 +/- 9.77310102e-01 S = 3.00</span>
+</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a><span class="sd">&gt; 1000 samples in 1 ensemble:</span>
+</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble_name&#39; : 1000 configurations (from 1 to 1000)</span>
+</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>
+</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a><span class="sd">```</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>
+</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a><span class="sd">The integrated autocorrelation time $\tau_\mathrm{int}$ and the autocorrelation function $\rho(W)$ can be monitored via the methods `pyerrors.obs.Obs.plot_tauint` and `pyerrors.obs.Obs.plot_tauint`.</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>
+</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a><span class="sd">If the parameter $S$ is set to zero it is assumed that the dataset does not exhibit any autocorrelation and the windowsize is chosen to be zero.</span>
+</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a><span class="sd">In this case the error estimate is identical to the sample standard error.</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>
+</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a><span class="sd">### Exponential tails</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>
+</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a><span class="sd">Slow modes in the Monte Carlo history can be accounted for by attaching an exponential tail to the autocorrelation function $\rho$ as suggested in [arXiv:1009.5228](https://arxiv.org/abs/1009.5228). The longest autocorrelation time in the history, $\tau_\mathrm{exp}$, can be passed to the `gamma_method` as parameter. In this case the automatic windowing procedure is vacated and the parameter $S$ does not affect the error estimate.</span>
+</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>
+</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a><span class="sd">```python</span>
+</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a><span class="sd">my_sum.gamma_method(tau_exp=7.2)</span>
+</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a><span class="sd">my_sum.details()</span>
+</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a><span class="sd">&gt; Result	 1.70000000e+00 +/- 6.28097762e-01 +/- 5.79077524e-02 (36.947%)</span>
+</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a><span class="sd">&gt;  t_int	 3.27218667e+00 +/- 7.99583654e-01 tau_exp = 7.20,  N_sigma = 1</span>
+</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a><span class="sd">&gt; 1000 samples in 1 ensemble:</span>
+</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble_name&#39; : 1000 configurations (from 1 to 1000)</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a><span class="sd">```</span>
+</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>
+</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a><span class="sd">For the full API see `pyerrors.obs.Obs.gamma_method`.</span>
+</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>
+</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a><span class="sd">## Multiple ensembles/replica</span>
+</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>
+</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a><span class="sd">Error propagation for multiple ensembles (Markov chains with different simulation parameters) is handled automatically. Ensembles are uniquely identified by their `name`.</span>
+</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>
+</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a><span class="sd">```python</span>
+</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a><span class="sd">obs1 = pe.Obs([samples1], [&#39;ensemble1&#39;])</span>
+</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a><span class="sd">obs2 = pe.Obs([samples2], [&#39;ensemble2&#39;])</span>
+</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>
+</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a><span class="sd">my_sum = obs1 + obs2</span>
+</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a><span class="sd">my_sum.details()</span>
+</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a><span class="sd">&gt; Result   2.00697958e+00</span>
+</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a><span class="sd">&gt; 1500 samples in 2 ensembles:</span>
+</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble1&#39; : 1000 configurations (from 1 to 1000)</span>
+</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble2&#39; : 500 configurations (from 1 to 500)</span>
+</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a><span class="sd">```</span>
+</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>
+</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a><span class="sd">`pyerrors` identifies multiple replica (independent Markov chains with identical simulation parameters) by the vertical bar `|` in the name of the data set.</span>
+</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>
+</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a><span class="sd">```python</span>
+</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a><span class="sd">obs1 = pe.Obs([samples1], [&#39;ensemble1|r01&#39;])</span>
+</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a><span class="sd">obs2 = pe.Obs([samples2], [&#39;ensemble1|r02&#39;])</span>
+</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>
+</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a><span class="sd">&gt; my_sum = obs1 + obs2</span>
+</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a><span class="sd">&gt; my_sum.details()</span>
+</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a><span class="sd">&gt; Result   2.00697958e+00</span>
+</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a><span class="sd">&gt; 1500 samples in 1 ensemble:</span>
+</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble1&#39;</span>
+</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a><span class="sd">&gt;     · Replicum &#39;r01&#39; : 1000 configurations (from 1 to 1000)</span>
+</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a><span class="sd">&gt;     · Replicum &#39;r02&#39; : 500 configurations (from 1 to 500)</span>
+</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a><span class="sd">```</span>
+</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>
+</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a><span class="sd">### Error estimation for multiple ensembles</span>
+</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>
+</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a><span class="sd">In order to keep track of different error analysis parameters for different ensembles one can make use of global dictionaries as detailed in the following example.</span>
+</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>
+</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a><span class="sd">```python</span>
+</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a><span class="sd">pe.Obs.S_dict[&#39;ensemble1&#39;] = 2.5</span>
+</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a><span class="sd">pe.Obs.tau_exp_dict[&#39;ensemble2&#39;] = 8.0</span>
+</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a><span class="sd">pe.Obs.tau_exp_dict[&#39;ensemble3&#39;] = 2.0</span>
+</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a><span class="sd">```</span>
+</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>
+</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a><span class="sd">In case the `gamma_method` is called without any parameters it will use the values specified in the dictionaries for the respective ensembles.</span>
+</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a><span class="sd">Passing arguments to the `gamma_method` still dominates over the dictionaries.</span>
 </span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>
-</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a><span class="sd">## Irregular Monte Carlo chains</span>
-</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>
-</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a><span class="sd">`Obs` objects defined on irregular Monte Carlo chains can be initialized with the parameter `idl`.</span>
-</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>
-</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a><span class="sd">```python</span>
-</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a><span class="sd"># Observable defined on configurations 20 to 519</span>
-</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a><span class="sd">obs1 = pe.Obs([samples1], [&#39;ensemble1&#39;], idl=[range(20, 520)])</span>
-</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a><span class="sd">obs1.details()</span>
-</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a><span class="sd">&gt; Result	 9.98319881e-01</span>
-</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a><span class="sd">&gt; 500 samples in 1 ensemble:</span>
-</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble1&#39; : 500 configurations (from 20 to 519)</span>
-</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>
-</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a><span class="sd"># Observable defined on every second configuration between 5 and 1003</span>
-</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a><span class="sd">obs2 = pe.Obs([samples2], [&#39;ensemble1&#39;], idl=[range(5, 1005, 2)])</span>
-</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a><span class="sd">obs2.details()</span>
-</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a><span class="sd">&gt; Result	 9.99100712e-01</span>
-</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a><span class="sd">&gt; 500 samples in 1 ensemble:</span>
-</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble1&#39; : 500 configurations (from 5 to 1003 in steps of 2)</span>
-</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>
-</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a><span class="sd"># Observable defined on configurations 2, 9, 28, 29 and 501</span>
-</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a><span class="sd">obs3 = pe.Obs([samples3], [&#39;ensemble1&#39;], idl=[[2, 9, 28, 29, 501]])</span>
-</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a><span class="sd">obs3.details()</span>
-</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a><span class="sd">&gt; Result	 1.01718064e+00</span>
-</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a><span class="sd">&gt; 5 samples in 1 ensemble:</span>
-</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble1&#39; : 5 configurations (irregular range)</span>
-</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>
-</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a><span class="sd">```</span>
-</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>
-</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a><span class="sd">`Obs` objects defined on regular and irregular histories of the same ensemble can be combined with each other and the correct error propagation and estimation is automatically taken care of.</span>
-</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>
-</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a><span class="sd">**Warning:** Irregular Monte Carlo chains can result in odd patterns in the autocorrelation functions.</span>
-</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a><span class="sd">Make sure to check the autocorrelation time with e.g. `pyerrors.obs.Obs.plot_rho` or `pyerrors.obs.Obs.plot_tauint`.</span>
-</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a>
-</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a><span class="sd">For the full API see `pyerrors.obs.Obs`.</span>
-</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>
-</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a><span class="sd"># Correlators</span>
-</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a><span class="sd">When one is not interested in single observables but correlation functions, `pyerrors` offers the `Corr` class which simplifies the corresponding error propagation and provides the user with a set of standard methods. In order to initialize a `Corr` objects one needs to arrange the data as a list of `Obs`</span>
-</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a><span class="sd">```python</span>
-</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a><span class="sd">my_corr = pe.Corr([obs_0, obs_1, obs_2, obs_3])</span>
-</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a><span class="sd">print(my_corr)</span>
-</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a><span class="sd">&gt; x0/a	Corr(x0/a)</span>
-</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a><span class="sd">&gt; ------------------</span>
-</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a><span class="sd">&gt; 0	 0.7957(80)</span>
-</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a><span class="sd">&gt; 1	 0.5156(51)</span>
-</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a><span class="sd">&gt; 2	 0.3227(33)</span>
-</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a><span class="sd">&gt; 3	 0.2041(21)</span>
-</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a><span class="sd">```</span>
-</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a><span class="sd">In case the correlation functions are not defined on the outermost timeslices, for example because of fixed boundary conditions, a padding can be introduced.</span>
-</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a><span class="sd">```python</span>
-</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a><span class="sd">my_corr = pe.Corr([obs_0, obs_1, obs_2, obs_3], padding=[1, 1])</span>
-</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a><span class="sd">print(my_corr)</span>
-</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a><span class="sd">&gt; x0/a	Corr(x0/a)</span>
-</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a><span class="sd">&gt; ------------------</span>
-</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a><span class="sd">&gt; 0</span>
-</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a><span class="sd">&gt; 1	 0.7957(80)</span>
-</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a><span class="sd">&gt; 2	 0.5156(51)</span>
-</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a><span class="sd">&gt; 3	 0.3227(33)</span>
-</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a><span class="sd">&gt; 4	 0.2041(21)</span>
-</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a><span class="sd">&gt; 5</span>
-</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a><span class="sd">```</span>
-</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a><span class="sd">The individual entries of a correlator can be accessed via slicing</span>
-</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a><span class="sd">```python</span>
-</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a><span class="sd">print(my_corr[3])</span>
-</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a><span class="sd">&gt; 0.3227(33)</span>
-</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a><span class="sd">```</span>
-</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a><span class="sd">Error propagation with the `Corr` class works very similar to `Obs` objects. Mathematical operations are overloaded and `Corr` objects can be computed together with other `Corr` objects, `Obs` objects or real numbers and integers.</span>
-</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a><span class="sd">```python</span>
-</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a><span class="sd">my_new_corr = 0.3 * my_corr[2] * my_corr * my_corr + 12 / my_corr</span>
-</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a><span class="sd">```</span>
-</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>
-</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a><span class="sd">`pyerrors` provides the user with a set of regularly used methods for the manipulation of correlator objects:</span>
-</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a><span class="sd">- `Corr.gamma_method` applies the gamma method to all entries of the correlator.</span>
-</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a><span class="sd">- `Corr.m_eff` to construct effective masses. Various variants for periodic and fixed temporal boundary conditions are available.</span>
-</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a><span class="sd">- `Corr.deriv` returns the first derivative of the correlator as `Corr`. Different discretizations of the numerical derivative are available.</span>
-</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a><span class="sd">- `Corr.second_deriv` returns the second derivative of the correlator as `Corr`. Different discretizations of the numerical derivative are available.</span>
-</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a><span class="sd">- `Corr.symmetric` symmetrizes parity even correlations functions, assuming periodic boundary conditions.</span>
-</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a><span class="sd">- `Corr.anti_symmetric` anti-symmetrizes parity odd correlations functions, assuming periodic boundary conditions.</span>
-</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a><span class="sd">- `Corr.T_symmetry` averages a correlator with its time symmetry partner, assuming fixed boundary conditions.</span>
-</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a><span class="sd">- `Corr.plateau` extracts a plateau value from the correlator in a given range.</span>
-</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a><span class="sd">- `Corr.roll` periodically shifts the correlator.</span>
-</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a><span class="sd">- `Corr.reverse` reverses the time ordering of the correlator.</span>
-</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a><span class="sd">- `Corr.correlate` constructs a disconnected correlation function from the correlator and another `Corr` or `Obs` object.</span>
-</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a><span class="sd">- `Corr.reweight` reweights the correlator.</span>
-</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a>
-</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a><span class="sd">`pyerrors` can also handle matrices of correlation functions and extract energy states from these matrices via a generalized eigenvalue problem (see `pyerrors.correlators.Corr.GEVP`).</span>
-</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a>
-</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a><span class="sd">For the full API see `pyerrors.correlators.Corr`.</span>
-</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>
-</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a><span class="sd"># Complex valued observables</span>
-</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>
-</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a><span class="sd">`pyerrors` can handle complex valued observables via the class `pyerrors.obs.CObs`.</span>
-</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a><span class="sd">`CObs` are initialized with a real and an imaginary part which both can be `Obs` valued.</span>
-</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>
-</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a><span class="sd">```python</span>
-</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a><span class="sd">my_real_part = pe.Obs([samples1], [&#39;ensemble1&#39;])</span>
-</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a><span class="sd">my_imag_part = pe.Obs([samples2], [&#39;ensemble1&#39;])</span>
-</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>
-</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a><span class="sd">my_cobs = pe.CObs(my_real_part, my_imag_part)</span>
-</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a><span class="sd">my_cobs.gamma_method()</span>
-</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a><span class="sd">print(my_cobs)</span>
-</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a><span class="sd">&gt; (0.9959(91)+0.659(28)j)</span>
-</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a><span class="sd">```</span>
-</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>
-</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a><span class="sd">Elementary mathematical operations are overloaded and samples are properly propagated as for the `Obs` class.</span>
-</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a><span class="sd">```python</span>
-</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a><span class="sd">my_derived_cobs = (my_cobs + my_cobs.conjugate()) / np.abs(my_cobs)</span>
-</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a><span class="sd">my_derived_cobs.gamma_method()</span>
-</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a><span class="sd">print(my_derived_cobs)</span>
-</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a><span class="sd">&gt; (1.668(23)+0.0j)</span>
-</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a><span class="sd">```</span>
-</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>
-</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a><span class="sd"># The `Covobs` class</span>
-</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a><span class="sd">In many projects, auxiliary data that is not based on Monte Carlo chains enters. Examples are experimentally determined mesons masses which are used to set the scale or renormalization constants. These numbers come with an error that has to be propagated through the analysis. The `Covobs` class allows to define such quantities in `pyerrors`. Furthermore, external input might consist of correlated quantities. An example are the parameters of an interpolation formula, which are defined via mean values and a covariance matrix between all parameters. The contribution of the interpolation formula to the error of a derived quantity therefore might depend on the complete covariance matrix.</span>
-</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>
-</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a><span class="sd">This concept is built into the definition of `Covobs`. In `pyerrors`, external input is defined by $M$ mean values, a $M\times M$ covariance matrix, where $M=1$ is permissible, and a name that uniquely identifies the covariance matrix. Below, we define the pion mass, based on its mean value and error, 134.9768(5). Note, that the square of the error enters `cov_Obs`, since the second argument of this function is the covariance matrix of the `Covobs`.</span>
-</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>
-</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a><span class="sd">```python</span>
-</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a><span class="sd">import pyerrors.obs as pe</span>
-</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>
-</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a><span class="sd">mpi = pe.cov_Obs(134.9768, 0.0005**2, &#39;pi^0 mass&#39;)</span>
-</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a><span class="sd">mpi.gamma_method()</span>
-</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a><span class="sd">mpi.details()</span>
-</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a><span class="sd">&gt; Result	 1.34976800e+02 +/- 5.00000000e-04 +/- 0.00000000e+00 (0.000%)</span>
-</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a><span class="sd">&gt;  pi^0 mass 	 5.00000000e-04</span>
-</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a><span class="sd">&gt; 0 samples in 1 ensemble:</span>
-</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a><span class="sd">&gt;   · Covobs   &#39;pi^0 mass&#39;</span>
-</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a><span class="sd">```</span>
-</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a><span class="sd">The resulting object `mpi` is an `Obs` that contains a `Covobs`. In the following, it may be handled as any other `Obs`. The contribution of the covariance matrix to the error of an `Obs` is determined from the $M \times M$ covariance matrix $\Sigma$ and the gradient of the `Obs` with respect to the external quantities, which is the $1\times M$ Jacobian matrix $J$, via</span>
-</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a><span class="sd">$$s = \sqrt{J^T \Sigma J}\,,$$</span>
-</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a><span class="sd">where the Jacobian is computed for each derived quantity via automatic differentiation.</span>
-</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>
-</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a><span class="sd">Correlated auxiliary data is defined similarly to above, e.g., via</span>
-</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a><span class="sd">```python</span>
-</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a><span class="sd">RAP = pe.cov_Obs([16.7457, -19.0475], [[3.49591, -6.07560], [-6.07560, 10.5834]], &#39;R_AP, 1906.03445, (5.3a)&#39;)</span>
-</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a><span class="sd">print(RAP)</span>
-</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a><span class="sd">&gt; [Obs[16.7(1.9)], Obs[-19.0(3.3)]]</span>
-</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a><span class="sd">```</span>
-</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a><span class="sd">where `RAP` now is a list of two `Obs` that contains the two correlated parameters.</span>
-</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a>
-</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a><span class="sd">Since the gradient of a derived observable with respect to an external covariance matrix is propagated through the entire analysis, the `Covobs` class allows to quote the derivative of a result with respect to the external quantities. If these derivatives are published together with the result, small shifts in the definition of external quantities, e.g., the definition of the physical point, can be performed a posteriori based on the published information. This may help to compare results of different groups. The gradient of an `Obs` `o` with respect to a covariance matrix with the identifying string `k` may be accessed via</span>
-</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a><span class="sd">```python</span>
-</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a><span class="sd">o.covobs[k].grad</span>
-</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a><span class="sd">```</span>
-</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a>
-</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a><span class="sd"># Error propagation in iterative algorithms</span>
-</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a>
-</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a><span class="sd">`pyerrors` supports exact linear error propagation for iterative algorithms like various variants of non-linear least sqaures fits or root finding. The derivatives required for the error propagation are calculated as described in [arXiv:1809.01289](https://arxiv.org/abs/1809.01289).</span>
-</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a>
-</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a><span class="sd">## Least squares fits</span>
-</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>
-</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a><span class="sd">Standard non-linear least square fits with errors on the dependent but not the independent variables can be performed with `pyerrors.fits.least_squares`. As default solver the Levenberg-Marquardt algorithm implemented in [scipy](https://docs.scipy.org/doc/scipy/reference/generated/scipy.optimize.least_squares.html) is used.</span>
-</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>
-</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a><span class="sd">Fit functions have to be of the following form</span>
-</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a><span class="sd">```python</span>
-</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a><span class="sd">import autograd.numpy as anp</span>
-</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a>
-</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a><span class="sd">def func(a, x):</span>
-</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a><span class="sd">    return a[1] * anp.exp(-a[0] * x)</span>
-</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a><span class="sd">```</span>
-</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a><span class="sd">**It is important that numerical functions refer to `autograd.numpy` instead of `numpy` for the automatic differentiation in iterative algorithms to work properly.**</span>
-</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>
-</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a><span class="sd">Fits can then be performed via</span>
-</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a><span class="sd">```python</span>
-</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a><span class="sd">fit_result = pe.fits.least_squares(x, y, func)</span>
-</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a><span class="sd">print(&quot;\n&quot;, fit_result)</span>
-</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a><span class="sd">&gt; Fit with 2 parameters</span>
-</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a><span class="sd">&gt; Method: Levenberg-Marquardt</span>
-</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a><span class="sd">&gt; `ftol` termination condition is satisfied.</span>
-</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a><span class="sd">&gt; chisquare/d.o.f.: 0.9593035785160936</span>
-</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>
-</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a><span class="sd">&gt;  Goodness of fit:</span>
-</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a><span class="sd">&gt; χ²/d.o.f. = 0.959304</span>
-</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a><span class="sd">&gt; p-value   = 0.5673</span>
-</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a><span class="sd">&gt; Fit parameters:</span>
-</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a><span class="sd">&gt; 0	 0.0548(28)</span>
-</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a><span class="sd">&gt; 1	 1.933(64)</span>
-</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a><span class="sd">```</span>
-</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a><span class="sd">where x is a `list` or `numpy.array` of `floats` and y is a `list` or `numpy.array` of `Obs`.</span>
-</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>
-</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a><span class="sd">Data stored in `Corr` objects can be fitted directly using the `Corr.fit` method.</span>
-</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a><span class="sd">```python</span>
-</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a><span class="sd">my_corr = pe.Corr(y)</span>
-</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a><span class="sd">fit_result = my_corr.fit(func, fitrange=[12, 25])</span>
-</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a><span class="sd">```</span>
-</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a><span class="sd">this can simplify working with absolute fit ranges and takes care of gaps in the data automatically.</span>
-</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>
-</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a><span class="sd">For fit functions with multiple independent variables the fit function can be of the form</span>
-</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>
-</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a><span class="sd">```python</span>
-</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a><span class="sd">def func(a, x):</span>
-</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a><span class="sd">    (x1, x2) = x</span>
-</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a><span class="sd">    return a[0] * x1 ** 2 + a[1] * x2</span>
-</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a><span class="sd">```</span>
-</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>
-</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a><span class="sd">`pyerrors` also supports correlated fits which can be triggered via the parameter `correlated_fit=True`.</span>
-</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a><span class="sd">Details about how the required covariance matrix is estimated can be found in `pyerrors.obs.covariance`.</span>
-</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>
-</span><span id="L-358"><a href="#L-358"><span class="linenos">358</span></a><span class="sd">Direct visualizations of the performed fits can be triggered via `resplot=True` or `qqplot=True`. For all available options see `pyerrors.fits.least_squares`.</span>
-</span><span id="L-359"><a href="#L-359"><span class="linenos">359</span></a>
-</span><span id="L-360"><a href="#L-360"><span class="linenos">360</span></a><span class="sd">## Total least squares fits</span>
-</span><span id="L-361"><a href="#L-361"><span class="linenos">361</span></a><span class="sd">`pyerrors` can also fit data with errors on both the dependent and independent variables using the total least squares method also referred to orthogonal distance regression as implemented in [scipy](https://docs.scipy.org/doc/scipy/reference/odr.html), see `pyerrors.fits.least_squares`. The syntax is identical to the standard least squares case, the only diffrence being that `x` also has to be a `list` or `numpy.array` of `Obs`.</span>
-</span><span id="L-362"><a href="#L-362"><span class="linenos">362</span></a>
-</span><span id="L-363"><a href="#L-363"><span class="linenos">363</span></a><span class="sd">For the full API see `pyerrors.fits` for fits and `pyerrors.roots` for finding roots of functions.</span>
-</span><span id="L-364"><a href="#L-364"><span class="linenos">364</span></a>
-</span><span id="L-365"><a href="#L-365"><span class="linenos">365</span></a><span class="sd"># Matrix operations</span>
-</span><span id="L-366"><a href="#L-366"><span class="linenos">366</span></a><span class="sd">`pyerrors` provides wrappers for `Obs`- and `CObs`-valued matrix operations based on `numpy.linalg`. The supported functions include:</span>
-</span><span id="L-367"><a href="#L-367"><span class="linenos">367</span></a><span class="sd">- `inv` for the matrix inverse.</span>
-</span><span id="L-368"><a href="#L-368"><span class="linenos">368</span></a><span class="sd">- `cholseky` for the Cholesky decomposition.</span>
-</span><span id="L-369"><a href="#L-369"><span class="linenos">369</span></a><span class="sd">- `det` for the matrix determinant.</span>
-</span><span id="L-370"><a href="#L-370"><span class="linenos">370</span></a><span class="sd">- `eigh` for eigenvalues and eigenvectors of hermitean matrices.</span>
-</span><span id="L-371"><a href="#L-371"><span class="linenos">371</span></a><span class="sd">- `eig` for eigenvalues of general matrices.</span>
-</span><span id="L-372"><a href="#L-372"><span class="linenos">372</span></a><span class="sd">- `pinv` for the Moore-Penrose pseudoinverse.</span>
-</span><span id="L-373"><a href="#L-373"><span class="linenos">373</span></a><span class="sd">- `svd` for the singular-value-decomposition.</span>
-</span><span id="L-374"><a href="#L-374"><span class="linenos">374</span></a>
-</span><span id="L-375"><a href="#L-375"><span class="linenos">375</span></a><span class="sd">For the full API see `pyerrors.linalg`.</span>
-</span><span id="L-376"><a href="#L-376"><span class="linenos">376</span></a>
-</span><span id="L-377"><a href="#L-377"><span class="linenos">377</span></a><span class="sd"># Export data</span>
-</span><span id="L-378"><a href="#L-378"><span class="linenos">378</span></a>
-</span><span id="L-379"><a href="#L-379"><span class="linenos">379</span></a><span class="sd">The preferred exported file format within `pyerrors` is json.gz. Files written to this format are valid JSON files that have been compressed using gzip. The structure of the content is inspired by the dobs format of the ALPHA collaboration. The aim of the format is to facilitate the storage of data in a self-contained way such that, even years after the creation of the file, it is possible to extract all necessary information:</span>
-</span><span id="L-380"><a href="#L-380"><span class="linenos">380</span></a><span class="sd">- What observables are stored? Possibly: How exactly are they defined.</span>
-</span><span id="L-381"><a href="#L-381"><span class="linenos">381</span></a><span class="sd">- How does each single ensemble or external quantity contribute to the error of the observable?</span>
-</span><span id="L-382"><a href="#L-382"><span class="linenos">382</span></a><span class="sd">- Who did write the file when and on which machine?</span>
-</span><span id="L-383"><a href="#L-383"><span class="linenos">383</span></a>
-</span><span id="L-384"><a href="#L-384"><span class="linenos">384</span></a><span class="sd">This can be achieved by storing all information in one single file. The export routines of `pyerrors` are written such that as much information as possible is written automatically as described in the following example</span>
-</span><span id="L-385"><a href="#L-385"><span class="linenos">385</span></a><span class="sd">```python</span>
-</span><span id="L-386"><a href="#L-386"><span class="linenos">386</span></a><span class="sd">my_obs = pe.Obs([samples], [&quot;test_ensemble&quot;])</span>
-</span><span id="L-387"><a href="#L-387"><span class="linenos">387</span></a><span class="sd">my_obs.tag = &quot;My observable&quot;</span>
-</span><span id="L-388"><a href="#L-388"><span class="linenos">388</span></a>
-</span><span id="L-389"><a href="#L-389"><span class="linenos">389</span></a><span class="sd">pe.input.json.dump_to_json(my_obs, &quot;test_output_file&quot;, description=&quot;This file contains a test observable&quot;)</span>
-</span><span id="L-390"><a href="#L-390"><span class="linenos">390</span></a><span class="sd"># For a single observable one can equivalently use the class method dump</span>
-</span><span id="L-391"><a href="#L-391"><span class="linenos">391</span></a><span class="sd">my_obs.dump(&quot;test_output_file&quot;, description=&quot;This file contains a test observable&quot;)</span>
-</span><span id="L-392"><a href="#L-392"><span class="linenos">392</span></a>
-</span><span id="L-393"><a href="#L-393"><span class="linenos">393</span></a><span class="sd">check = pe.input.json.load_json(&quot;test_output_file&quot;)</span>
-</span><span id="L-394"><a href="#L-394"><span class="linenos">394</span></a>
-</span><span id="L-395"><a href="#L-395"><span class="linenos">395</span></a><span class="sd">print(my_obs == check)</span>
-</span><span id="L-396"><a href="#L-396"><span class="linenos">396</span></a><span class="sd">&gt; True</span>
-</span><span id="L-397"><a href="#L-397"><span class="linenos">397</span></a><span class="sd">```</span>
-</span><span id="L-398"><a href="#L-398"><span class="linenos">398</span></a><span class="sd">The format also allows to directly write out the content of `Corr` objects or lists and arrays of `Obs` objects by passing the desired data to `pyerrors.input.json.dump_to_json`.</span>
-</span><span id="L-399"><a href="#L-399"><span class="linenos">399</span></a>
-</span><span id="L-400"><a href="#L-400"><span class="linenos">400</span></a><span class="sd">## json.gz format specification</span>
-</span><span id="L-401"><a href="#L-401"><span class="linenos">401</span></a><span class="sd">The first entries of the file provide optional auxiliary information:</span>
-</span><span id="L-402"><a href="#L-402"><span class="linenos">402</span></a><span class="sd">- `program` is a string that indicates which program was used to write the file.</span>
-</span><span id="L-403"><a href="#L-403"><span class="linenos">403</span></a><span class="sd">- `version` is a string that specifies the version of the format.</span>
-</span><span id="L-404"><a href="#L-404"><span class="linenos">404</span></a><span class="sd">- `who` is a string that specifies the user name of the creator of the file.</span>
-</span><span id="L-405"><a href="#L-405"><span class="linenos">405</span></a><span class="sd">- `date` is a string and contains the creation date of the file.</span>
-</span><span id="L-406"><a href="#L-406"><span class="linenos">406</span></a><span class="sd">- `host` is a string and contains the hostname of the machine where the file has been written.</span>
-</span><span id="L-407"><a href="#L-407"><span class="linenos">407</span></a><span class="sd">- `description` contains information on the content of the file. This field is not filled automatically in `pyerrors`. The user is advised to provide as detailed information as possible in this field. Examples are: Input files of measurements or simulations, LaTeX formulae or references to publications to specify how the observables have been computed, details on the analysis strategy, ... This field may be any valid JSON type. Strings, arrays or objects (equivalent to dicts in python) are well suited to provide information.</span>
-</span><span id="L-408"><a href="#L-408"><span class="linenos">408</span></a>
-</span><span id="L-409"><a href="#L-409"><span class="linenos">409</span></a><span class="sd">The only necessary entry of the file is the field</span>
-</span><span id="L-410"><a href="#L-410"><span class="linenos">410</span></a><span class="sd">-`obsdata`, an array that contains the actual data.</span>
-</span><span id="L-411"><a href="#L-411"><span class="linenos">411</span></a>
-</span><span id="L-412"><a href="#L-412"><span class="linenos">412</span></a><span class="sd">Each entry of the array belongs to a single structure of observables. Currently, these structures can be either of `Obs`, `list`, `numpy.ndarray`, `Corr`. All `Obs` inside a structure (with dimension &gt; 0) have to be defined on the same set of configurations. Different structures, that are represented by entries of the array `obsdata`, are treated independently. Each entry of the array `obsdata` has the following required entries:</span>
-</span><span id="L-413"><a href="#L-413"><span class="linenos">413</span></a><span class="sd">- `type` is a string that specifies the type of the structure. This allows to parse the content to the correct form after reading the file. It is always possible to interpret the content as list of Obs.</span>
-</span><span id="L-414"><a href="#L-414"><span class="linenos">414</span></a><span class="sd">- `value` is an array that contains the mean values of the Obs inside the structure.</span>
-</span><span id="L-415"><a href="#L-415"><span class="linenos">415</span></a><span class="sd">The following entries are optional:</span>
-</span><span id="L-416"><a href="#L-416"><span class="linenos">416</span></a><span class="sd">- `layout` is a string that specifies the layout of multi-dimensional structures. Examples are &quot;2, 2&quot; for a 2x2 dimensional matrix or  &quot;64, 4, 4&quot; for a Corr with $T=64$ and 4x4 matrices on each time slices. &quot;1&quot; denotes a single Obs. Multi-dimensional structures are stored in row-major format (see below).</span>
-</span><span id="L-417"><a href="#L-417"><span class="linenos">417</span></a><span class="sd">- `tag` is any JSON type. It contains additional information concerning the structure. The `tag` of an `Obs` in `pyerrors` is written here.</span>
-</span><span id="L-418"><a href="#L-418"><span class="linenos">418</span></a><span class="sd">- `reweighted` is a Bool that may be used to specify, whether the `Obs` in the structure have been reweighted.</span>
-</span><span id="L-419"><a href="#L-419"><span class="linenos">419</span></a><span class="sd">- `data` is an array that contains the data from MC chains. We will define it below.</span>
-</span><span id="L-420"><a href="#L-420"><span class="linenos">420</span></a><span class="sd">- `cdata` is an array that contains the data from external quantities with an error (`Covobs` in `pyerrors`). We will define it below.</span>
-</span><span id="L-421"><a href="#L-421"><span class="linenos">421</span></a>
-</span><span id="L-422"><a href="#L-422"><span class="linenos">422</span></a><span class="sd">The array `data` contains the data from MC chains. Each entry of the array corresponds to one ensemble and contains:</span>
-</span><span id="L-423"><a href="#L-423"><span class="linenos">423</span></a><span class="sd">- `id`, a string that contains the name of the ensemble</span>
-</span><span id="L-424"><a href="#L-424"><span class="linenos">424</span></a><span class="sd">- `replica`, an array that contains an entry per replica of the ensemble.</span>
-</span><span id="L-425"><a href="#L-425"><span class="linenos">425</span></a>
-</span><span id="L-426"><a href="#L-426"><span class="linenos">426</span></a><span class="sd">Each entry of `replica` contains</span>
-</span><span id="L-427"><a href="#L-427"><span class="linenos">427</span></a><span class="sd">`name`, a string that contains the name of the replica</span>
-</span><span id="L-428"><a href="#L-428"><span class="linenos">428</span></a><span class="sd">`deltas`, an array that contains the actual data.</span>
-</span><span id="L-429"><a href="#L-429"><span class="linenos">429</span></a>
-</span><span id="L-430"><a href="#L-430"><span class="linenos">430</span></a><span class="sd">Each entry in `deltas` corresponds to one configuration of the replica and has $1+N$ many entries. The first entry is an integer that specifies the configuration number that, together with ensemble and replica name, may be used to uniquely identify the configuration on which the data has been obtained. The following N entries specify the deltas, i.e., the deviation of the observable from the mean value on this configuration, of each `Obs` inside the structure. Multi-dimensional structures are stored in a row-major format. For primary observables, such as correlation functions, $value + delta_i$ matches the primary data obtained on the configuration.</span>
-</span><span id="L-431"><a href="#L-431"><span class="linenos">431</span></a>
-</span><span id="L-432"><a href="#L-432"><span class="linenos">432</span></a><span class="sd">The array `cdata` contains information about the contribution of auxiliary observables, represented by `Covobs` in `pyerrors`, to the total error of the observables. Each entry of the array belongs to one auxiliary covariance matrix and contains:</span>
-</span><span id="L-433"><a href="#L-433"><span class="linenos">433</span></a><span class="sd">- `id`, a string that identifies the covariance matrix</span>
-</span><span id="L-434"><a href="#L-434"><span class="linenos">434</span></a><span class="sd">- `layout`, a string that defines the dimensions of the $M\times M$ covariance matrix (has to be &quot;M, M&quot; or &quot;1&quot;).</span>
-</span><span id="L-435"><a href="#L-435"><span class="linenos">435</span></a><span class="sd">- `cov`, an array that contains the $M\times M$ many entries of the covariance matrix, stored in row-major format.</span>
-</span><span id="L-436"><a href="#L-436"><span class="linenos">436</span></a><span class="sd">- `grad`, an array that contains N entries, one for each `Obs` inside the structure. Each entry itself is an array, that contains the M gradients of the Nth observable  with respect to the quantity that corresponds to the Mth diagonal entry of the covariance matrix.</span>
-</span><span id="L-437"><a href="#L-437"><span class="linenos">437</span></a>
-</span><span id="L-438"><a href="#L-438"><span class="linenos">438</span></a><span class="sd">A JSON schema that may be used to verify the correctness of a file with respect to the format definition is stored in ./examples/json_schema.json. The schema is a self-descriptive format definition and contains an exemplary file.</span>
-</span><span id="L-439"><a href="#L-439"><span class="linenos">439</span></a>
-</span><span id="L-440"><a href="#L-440"><span class="linenos">440</span></a><span class="sd">Julia I/O routines for the json.gz format, compatible with [ADerrors.jl](https://gitlab.ift.uam-csic.es/alberto/aderrors.jl), can be found [here](https://github.com/fjosw/ADjson.jl).</span>
-</span><span id="L-441"><a href="#L-441"><span class="linenos">441</span></a>
-</span><span id="L-442"><a href="#L-442"><span class="linenos">442</span></a><span class="sd"># Citing</span>
-</span><span id="L-443"><a href="#L-443"><span class="linenos">443</span></a><span class="sd">If you use `pyerrors` for research that leads to a publication please consider citing:</span>
-</span><span id="L-444"><a href="#L-444"><span class="linenos">444</span></a><span class="sd">- Ulli Wolff, *Monte Carlo errors with less errors*. Comput.Phys.Commun. 156 (2004) 143-153, Comput.Phys.Commun. 176 (2007) 383 (erratum).</span>
-</span><span id="L-445"><a href="#L-445"><span class="linenos">445</span></a><span class="sd">- Stefan Schaefer, Rainer Sommer, Francesco Virotta, *Critical slowing down and error analysis in lattice QCD simulations*. Nucl.Phys.B 845 (2011) 93-119.</span>
-</span><span id="L-446"><a href="#L-446"><span class="linenos">446</span></a><span class="sd">- Alberto Ramos, *Automatic differentiation for error analysis of Monte Carlo data*. Comput.Phys.Commun. 238 (2019) 19-35.</span>
-</span><span id="L-447"><a href="#L-447"><span class="linenos">447</span></a><span class="sd">&#39;&#39;&#39;</span>
-</span><span id="L-448"><a href="#L-448"><span class="linenos">448</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="o">*</span>
-</span><span id="L-449"><a href="#L-449"><span class="linenos">449</span></a><span class="kn">from</span> <span class="nn">.correlators</span> <span class="kn">import</span> <span class="o">*</span>
-</span><span id="L-450"><a href="#L-450"><span class="linenos">450</span></a><span class="kn">from</span> <span class="nn">.fits</span> <span class="kn">import</span> <span class="o">*</span>
-</span><span id="L-451"><a href="#L-451"><span class="linenos">451</span></a><span class="kn">from</span> <span class="nn">.misc</span> <span class="kn">import</span> <span class="o">*</span>
-</span><span id="L-452"><a href="#L-452"><span class="linenos">452</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">dirac</span>
-</span><span id="L-453"><a href="#L-453"><span class="linenos">453</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="nb">input</span>
-</span><span id="L-454"><a href="#L-454"><span class="linenos">454</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">linalg</span>
-</span><span id="L-455"><a href="#L-455"><span class="linenos">455</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">mpm</span>
-</span><span id="L-456"><a href="#L-456"><span class="linenos">456</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">roots</span>
-</span><span id="L-457"><a href="#L-457"><span class="linenos">457</span></a>
-</span><span id="L-458"><a href="#L-458"><span class="linenos">458</span></a><span class="kn">from</span> <span class="nn">.version</span> <span class="kn">import</span> <span class="n">__version__</span>
+</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a>
+</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a><span class="sd">## Irregular Monte Carlo chains</span>
+</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>
+</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a><span class="sd">`Obs` objects defined on irregular Monte Carlo chains can be initialized with the parameter `idl`.</span>
+</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>
+</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a><span class="sd">```python</span>
+</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a><span class="sd"># Observable defined on configurations 20 to 519</span>
+</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a><span class="sd">obs1 = pe.Obs([samples1], [&#39;ensemble1&#39;], idl=[range(20, 520)])</span>
+</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a><span class="sd">obs1.details()</span>
+</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a><span class="sd">&gt; Result	 9.98319881e-01</span>
+</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a><span class="sd">&gt; 500 samples in 1 ensemble:</span>
+</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble1&#39; : 500 configurations (from 20 to 519)</span>
+</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>
+</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a><span class="sd"># Observable defined on every second configuration between 5 and 1003</span>
+</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a><span class="sd">obs2 = pe.Obs([samples2], [&#39;ensemble1&#39;], idl=[range(5, 1005, 2)])</span>
+</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a><span class="sd">obs2.details()</span>
+</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a><span class="sd">&gt; Result	 9.99100712e-01</span>
+</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a><span class="sd">&gt; 500 samples in 1 ensemble:</span>
+</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble1&#39; : 500 configurations (from 5 to 1003 in steps of 2)</span>
+</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>
+</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a><span class="sd"># Observable defined on configurations 2, 9, 28, 29 and 501</span>
+</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a><span class="sd">obs3 = pe.Obs([samples3], [&#39;ensemble1&#39;], idl=[[2, 9, 28, 29, 501]])</span>
+</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a><span class="sd">obs3.details()</span>
+</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a><span class="sd">&gt; Result	 1.01718064e+00</span>
+</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a><span class="sd">&gt; 5 samples in 1 ensemble:</span>
+</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a><span class="sd">&gt;   · Ensemble &#39;ensemble1&#39; : 5 configurations (irregular range)</span>
+</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>
+</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a><span class="sd">```</span>
+</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>
+</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a><span class="sd">`Obs` objects defined on regular and irregular histories of the same ensemble can be combined with each other and the correct error propagation and estimation is automatically taken care of.</span>
+</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a>
+</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a><span class="sd">**Warning:** Irregular Monte Carlo chains can result in odd patterns in the autocorrelation functions.</span>
+</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a><span class="sd">Make sure to check the autocorrelation time with e.g. `pyerrors.obs.Obs.plot_rho` or `pyerrors.obs.Obs.plot_tauint`.</span>
+</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>
+</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a><span class="sd">For the full API see `pyerrors.obs.Obs`.</span>
+</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a>
+</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a><span class="sd"># Correlators</span>
+</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a><span class="sd">When one is not interested in single observables but correlation functions, `pyerrors` offers the `Corr` class which simplifies the corresponding error propagation and provides the user with a set of standard methods. In order to initialize a `Corr` objects one needs to arrange the data as a list of `Obs`</span>
+</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a><span class="sd">```python</span>
+</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a><span class="sd">my_corr = pe.Corr([obs_0, obs_1, obs_2, obs_3])</span>
+</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a><span class="sd">print(my_corr)</span>
+</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a><span class="sd">&gt; x0/a	Corr(x0/a)</span>
+</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a><span class="sd">&gt; ------------------</span>
+</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a><span class="sd">&gt; 0	 0.7957(80)</span>
+</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a><span class="sd">&gt; 1	 0.5156(51)</span>
+</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a><span class="sd">&gt; 2	 0.3227(33)</span>
+</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a><span class="sd">&gt; 3	 0.2041(21)</span>
+</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a><span class="sd">```</span>
+</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a><span class="sd">In case the correlation functions are not defined on the outermost timeslices, for example because of fixed boundary conditions, a padding can be introduced.</span>
+</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a><span class="sd">```python</span>
+</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a><span class="sd">my_corr = pe.Corr([obs_0, obs_1, obs_2, obs_3], padding=[1, 1])</span>
+</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a><span class="sd">print(my_corr)</span>
+</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a><span class="sd">&gt; x0/a	Corr(x0/a)</span>
+</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a><span class="sd">&gt; ------------------</span>
+</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a><span class="sd">&gt; 0</span>
+</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a><span class="sd">&gt; 1	 0.7957(80)</span>
+</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a><span class="sd">&gt; 2	 0.5156(51)</span>
+</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a><span class="sd">&gt; 3	 0.3227(33)</span>
+</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a><span class="sd">&gt; 4	 0.2041(21)</span>
+</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a><span class="sd">&gt; 5</span>
+</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a><span class="sd">```</span>
+</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a><span class="sd">The individual entries of a correlator can be accessed via slicing</span>
+</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a><span class="sd">```python</span>
+</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a><span class="sd">print(my_corr[3])</span>
+</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a><span class="sd">&gt; 0.3227(33)</span>
+</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a><span class="sd">```</span>
+</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a><span class="sd">Error propagation with the `Corr` class works very similar to `Obs` objects. Mathematical operations are overloaded and `Corr` objects can be computed together with other `Corr` objects, `Obs` objects or real numbers and integers.</span>
+</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a><span class="sd">```python</span>
+</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a><span class="sd">my_new_corr = 0.3 * my_corr[2] * my_corr * my_corr + 12 / my_corr</span>
+</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a><span class="sd">```</span>
+</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>
+</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a><span class="sd">`pyerrors` provides the user with a set of regularly used methods for the manipulation of correlator objects:</span>
+</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a><span class="sd">- `Corr.gamma_method` applies the gamma method to all entries of the correlator.</span>
+</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a><span class="sd">- `Corr.m_eff` to construct effective masses. Various variants for periodic and fixed temporal boundary conditions are available.</span>
+</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a><span class="sd">- `Corr.deriv` returns the first derivative of the correlator as `Corr`. Different discretizations of the numerical derivative are available.</span>
+</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a><span class="sd">- `Corr.second_deriv` returns the second derivative of the correlator as `Corr`. Different discretizations of the numerical derivative are available.</span>
+</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a><span class="sd">- `Corr.symmetric` symmetrizes parity even correlations functions, assuming periodic boundary conditions.</span>
+</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a><span class="sd">- `Corr.anti_symmetric` anti-symmetrizes parity odd correlations functions, assuming periodic boundary conditions.</span>
+</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a><span class="sd">- `Corr.T_symmetry` averages a correlator with its time symmetry partner, assuming fixed boundary conditions.</span>
+</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a><span class="sd">- `Corr.plateau` extracts a plateau value from the correlator in a given range.</span>
+</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a><span class="sd">- `Corr.roll` periodically shifts the correlator.</span>
+</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a><span class="sd">- `Corr.reverse` reverses the time ordering of the correlator.</span>
+</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a><span class="sd">- `Corr.correlate` constructs a disconnected correlation function from the correlator and another `Corr` or `Obs` object.</span>
+</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a><span class="sd">- `Corr.reweight` reweights the correlator.</span>
+</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a>
+</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a><span class="sd">`pyerrors` can also handle matrices of correlation functions and extract energy states from these matrices via a generalized eigenvalue problem (see `pyerrors.correlators.Corr.GEVP`).</span>
+</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>
+</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a><span class="sd">For the full API see `pyerrors.correlators.Corr`.</span>
+</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>
+</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a><span class="sd"># Complex valued observables</span>
+</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>
+</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a><span class="sd">`pyerrors` can handle complex valued observables via the class `pyerrors.obs.CObs`.</span>
+</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a><span class="sd">`CObs` are initialized with a real and an imaginary part which both can be `Obs` valued.</span>
+</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>
+</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a><span class="sd">```python</span>
+</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a><span class="sd">my_real_part = pe.Obs([samples1], [&#39;ensemble1&#39;])</span>
+</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a><span class="sd">my_imag_part = pe.Obs([samples2], [&#39;ensemble1&#39;])</span>
+</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>
+</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a><span class="sd">my_cobs = pe.CObs(my_real_part, my_imag_part)</span>
+</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a><span class="sd">my_cobs.gamma_method()</span>
+</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a><span class="sd">print(my_cobs)</span>
+</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a><span class="sd">&gt; (0.9959(91)+0.659(28)j)</span>
+</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a><span class="sd">```</span>
+</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>
+</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a><span class="sd">Elementary mathematical operations are overloaded and samples are properly propagated as for the `Obs` class.</span>
+</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a><span class="sd">```python</span>
+</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a><span class="sd">my_derived_cobs = (my_cobs + my_cobs.conjugate()) / np.abs(my_cobs)</span>
+</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a><span class="sd">my_derived_cobs.gamma_method()</span>
+</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a><span class="sd">print(my_derived_cobs)</span>
+</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a><span class="sd">&gt; (1.668(23)+0.0j)</span>
+</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a><span class="sd">```</span>
+</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>
+</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a><span class="sd"># The `Covobs` class</span>
+</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a><span class="sd">In many projects, auxiliary data that is not based on Monte Carlo chains enters. Examples are experimentally determined mesons masses which are used to set the scale or renormalization constants. These numbers come with an error that has to be propagated through the analysis. The `Covobs` class allows to define such quantities in `pyerrors`. Furthermore, external input might consist of correlated quantities. An example are the parameters of an interpolation formula, which are defined via mean values and a covariance matrix between all parameters. The contribution of the interpolation formula to the error of a derived quantity therefore might depend on the complete covariance matrix.</span>
+</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>
+</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a><span class="sd">This concept is built into the definition of `Covobs`. In `pyerrors`, external input is defined by $M$ mean values, a $M\times M$ covariance matrix, where $M=1$ is permissible, and a name that uniquely identifies the covariance matrix. Below, we define the pion mass, based on its mean value and error, 134.9768(5). Note, that the square of the error enters `cov_Obs`, since the second argument of this function is the covariance matrix of the `Covobs`.</span>
+</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>
+</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a><span class="sd">```python</span>
+</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a><span class="sd">import pyerrors.obs as pe</span>
+</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>
+</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a><span class="sd">mpi = pe.cov_Obs(134.9768, 0.0005**2, &#39;pi^0 mass&#39;)</span>
+</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a><span class="sd">mpi.gamma_method()</span>
+</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a><span class="sd">mpi.details()</span>
+</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a><span class="sd">&gt; Result	 1.34976800e+02 +/- 5.00000000e-04 +/- 0.00000000e+00 (0.000%)</span>
+</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a><span class="sd">&gt;  pi^0 mass 	 5.00000000e-04</span>
+</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a><span class="sd">&gt; 0 samples in 1 ensemble:</span>
+</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a><span class="sd">&gt;   · Covobs   &#39;pi^0 mass&#39;</span>
+</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a><span class="sd">```</span>
+</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a><span class="sd">The resulting object `mpi` is an `Obs` that contains a `Covobs`. In the following, it may be handled as any other `Obs`. The contribution of the covariance matrix to the error of an `Obs` is determined from the $M \times M$ covariance matrix $\Sigma$ and the gradient of the `Obs` with respect to the external quantities, which is the $1\times M$ Jacobian matrix $J$, via</span>
+</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a><span class="sd">$$s = \sqrt{J^T \Sigma J}\,,$$</span>
+</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a><span class="sd">where the Jacobian is computed for each derived quantity via automatic differentiation.</span>
+</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>
+</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a><span class="sd">Correlated auxiliary data is defined similarly to above, e.g., via</span>
+</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a><span class="sd">```python</span>
+</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a><span class="sd">RAP = pe.cov_Obs([16.7457, -19.0475], [[3.49591, -6.07560], [-6.07560, 10.5834]], &#39;R_AP, 1906.03445, (5.3a)&#39;)</span>
+</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a><span class="sd">print(RAP)</span>
+</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a><span class="sd">&gt; [Obs[16.7(1.9)], Obs[-19.0(3.3)]]</span>
+</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a><span class="sd">```</span>
+</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a><span class="sd">where `RAP` now is a list of two `Obs` that contains the two correlated parameters.</span>
+</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a>
+</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a><span class="sd">Since the gradient of a derived observable with respect to an external covariance matrix is propagated through the entire analysis, the `Covobs` class allows to quote the derivative of a result with respect to the external quantities. If these derivatives are published together with the result, small shifts in the definition of external quantities, e.g., the definition of the physical point, can be performed a posteriori based on the published information. This may help to compare results of different groups. The gradient of an `Obs` `o` with respect to a covariance matrix with the identifying string `k` may be accessed via</span>
+</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a><span class="sd">```python</span>
+</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a><span class="sd">o.covobs[k].grad</span>
+</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a><span class="sd">```</span>
+</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a>
+</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a><span class="sd"># Error propagation in iterative algorithms</span>
+</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a>
+</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a><span class="sd">`pyerrors` supports exact linear error propagation for iterative algorithms like various variants of non-linear least sqaures fits or root finding. The derivatives required for the error propagation are calculated as described in [arXiv:1809.01289](https://arxiv.org/abs/1809.01289).</span>
+</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>
+</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a><span class="sd">## Least squares fits</span>
+</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>
+</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a><span class="sd">Standard non-linear least square fits with errors on the dependent but not the independent variables can be performed with `pyerrors.fits.least_squares`. As default solver the Levenberg-Marquardt algorithm implemented in [scipy](https://docs.scipy.org/doc/scipy/reference/generated/scipy.optimize.least_squares.html) is used.</span>
+</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>
+</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a><span class="sd">Fit functions have to be of the following form</span>
+</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a><span class="sd">```python</span>
+</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a><span class="sd">import autograd.numpy as anp</span>
+</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>
+</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a><span class="sd">def func(a, x):</span>
+</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a><span class="sd">    return a[1] * anp.exp(-a[0] * x)</span>
+</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a><span class="sd">```</span>
+</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a><span class="sd">**It is important that numerical functions refer to `autograd.numpy` instead of `numpy` for the automatic differentiation in iterative algorithms to work properly.**</span>
+</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>
+</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a><span class="sd">Fits can then be performed via</span>
+</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a><span class="sd">```python</span>
+</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a><span class="sd">fit_result = pe.fits.least_squares(x, y, func)</span>
+</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a><span class="sd">print(&quot;\n&quot;, fit_result)</span>
+</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a><span class="sd">&gt; Fit with 2 parameters</span>
+</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a><span class="sd">&gt; Method: Levenberg-Marquardt</span>
+</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a><span class="sd">&gt; `ftol` termination condition is satisfied.</span>
+</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a><span class="sd">&gt; chisquare/d.o.f.: 0.9593035785160936</span>
+</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>
+</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a><span class="sd">&gt;  Goodness of fit:</span>
+</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a><span class="sd">&gt; χ²/d.o.f. = 0.959304</span>
+</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a><span class="sd">&gt; p-value   = 0.5673</span>
+</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a><span class="sd">&gt; Fit parameters:</span>
+</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a><span class="sd">&gt; 0	 0.0548(28)</span>
+</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a><span class="sd">&gt; 1	 1.933(64)</span>
+</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a><span class="sd">```</span>
+</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a><span class="sd">where x is a `list` or `numpy.array` of `floats` and y is a `list` or `numpy.array` of `Obs`.</span>
+</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>
+</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a><span class="sd">Data stored in `Corr` objects can be fitted directly using the `Corr.fit` method.</span>
+</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a><span class="sd">```python</span>
+</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a><span class="sd">my_corr = pe.Corr(y)</span>
+</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a><span class="sd">fit_result = my_corr.fit(func, fitrange=[12, 25])</span>
+</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a><span class="sd">```</span>
+</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a><span class="sd">this can simplify working with absolute fit ranges and takes care of gaps in the data automatically.</span>
+</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>
+</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a><span class="sd">For fit functions with multiple independent variables the fit function can be of the form</span>
+</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>
+</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a><span class="sd">```python</span>
+</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a><span class="sd">def func(a, x):</span>
+</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a><span class="sd">    (x1, x2) = x</span>
+</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a><span class="sd">    return a[0] * x1 ** 2 + a[1] * x2</span>
+</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a><span class="sd">```</span>
+</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>
+</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a><span class="sd">`pyerrors` also supports correlated fits which can be triggered via the parameter `correlated_fit=True`.</span>
+</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a><span class="sd">Details about how the required covariance matrix is estimated can be found in `pyerrors.obs.covariance`.</span>
+</span><span id="L-358"><a href="#L-358"><span class="linenos">358</span></a>
+</span><span id="L-359"><a href="#L-359"><span class="linenos">359</span></a><span class="sd">Direct visualizations of the performed fits can be triggered via `resplot=True` or `qqplot=True`. For all available options see `pyerrors.fits.least_squares`.</span>
+</span><span id="L-360"><a href="#L-360"><span class="linenos">360</span></a>
+</span><span id="L-361"><a href="#L-361"><span class="linenos">361</span></a><span class="sd">## Total least squares fits</span>
+</span><span id="L-362"><a href="#L-362"><span class="linenos">362</span></a><span class="sd">`pyerrors` can also fit data with errors on both the dependent and independent variables using the total least squares method also referred to orthogonal distance regression as implemented in [scipy](https://docs.scipy.org/doc/scipy/reference/odr.html), see `pyerrors.fits.least_squares`. The syntax is identical to the standard least squares case, the only diffrence being that `x` also has to be a `list` or `numpy.array` of `Obs`.</span>
+</span><span id="L-363"><a href="#L-363"><span class="linenos">363</span></a>
+</span><span id="L-364"><a href="#L-364"><span class="linenos">364</span></a><span class="sd">For the full API see `pyerrors.fits` for fits and `pyerrors.roots` for finding roots of functions.</span>
+</span><span id="L-365"><a href="#L-365"><span class="linenos">365</span></a>
+</span><span id="L-366"><a href="#L-366"><span class="linenos">366</span></a><span class="sd"># Matrix operations</span>
+</span><span id="L-367"><a href="#L-367"><span class="linenos">367</span></a><span class="sd">`pyerrors` provides wrappers for `Obs`- and `CObs`-valued matrix operations based on `numpy.linalg`. The supported functions include:</span>
+</span><span id="L-368"><a href="#L-368"><span class="linenos">368</span></a><span class="sd">- `inv` for the matrix inverse.</span>
+</span><span id="L-369"><a href="#L-369"><span class="linenos">369</span></a><span class="sd">- `cholseky` for the Cholesky decomposition.</span>
+</span><span id="L-370"><a href="#L-370"><span class="linenos">370</span></a><span class="sd">- `det` for the matrix determinant.</span>
+</span><span id="L-371"><a href="#L-371"><span class="linenos">371</span></a><span class="sd">- `eigh` for eigenvalues and eigenvectors of hermitean matrices.</span>
+</span><span id="L-372"><a href="#L-372"><span class="linenos">372</span></a><span class="sd">- `eig` for eigenvalues of general matrices.</span>
+</span><span id="L-373"><a href="#L-373"><span class="linenos">373</span></a><span class="sd">- `pinv` for the Moore-Penrose pseudoinverse.</span>
+</span><span id="L-374"><a href="#L-374"><span class="linenos">374</span></a><span class="sd">- `svd` for the singular-value-decomposition.</span>
+</span><span id="L-375"><a href="#L-375"><span class="linenos">375</span></a>
+</span><span id="L-376"><a href="#L-376"><span class="linenos">376</span></a><span class="sd">For the full API see `pyerrors.linalg`.</span>
+</span><span id="L-377"><a href="#L-377"><span class="linenos">377</span></a>
+</span><span id="L-378"><a href="#L-378"><span class="linenos">378</span></a><span class="sd"># Export data</span>
+</span><span id="L-379"><a href="#L-379"><span class="linenos">379</span></a>
+</span><span id="L-380"><a href="#L-380"><span class="linenos">380</span></a><span class="sd">The preferred exported file format within `pyerrors` is json.gz. Files written to this format are valid JSON files that have been compressed using gzip. The structure of the content is inspired by the dobs format of the ALPHA collaboration. The aim of the format is to facilitate the storage of data in a self-contained way such that, even years after the creation of the file, it is possible to extract all necessary information:</span>
+</span><span id="L-381"><a href="#L-381"><span class="linenos">381</span></a><span class="sd">- What observables are stored? Possibly: How exactly are they defined.</span>
+</span><span id="L-382"><a href="#L-382"><span class="linenos">382</span></a><span class="sd">- How does each single ensemble or external quantity contribute to the error of the observable?</span>
+</span><span id="L-383"><a href="#L-383"><span class="linenos">383</span></a><span class="sd">- Who did write the file when and on which machine?</span>
+</span><span id="L-384"><a href="#L-384"><span class="linenos">384</span></a>
+</span><span id="L-385"><a href="#L-385"><span class="linenos">385</span></a><span class="sd">This can be achieved by storing all information in one single file. The export routines of `pyerrors` are written such that as much information as possible is written automatically as described in the following example</span>
+</span><span id="L-386"><a href="#L-386"><span class="linenos">386</span></a><span class="sd">```python</span>
+</span><span id="L-387"><a href="#L-387"><span class="linenos">387</span></a><span class="sd">my_obs = pe.Obs([samples], [&quot;test_ensemble&quot;])</span>
+</span><span id="L-388"><a href="#L-388"><span class="linenos">388</span></a><span class="sd">my_obs.tag = &quot;My observable&quot;</span>
+</span><span id="L-389"><a href="#L-389"><span class="linenos">389</span></a>
+</span><span id="L-390"><a href="#L-390"><span class="linenos">390</span></a><span class="sd">pe.input.json.dump_to_json(my_obs, &quot;test_output_file&quot;, description=&quot;This file contains a test observable&quot;)</span>
+</span><span id="L-391"><a href="#L-391"><span class="linenos">391</span></a><span class="sd"># For a single observable one can equivalently use the class method dump</span>
+</span><span id="L-392"><a href="#L-392"><span class="linenos">392</span></a><span class="sd">my_obs.dump(&quot;test_output_file&quot;, description=&quot;This file contains a test observable&quot;)</span>
+</span><span id="L-393"><a href="#L-393"><span class="linenos">393</span></a>
+</span><span id="L-394"><a href="#L-394"><span class="linenos">394</span></a><span class="sd">check = pe.input.json.load_json(&quot;test_output_file&quot;)</span>
+</span><span id="L-395"><a href="#L-395"><span class="linenos">395</span></a>
+</span><span id="L-396"><a href="#L-396"><span class="linenos">396</span></a><span class="sd">print(my_obs == check)</span>
+</span><span id="L-397"><a href="#L-397"><span class="linenos">397</span></a><span class="sd">&gt; True</span>
+</span><span id="L-398"><a href="#L-398"><span class="linenos">398</span></a><span class="sd">```</span>
+</span><span id="L-399"><a href="#L-399"><span class="linenos">399</span></a><span class="sd">The format also allows to directly write out the content of `Corr` objects or lists and arrays of `Obs` objects by passing the desired data to `pyerrors.input.json.dump_to_json`.</span>
+</span><span id="L-400"><a href="#L-400"><span class="linenos">400</span></a>
+</span><span id="L-401"><a href="#L-401"><span class="linenos">401</span></a><span class="sd">## json.gz format specification</span>
+</span><span id="L-402"><a href="#L-402"><span class="linenos">402</span></a><span class="sd">The first entries of the file provide optional auxiliary information:</span>
+</span><span id="L-403"><a href="#L-403"><span class="linenos">403</span></a><span class="sd">- `program` is a string that indicates which program was used to write the file.</span>
+</span><span id="L-404"><a href="#L-404"><span class="linenos">404</span></a><span class="sd">- `version` is a string that specifies the version of the format.</span>
+</span><span id="L-405"><a href="#L-405"><span class="linenos">405</span></a><span class="sd">- `who` is a string that specifies the user name of the creator of the file.</span>
+</span><span id="L-406"><a href="#L-406"><span class="linenos">406</span></a><span class="sd">- `date` is a string and contains the creation date of the file.</span>
+</span><span id="L-407"><a href="#L-407"><span class="linenos">407</span></a><span class="sd">- `host` is a string and contains the hostname of the machine where the file has been written.</span>
+</span><span id="L-408"><a href="#L-408"><span class="linenos">408</span></a><span class="sd">- `description` contains information on the content of the file. This field is not filled automatically in `pyerrors`. The user is advised to provide as detailed information as possible in this field. Examples are: Input files of measurements or simulations, LaTeX formulae or references to publications to specify how the observables have been computed, details on the analysis strategy, ... This field may be any valid JSON type. Strings, arrays or objects (equivalent to dicts in python) are well suited to provide information.</span>
+</span><span id="L-409"><a href="#L-409"><span class="linenos">409</span></a>
+</span><span id="L-410"><a href="#L-410"><span class="linenos">410</span></a><span class="sd">The only necessary entry of the file is the field</span>
+</span><span id="L-411"><a href="#L-411"><span class="linenos">411</span></a><span class="sd">-`obsdata`, an array that contains the actual data.</span>
+</span><span id="L-412"><a href="#L-412"><span class="linenos">412</span></a>
+</span><span id="L-413"><a href="#L-413"><span class="linenos">413</span></a><span class="sd">Each entry of the array belongs to a single structure of observables. Currently, these structures can be either of `Obs`, `list`, `numpy.ndarray`, `Corr`. All `Obs` inside a structure (with dimension &gt; 0) have to be defined on the same set of configurations. Different structures, that are represented by entries of the array `obsdata`, are treated independently. Each entry of the array `obsdata` has the following required entries:</span>
+</span><span id="L-414"><a href="#L-414"><span class="linenos">414</span></a><span class="sd">- `type` is a string that specifies the type of the structure. This allows to parse the content to the correct form after reading the file. It is always possible to interpret the content as list of Obs.</span>
+</span><span id="L-415"><a href="#L-415"><span class="linenos">415</span></a><span class="sd">- `value` is an array that contains the mean values of the Obs inside the structure.</span>
+</span><span id="L-416"><a href="#L-416"><span class="linenos">416</span></a><span class="sd">The following entries are optional:</span>
+</span><span id="L-417"><a href="#L-417"><span class="linenos">417</span></a><span class="sd">- `layout` is a string that specifies the layout of multi-dimensional structures. Examples are &quot;2, 2&quot; for a 2x2 dimensional matrix or  &quot;64, 4, 4&quot; for a Corr with $T=64$ and 4x4 matrices on each time slices. &quot;1&quot; denotes a single Obs. Multi-dimensional structures are stored in row-major format (see below).</span>
+</span><span id="L-418"><a href="#L-418"><span class="linenos">418</span></a><span class="sd">- `tag` is any JSON type. It contains additional information concerning the structure. The `tag` of an `Obs` in `pyerrors` is written here.</span>
+</span><span id="L-419"><a href="#L-419"><span class="linenos">419</span></a><span class="sd">- `reweighted` is a Bool that may be used to specify, whether the `Obs` in the structure have been reweighted.</span>
+</span><span id="L-420"><a href="#L-420"><span class="linenos">420</span></a><span class="sd">- `data` is an array that contains the data from MC chains. We will define it below.</span>
+</span><span id="L-421"><a href="#L-421"><span class="linenos">421</span></a><span class="sd">- `cdata` is an array that contains the data from external quantities with an error (`Covobs` in `pyerrors`). We will define it below.</span>
+</span><span id="L-422"><a href="#L-422"><span class="linenos">422</span></a>
+</span><span id="L-423"><a href="#L-423"><span class="linenos">423</span></a><span class="sd">The array `data` contains the data from MC chains. Each entry of the array corresponds to one ensemble and contains:</span>
+</span><span id="L-424"><a href="#L-424"><span class="linenos">424</span></a><span class="sd">- `id`, a string that contains the name of the ensemble</span>
+</span><span id="L-425"><a href="#L-425"><span class="linenos">425</span></a><span class="sd">- `replica`, an array that contains an entry per replica of the ensemble.</span>
+</span><span id="L-426"><a href="#L-426"><span class="linenos">426</span></a>
+</span><span id="L-427"><a href="#L-427"><span class="linenos">427</span></a><span class="sd">Each entry of `replica` contains</span>
+</span><span id="L-428"><a href="#L-428"><span class="linenos">428</span></a><span class="sd">`name`, a string that contains the name of the replica</span>
+</span><span id="L-429"><a href="#L-429"><span class="linenos">429</span></a><span class="sd">`deltas`, an array that contains the actual data.</span>
+</span><span id="L-430"><a href="#L-430"><span class="linenos">430</span></a>
+</span><span id="L-431"><a href="#L-431"><span class="linenos">431</span></a><span class="sd">Each entry in `deltas` corresponds to one configuration of the replica and has $1+N$ many entries. The first entry is an integer that specifies the configuration number that, together with ensemble and replica name, may be used to uniquely identify the configuration on which the data has been obtained. The following N entries specify the deltas, i.e., the deviation of the observable from the mean value on this configuration, of each `Obs` inside the structure. Multi-dimensional structures are stored in a row-major format. For primary observables, such as correlation functions, $value + delta_i$ matches the primary data obtained on the configuration.</span>
+</span><span id="L-432"><a href="#L-432"><span class="linenos">432</span></a>
+</span><span id="L-433"><a href="#L-433"><span class="linenos">433</span></a><span class="sd">The array `cdata` contains information about the contribution of auxiliary observables, represented by `Covobs` in `pyerrors`, to the total error of the observables. Each entry of the array belongs to one auxiliary covariance matrix and contains:</span>
+</span><span id="L-434"><a href="#L-434"><span class="linenos">434</span></a><span class="sd">- `id`, a string that identifies the covariance matrix</span>
+</span><span id="L-435"><a href="#L-435"><span class="linenos">435</span></a><span class="sd">- `layout`, a string that defines the dimensions of the $M\times M$ covariance matrix (has to be &quot;M, M&quot; or &quot;1&quot;).</span>
+</span><span id="L-436"><a href="#L-436"><span class="linenos">436</span></a><span class="sd">- `cov`, an array that contains the $M\times M$ many entries of the covariance matrix, stored in row-major format.</span>
+</span><span id="L-437"><a href="#L-437"><span class="linenos">437</span></a><span class="sd">- `grad`, an array that contains N entries, one for each `Obs` inside the structure. Each entry itself is an array, that contains the M gradients of the Nth observable  with respect to the quantity that corresponds to the Mth diagonal entry of the covariance matrix.</span>
+</span><span id="L-438"><a href="#L-438"><span class="linenos">438</span></a>
+</span><span id="L-439"><a href="#L-439"><span class="linenos">439</span></a><span class="sd">A JSON schema that may be used to verify the correctness of a file with respect to the format definition is stored in ./examples/json_schema.json. The schema is a self-descriptive format definition and contains an exemplary file.</span>
+</span><span id="L-440"><a href="#L-440"><span class="linenos">440</span></a>
+</span><span id="L-441"><a href="#L-441"><span class="linenos">441</span></a><span class="sd">Julia I/O routines for the json.gz format, compatible with [ADerrors.jl](https://gitlab.ift.uam-csic.es/alberto/aderrors.jl), can be found [here](https://github.com/fjosw/ADjson.jl).</span>
+</span><span id="L-442"><a href="#L-442"><span class="linenos">442</span></a>
+</span><span id="L-443"><a href="#L-443"><span class="linenos">443</span></a><span class="sd"># Citing</span>
+</span><span id="L-444"><a href="#L-444"><span class="linenos">444</span></a><span class="sd">If you use `pyerrors` for research that leads to a publication please consider citing:</span>
+</span><span id="L-445"><a href="#L-445"><span class="linenos">445</span></a><span class="sd">- Ulli Wolff, *Monte Carlo errors with less errors*. Comput.Phys.Commun. 156 (2004) 143-153, Comput.Phys.Commun. 176 (2007) 383 (erratum).</span>
+</span><span id="L-446"><a href="#L-446"><span class="linenos">446</span></a><span class="sd">- Stefan Schaefer, Rainer Sommer, Francesco Virotta, *Critical slowing down and error analysis in lattice QCD simulations*. Nucl.Phys.B 845 (2011) 93-119.</span>
+</span><span id="L-447"><a href="#L-447"><span class="linenos">447</span></a><span class="sd">- Alberto Ramos, *Automatic differentiation for error analysis of Monte Carlo data*. Comput.Phys.Commun. 238 (2019) 19-35.</span>
+</span><span id="L-448"><a href="#L-448"><span class="linenos">448</span></a><span class="sd">&#39;&#39;&#39;</span>
+</span><span id="L-449"><a href="#L-449"><span class="linenos">449</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="o">*</span>
+</span><span id="L-450"><a href="#L-450"><span class="linenos">450</span></a><span class="kn">from</span> <span class="nn">.correlators</span> <span class="kn">import</span> <span class="o">*</span>
+</span><span id="L-451"><a href="#L-451"><span class="linenos">451</span></a><span class="kn">from</span> <span class="nn">.fits</span> <span class="kn">import</span> <span class="o">*</span>
+</span><span id="L-452"><a href="#L-452"><span class="linenos">452</span></a><span class="kn">from</span> <span class="nn">.misc</span> <span class="kn">import</span> <span class="o">*</span>
+</span><span id="L-453"><a href="#L-453"><span class="linenos">453</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">dirac</span>
+</span><span id="L-454"><a href="#L-454"><span class="linenos">454</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="nb">input</span>
+</span><span id="L-455"><a href="#L-455"><span class="linenos">455</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">linalg</span>
+</span><span id="L-456"><a href="#L-456"><span class="linenos">456</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">mpm</span>
+</span><span id="L-457"><a href="#L-457"><span class="linenos">457</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">roots</span>
+</span><span id="L-458"><a href="#L-458"><span class="linenos">458</span></a>
+</span><span id="L-459"><a href="#L-459"><span class="linenos">459</span></a><span class="kn">from</span> <span class="nn">.version</span> <span class="kn">import</span> <span class="n">__version__</span>
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     <title>pyerrors.correlators API documentation</title>
 
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@@ -208,2429 +208,2429 @@
 <a href="./../pyerrors.html">pyerrors</a><wbr>.correlators    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">   0</span></a><span class="kn">import</span> <span class="nn">warnings</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">   1</span></a><span class="kn">from</span> <span class="nn">itertools</span> <span class="kn">import</span> <span class="n">permutations</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">   2</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">   3</span></a><span class="kn">import</span> <span class="nn">autograd.numpy</span> <span class="k">as</span> <span class="nn">anp</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos">   4</span></a><span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="k">as</span> <span class="nn">plt</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">   5</span></a><span class="kn">import</span> <span class="nn">scipy.linalg</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">   6</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="n">Obs</span><span class="p">,</span> <span class="n">reweight</span><span class="p">,</span> <span class="n">correlate</span><span class="p">,</span> <span class="n">CObs</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos">   7</span></a><span class="kn">from</span> <span class="nn">.misc</span> <span class="kn">import</span> <span class="n">dump_object</span><span class="p">,</span> <span class="n">_assert_equal_properties</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">   8</span></a><span class="kn">from</span> <span class="nn">.fits</span> <span class="kn">import</span> <span class="n">least_squares</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">   9</span></a><span class="kn">from</span> <span class="nn">.roots</span> <span class="kn">import</span> <span class="n">find_root</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos">  10</span></a>
+                        <input id="correlators-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="correlators-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">   1</span></a><span class="kn">import</span> <span class="nn">warnings</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">   2</span></a><span class="kn">from</span> <span class="nn">itertools</span> <span class="kn">import</span> <span class="n">permutations</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">   3</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos">   4</span></a><span class="kn">import</span> <span class="nn">autograd.numpy</span> <span class="k">as</span> <span class="nn">anp</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">   5</span></a><span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="k">as</span> <span class="nn">plt</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">   6</span></a><span class="kn">import</span> <span class="nn">scipy.linalg</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos">   7</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="n">Obs</span><span class="p">,</span> <span class="n">reweight</span><span class="p">,</span> <span class="n">correlate</span><span class="p">,</span> <span class="n">CObs</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">   8</span></a><span class="kn">from</span> <span class="nn">.misc</span> <span class="kn">import</span> <span class="n">dump_object</span><span class="p">,</span> <span class="n">_assert_equal_properties</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">   9</span></a><span class="kn">from</span> <span class="nn">.fits</span> <span class="kn">import</span> <span class="n">least_squares</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos">  10</span></a><span class="kn">from</span> <span class="nn">.roots</span> <span class="kn">import</span> <span class="n">find_root</span>
 </span><span id="L-11"><a href="#L-11"><span class="linenos">  11</span></a>
-</span><span id="L-12"><a href="#L-12"><span class="linenos">  12</span></a><span class="k">class</span> <span class="nc">Corr</span><span class="p">:</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos">  13</span></a>    <span class="sd">&quot;&quot;&quot;The class for a correlator (time dependent sequence of pe.Obs).</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos">  14</span></a>
-</span><span id="L-15"><a href="#L-15"><span class="linenos">  15</span></a><span class="sd">    Everything, this class does, can be achieved using lists or arrays of Obs.</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos">  16</span></a><span class="sd">    But it is simply more convenient to have a dedicated object for correlators.</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos">  17</span></a><span class="sd">    One often wants to add or multiply correlators of the same length at every timeslice and it is inconvenient</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos">  18</span></a><span class="sd">    to iterate over all timeslices for every operation. This is especially true, when dealing with matrices.</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos">  19</span></a>
-</span><span id="L-20"><a href="#L-20"><span class="linenos">  20</span></a><span class="sd">    The correlator can have two types of content: An Obs at every timeslice OR a GEVP</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos">  21</span></a><span class="sd">    matrix at every timeslice. Other dependency (eg. spatial) are not supported.</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos">  22</span></a>
-</span><span id="L-23"><a href="#L-23"><span class="linenos">  23</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos">  24</span></a>
-</span><span id="L-25"><a href="#L-25"><span class="linenos">  25</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data_input</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="n">prange</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos">  26</span></a>        <span class="sd">&quot;&quot;&quot; Initialize a Corr object.</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos">  27</span></a>
-</span><span id="L-28"><a href="#L-28"><span class="linenos">  28</span></a><span class="sd">        Parameters</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos">  29</span></a><span class="sd">        ----------</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos">  30</span></a><span class="sd">        data_input : list or array</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos">  31</span></a><span class="sd">            list of Obs or list of arrays of Obs or array of Corrs</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos">  32</span></a><span class="sd">        padding : list, optional</span>
-</span><span id="L-33"><a href="#L-33"><span class="linenos">  33</span></a><span class="sd">            List with two entries where the first labels the padding</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos">  34</span></a><span class="sd">            at the front of the correlator and the second the padding</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos">  35</span></a><span class="sd">            at the back.</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos">  36</span></a><span class="sd">        prange : list, optional</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos">  37</span></a><span class="sd">            List containing the first and last timeslice of the plateau</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos">  38</span></a><span class="sd">            region indentified for this correlator.</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos">  39</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos">  40</span></a>
-</span><span id="L-41"><a href="#L-41"><span class="linenos">  41</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data_input</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos">  42</span></a>
-</span><span id="L-43"><a href="#L-43"><span class="linenos">  43</span></a>            <span class="c1"># This only works, if the array fulfills the conditions below</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos">  44</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span> <span class="ow">and</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos">  45</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Incompatible array shape&quot;</span><span class="p">)</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos">  46</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">Corr</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
-</span><span id="L-47"><a href="#L-47"><span class="linenos">  47</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;If the input is an array, its elements must be of type pe.Corr&quot;</span><span class="p">)</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos">  48</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos">  49</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only construct matrix correlator from single valued correlators&quot;</span><span class="p">)</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos">  50</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">T</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]))</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos">  51</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All input Correlators must be defined over the same timeslices.&quot;</span><span class="p">)</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos">  52</span></a>
-</span><span id="L-53"><a href="#L-53"><span class="linenos">  53</span></a>            <span class="n">T</span> <span class="o">=</span> <span class="n">data_input</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">T</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos">  54</span></a>            <span class="n">N</span> <span class="o">=</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-55"><a href="#L-55"><span class="linenos">  55</span></a>            <span class="n">input_as_list</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos">  56</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos">  57</span></a>                <span class="k">if</span> <span class="nb">any</span><span class="p">([(</span><span class="n">item</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
-</span><span id="L-58"><a href="#L-58"><span class="linenos">  58</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([(</span><span class="n">item</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos">  59</span></a>                        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Input ill-defined at different timeslices. Conversion leads to data loss!&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-60"><a href="#L-60"><span class="linenos">  60</span></a>                    <span class="n">input_as_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos">  61</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos">  62</span></a>                    <span class="n">array_at_timeslace</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;object&quot;</span><span class="p">)</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos">  63</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-64"><a href="#L-64"><span class="linenos">  64</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos">  65</span></a>                            <span class="n">array_at_timeslace</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">data_input</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">][</span><span class="n">t</span><span class="p">]</span>
-</span><span id="L-66"><a href="#L-66"><span class="linenos">  66</span></a>                    <span class="n">input_as_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">array_at_timeslace</span><span class="p">)</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos">  67</span></a>            <span class="n">data_input</span> <span class="o">=</span> <span class="n">input_as_list</span>
-</span><span id="L-68"><a href="#L-68"><span class="linenos">  68</span></a>
-</span><span id="L-69"><a href="#L-69"><span class="linenos">  69</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data_input</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos">  70</span></a>
-</span><span id="L-71"><a href="#L-71"><span class="linenos">  71</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">))</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos">  72</span></a>                <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">data_input</span><span class="p">)</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos">  73</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">item</span><span class="p">])</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos">  74</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">))</span> <span class="ow">or</span> <span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos">  75</span></a>                <span class="n">_assert_equal_properties</span><span class="p">([</span><span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">data_input</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span>
-</span><span id="L-76"><a href="#L-76"><span class="linenos">  76</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">item</span><span class="p">])</span> <span class="k">if</span> <span class="n">item</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos">  77</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos">  78</span></a>
-</span><span id="L-79"><a href="#L-79"><span class="linenos">  79</span></a>            <span class="k">elif</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span> <span class="ow">or</span> <span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">])</span> <span class="ow">and</span> <span class="nb">any</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos">  80</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="n">data_input</span>
-</span><span id="L-81"><a href="#L-81"><span class="linenos">  81</span></a>                <span class="n">noNull</span> <span class="o">=</span> <span class="p">[</span><span class="n">a</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">a</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)]</span>  <span class="c1"># To check if the matrices are correct for all undefined elements</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos">  82</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos">  83</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">!=</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos">  84</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Smearing matrices are not NxN&quot;</span><span class="p">)</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos">  85</span></a>                <span class="k">if</span> <span class="p">(</span><span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">noNull</span><span class="p">])):</span>
-</span><span id="L-86"><a href="#L-86"><span class="linenos">  86</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Items in data_input are not of identical shape.&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noNull</span><span class="p">))</span>
-</span><span id="L-87"><a href="#L-87"><span class="linenos">  87</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos">  88</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;data_input contains item of wrong type&quot;</span><span class="p">)</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos">  89</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos">  90</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Data input was not given as list or correct array&quot;</span><span class="p">)</span>
-</span><span id="L-91"><a href="#L-91"><span class="linenos">  91</span></a>
-</span><span id="L-92"><a href="#L-92"><span class="linenos">  92</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-93"><a href="#L-93"><span class="linenos">  93</span></a>
-</span><span id="L-94"><a href="#L-94"><span class="linenos">  94</span></a>        <span class="c1"># An undefined timeslice is represented by the None object</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos">  95</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">padding</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">+</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">padding</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-96"><a href="#L-96"><span class="linenos">  96</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos">  97</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">prange</span>
-</span><span id="L-98"><a href="#L-98"><span class="linenos">  98</span></a>
-</span><span id="L-99"><a href="#L-99"><span class="linenos">  99</span></a>    <span class="k">def</span> <span class="fm">__getitem__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">idx</span><span class="p">):</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos"> 100</span></a>        <span class="sd">&quot;&quot;&quot;Return the content of timeslice idx&quot;&quot;&quot;</span>
-</span><span id="L-101"><a href="#L-101"><span class="linenos"> 101</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos"> 102</span></a>            <span class="k">return</span> <span class="kc">None</span>
-</span><span id="L-103"><a href="#L-103"><span class="linenos"> 103</span></a>        <span class="k">elif</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-104"><a href="#L-104"><span class="linenos"> 104</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-105"><a href="#L-105"><span class="linenos"> 105</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-106"><a href="#L-106"><span class="linenos"> 106</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span>
-</span><span id="L-107"><a href="#L-107"><span class="linenos"> 107</span></a>
-</span><span id="L-108"><a href="#L-108"><span class="linenos"> 108</span></a>    <span class="nd">@property</span>
-</span><span id="L-109"><a href="#L-109"><span class="linenos"> 109</span></a>    <span class="k">def</span> <span class="nf">reweighted</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-110"><a href="#L-110"><span class="linenos"> 110</span></a>        <span class="n">bool_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">reweighted</span><span class="p">,</span> <span class="n">o</span><span class="p">))</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]])</span>
-</span><span id="L-111"><a href="#L-111"><span class="linenos"> 111</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">bool_array</span> <span class="o">==</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos"> 112</span></a>            <span class="k">return</span> <span class="kc">True</span>
-</span><span id="L-113"><a href="#L-113"><span class="linenos"> 113</span></a>        <span class="k">elif</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">bool_array</span> <span class="o">==</span> <span class="mi">0</span><span class="p">):</span>
-</span><span id="L-114"><a href="#L-114"><span class="linenos"> 114</span></a>            <span class="k">return</span> <span class="kc">False</span>
-</span><span id="L-115"><a href="#L-115"><span class="linenos"> 115</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-116"><a href="#L-116"><span class="linenos"> 116</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Reweighting status of correlator corrupted.&quot;</span><span class="p">)</span>
-</span><span id="L-117"><a href="#L-117"><span class="linenos"> 117</span></a>
-</span><span id="L-118"><a href="#L-118"><span class="linenos"> 118</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-119"><a href="#L-119"><span class="linenos"> 119</span></a>        <span class="sd">&quot;&quot;&quot;Apply the gamma method to the content of the Corr.&quot;&quot;&quot;</span>
-</span><span id="L-120"><a href="#L-120"><span class="linenos"> 120</span></a>        <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">:</span>
-</span><span id="L-121"><a href="#L-121"><span class="linenos"> 121</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-122"><a href="#L-122"><span class="linenos"> 122</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-123"><a href="#L-123"><span class="linenos"> 123</span></a>                    <span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-124"><a href="#L-124"><span class="linenos"> 124</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-125"><a href="#L-125"><span class="linenos"> 125</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-126"><a href="#L-126"><span class="linenos"> 126</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-127"><a href="#L-127"><span class="linenos"> 127</span></a>                            <span class="n">item</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-128"><a href="#L-128"><span class="linenos"> 128</span></a>
-</span><span id="L-129"><a href="#L-129"><span class="linenos"> 129</span></a>    <span class="k">def</span> <span class="nf">projected</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">vector_l</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">vector_r</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="L-130"><a href="#L-130"><span class="linenos"> 130</span></a>        <span class="sd">&quot;&quot;&quot;We need to project the Correlator with a Vector to get a single value at each timeslice.</span>
-</span><span id="L-131"><a href="#L-131"><span class="linenos"> 131</span></a>
-</span><span id="L-132"><a href="#L-132"><span class="linenos"> 132</span></a><span class="sd">        The method can use one or two vectors.</span>
-</span><span id="L-133"><a href="#L-133"><span class="linenos"> 133</span></a><span class="sd">        If two are specified it returns v1@G@v2 (the order might be very important.)</span>
-</span><span id="L-134"><a href="#L-134"><span class="linenos"> 134</span></a><span class="sd">        By default it will return the lowest source, which usually means unsmeared-unsmeared (0,0), but it does not have to</span>
-</span><span id="L-135"><a href="#L-135"><span class="linenos"> 135</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-136"><a href="#L-136"><span class="linenos"> 136</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-137"><a href="#L-137"><span class="linenos"> 137</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to project a Corr, that already has N=1.&quot;</span><span class="p">)</span>
-</span><span id="L-138"><a href="#L-138"><span class="linenos"> 138</span></a>
-</span><span id="L-139"><a href="#L-139"><span class="linenos"> 139</span></a>        <span class="k">if</span> <span class="n">vector_l</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-140"><a href="#L-140"><span class="linenos"> 140</span></a>            <span class="n">vector_l</span><span class="p">,</span> <span class="n">vector_r</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="mf">1.</span><span class="p">]</span> <span class="o">+</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.</span><span class="p">]),</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="mf">1.</span><span class="p">]</span> <span class="o">+</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.</span><span class="p">])</span>
-</span><span id="L-141"><a href="#L-141"><span class="linenos"> 141</span></a>        <span class="k">elif</span><span class="p">(</span><span class="n">vector_r</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-142"><a href="#L-142"><span class="linenos"> 142</span></a>            <span class="n">vector_r</span> <span class="o">=</span> <span class="n">vector_l</span>
-</span><span id="L-143"><a href="#L-143"><span class="linenos"> 143</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_r</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-144"><a href="#L-144"><span class="linenos"> 144</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vector_l</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="L-145"><a href="#L-145"><span class="linenos"> 145</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Length of vector list must be equal to T&quot;</span><span class="p">)</span>
-</span><span id="L-146"><a href="#L-146"><span class="linenos"> 146</span></a>            <span class="n">vector_r</span> <span class="o">=</span> <span class="p">[</span><span class="n">vector_r</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
-</span><span id="L-147"><a href="#L-147"><span class="linenos"> 147</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_r</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-148"><a href="#L-148"><span class="linenos"> 148</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vector_r</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="L-149"><a href="#L-149"><span class="linenos"> 149</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Length of vector list must be equal to T&quot;</span><span class="p">)</span>
-</span><span id="L-150"><a href="#L-150"><span class="linenos"> 150</span></a>            <span class="n">vector_l</span> <span class="o">=</span> <span class="p">[</span><span class="n">vector_l</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
-</span><span id="L-151"><a href="#L-151"><span class="linenos"> 151</span></a>
-</span><span id="L-152"><a href="#L-152"><span class="linenos"> 152</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-153"><a href="#L-153"><span class="linenos"> 153</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">vector_l</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="n">vector_r</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,):</span>
-</span><span id="L-154"><a href="#L-154"><span class="linenos"> 154</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Vectors are of wrong shape!&quot;</span><span class="p">)</span>
-</span><span id="L-155"><a href="#L-155"><span class="linenos"> 155</span></a>            <span class="k">if</span> <span class="n">normalize</span><span class="p">:</span>
-</span><span id="L-156"><a href="#L-156"><span class="linenos"> 156</span></a>                <span class="n">vector_l</span><span class="p">,</span> <span class="n">vector_r</span> <span class="o">=</span> <span class="n">vector_l</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">vector_l</span> <span class="o">@</span> <span class="n">vector_l</span><span class="p">)),</span> <span class="n">vector_r</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">vector_r</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">)</span>
-</span><span id="L-157"><a href="#L-157"><span class="linenos"> 157</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">vector_l</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">item</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">])</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="L-158"><a href="#L-158"><span class="linenos"> 158</span></a>
-</span><span id="L-159"><a href="#L-159"><span class="linenos"> 159</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-160"><a href="#L-160"><span class="linenos"> 160</span></a>            <span class="c1"># There are no checks here yet. There are so many possible scenarios, where this can go wrong.</span>
-</span><span id="L-161"><a href="#L-161"><span class="linenos"> 161</span></a>            <span class="k">if</span> <span class="n">normalize</span><span class="p">:</span>
-</span><span id="L-162"><a href="#L-162"><span class="linenos"> 162</span></a>                <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-163"><a href="#L-163"><span class="linenos"> 163</span></a>                    <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">])),</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="L-164"><a href="#L-164"><span class="linenos"> 164</span></a>
-</span><span id="L-165"><a href="#L-165"><span class="linenos"> 165</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]])</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)]</span>
-</span><span id="L-166"><a href="#L-166"><span class="linenos"> 166</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="L-167"><a href="#L-167"><span class="linenos"> 167</span></a>
-</span><span id="L-168"><a href="#L-168"><span class="linenos"> 168</span></a>    <span class="k">def</span> <span class="nf">item</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">):</span>
-</span><span id="L-169"><a href="#L-169"><span class="linenos"> 169</span></a>        <span class="sd">&quot;&quot;&quot;Picks the element [i,j] from every matrix and returns a correlator containing one Obs per timeslice.</span>
-</span><span id="L-170"><a href="#L-170"><span class="linenos"> 170</span></a>
-</span><span id="L-171"><a href="#L-171"><span class="linenos"> 171</span></a><span class="sd">        Parameters</span>
-</span><span id="L-172"><a href="#L-172"><span class="linenos"> 172</span></a><span class="sd">        ----------</span>
-</span><span id="L-173"><a href="#L-173"><span class="linenos"> 173</span></a><span class="sd">        i : int</span>
-</span><span id="L-174"><a href="#L-174"><span class="linenos"> 174</span></a><span class="sd">            First index to be picked.</span>
-</span><span id="L-175"><a href="#L-175"><span class="linenos"> 175</span></a><span class="sd">        j : int</span>
-</span><span id="L-176"><a href="#L-176"><span class="linenos"> 176</span></a><span class="sd">            Second index to be picked.</span>
-</span><span id="L-177"><a href="#L-177"><span class="linenos"> 177</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-178"><a href="#L-178"><span class="linenos"> 178</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-179"><a href="#L-179"><span class="linenos"> 179</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to pick item from projected Corr&quot;</span><span class="p">)</span>
-</span><span id="L-180"><a href="#L-180"><span class="linenos"> 180</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span><span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">item</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="L-181"><a href="#L-181"><span class="linenos"> 181</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="L-182"><a href="#L-182"><span class="linenos"> 182</span></a>
-</span><span id="L-183"><a href="#L-183"><span class="linenos"> 183</span></a>    <span class="k">def</span> <span class="nf">plottable</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-184"><a href="#L-184"><span class="linenos"> 184</span></a>        <span class="sd">&quot;&quot;&quot;Outputs the correlator in a plotable format.</span>
-</span><span id="L-185"><a href="#L-185"><span class="linenos"> 185</span></a>
-</span><span id="L-186"><a href="#L-186"><span class="linenos"> 186</span></a><span class="sd">        Outputs three lists containing the timeslice index, the value on each</span>
-</span><span id="L-187"><a href="#L-187"><span class="linenos"> 187</span></a><span class="sd">        timeslice and the error on each timeslice.</span>
-</span><span id="L-188"><a href="#L-188"><span class="linenos"> 188</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-189"><a href="#L-189"><span class="linenos"> 189</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-190"><a href="#L-190"><span class="linenos"> 190</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only make Corr[N=1] plottable&quot;</span><span class="p">)</span>
-</span><span id="L-191"><a href="#L-191"><span class="linenos"> 191</span></a>        <span class="n">x_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="L-192"><a href="#L-192"><span class="linenos"> 192</span></a>        <span class="n">y_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="L-193"><a href="#L-193"><span class="linenos"> 193</span></a>        <span class="n">y_err_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="L-194"><a href="#L-194"><span class="linenos"> 194</span></a>
-</span><span id="L-195"><a href="#L-195"><span class="linenos"> 195</span></a>        <span class="k">return</span> <span class="n">x_list</span><span class="p">,</span> <span class="n">y_list</span><span class="p">,</span> <span class="n">y_err_list</span>
-</span><span id="L-196"><a href="#L-196"><span class="linenos"> 196</span></a>
-</span><span id="L-197"><a href="#L-197"><span class="linenos"> 197</span></a>    <span class="k">def</span> <span class="nf">symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-198"><a href="#L-198"><span class="linenos"> 198</span></a>        <span class="sd">&quot;&quot;&quot; Symmetrize the correlator around x0=0.&quot;&quot;&quot;</span>
-</span><span id="L-199"><a href="#L-199"><span class="linenos"> 199</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">%</span> <span class="mi">2</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-200"><a href="#L-200"><span class="linenos"> 200</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can not symmetrize odd T&quot;</span><span class="p">)</span>
-</span><span id="L-201"><a href="#L-201"><span class="linenos"> 201</span></a>
-</span><span id="L-202"><a href="#L-202"><span class="linenos"> 202</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">))</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-203"><a href="#L-203"><span class="linenos"> 203</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlator does not seem to be symmetric around x0=0.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-204"><a href="#L-204"><span class="linenos"> 204</span></a>
-</span><span id="L-205"><a href="#L-205"><span class="linenos"> 205</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
-</span><span id="L-206"><a href="#L-206"><span class="linenos"> 206</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-207"><a href="#L-207"><span class="linenos"> 207</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-208"><a href="#L-208"><span class="linenos"> 208</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-209"><a href="#L-209"><span class="linenos"> 209</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-210"><a href="#L-210"><span class="linenos"> 210</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]))</span>
-</span><span id="L-211"><a href="#L-211"><span class="linenos"> 211</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="L-212"><a href="#L-212"><span class="linenos"> 212</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr could not be symmetrized: No redundant values&quot;</span><span class="p">)</span>
-</span><span id="L-213"><a href="#L-213"><span class="linenos"> 213</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="L-214"><a href="#L-214"><span class="linenos"> 214</span></a>
-</span><span id="L-215"><a href="#L-215"><span class="linenos"> 215</span></a>    <span class="k">def</span> <span class="nf">anti_symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-216"><a href="#L-216"><span class="linenos"> 216</span></a>        <span class="sd">&quot;&quot;&quot;Anti-symmetrize the correlator around x0=0.&quot;&quot;&quot;</span>
-</span><span id="L-217"><a href="#L-217"><span class="linenos"> 217</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">%</span> <span class="mi">2</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-218"><a href="#L-218"><span class="linenos"> 218</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can not symmetrize odd T&quot;</span><span class="p">)</span>
-</span><span id="L-219"><a href="#L-219"><span class="linenos"> 219</span></a>
-</span><span id="L-220"><a href="#L-220"><span class="linenos"> 220</span></a>        <span class="n">test</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
-</span><span id="L-221"><a href="#L-221"><span class="linenos"> 221</span></a>        <span class="n">test</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="L-222"><a href="#L-222"><span class="linenos"> 222</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">is_zero_within_error</span><span class="p">(</span><span class="mi">3</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">test</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]):</span>
-</span><span id="L-223"><a href="#L-223"><span class="linenos"> 223</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlator does not seem to be anti-symmetric around x0=0.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-224"><a href="#L-224"><span class="linenos"> 224</span></a>
-</span><span id="L-225"><a href="#L-225"><span class="linenos"> 225</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
-</span><span id="L-226"><a href="#L-226"><span class="linenos"> 226</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-227"><a href="#L-227"><span class="linenos"> 227</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-228"><a href="#L-228"><span class="linenos"> 228</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-229"><a href="#L-229"><span class="linenos"> 229</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-230"><a href="#L-230"><span class="linenos"> 230</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]))</span>
-</span><span id="L-231"><a href="#L-231"><span class="linenos"> 231</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="L-232"><a href="#L-232"><span class="linenos"> 232</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr could not be symmetrized: No redundant values&quot;</span><span class="p">)</span>
-</span><span id="L-233"><a href="#L-233"><span class="linenos"> 233</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="L-234"><a href="#L-234"><span class="linenos"> 234</span></a>
-</span><span id="L-235"><a href="#L-235"><span class="linenos"> 235</span></a>    <span class="k">def</span> <span class="nf">matrix_symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-236"><a href="#L-236"><span class="linenos"> 236</span></a>        <span class="sd">&quot;&quot;&quot;Symmetrizes the correlator matrices on every timeslice.&quot;&quot;&quot;</span>
-</span><span id="L-237"><a href="#L-237"><span class="linenos"> 237</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-238"><a href="#L-238"><span class="linenos"> 238</span></a>            <span class="n">transposed</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">G</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">G</span><span class="o">.</span><span class="n">T</span> <span class="k">for</span> <span class="n">G</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="L-239"><a href="#L-239"><span class="linenos"> 239</span></a>            <span class="k">return</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">transposed</span><span class="p">)</span> <span class="o">+</span> <span class="bp">self</span><span class="p">)</span>
-</span><span id="L-240"><a href="#L-240"><span class="linenos"> 240</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-241"><a href="#L-241"><span class="linenos"> 241</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to symmetrize a correlator matrix, that already has N=1.&quot;</span><span class="p">)</span>
-</span><span id="L-242"><a href="#L-242"><span class="linenos"> 242</span></a>
-</span><span id="L-243"><a href="#L-243"><span class="linenos"> 243</span></a>    <span class="k">def</span> <span class="nf">GEVP</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="s2">&quot;Eigenvalue&quot;</span><span class="p">):</span>
-</span><span id="L-244"><a href="#L-244"><span class="linenos"> 244</span></a>        <span class="sd">&quot;&quot;&quot;Solve the general eigenvalue problem on the current correlator</span>
-</span><span id="L-245"><a href="#L-245"><span class="linenos"> 245</span></a>
-</span><span id="L-246"><a href="#L-246"><span class="linenos"> 246</span></a><span class="sd">        Parameters</span>
-</span><span id="L-247"><a href="#L-247"><span class="linenos"> 247</span></a><span class="sd">        ----------</span>
-</span><span id="L-248"><a href="#L-248"><span class="linenos"> 248</span></a><span class="sd">        t0 : int</span>
-</span><span id="L-249"><a href="#L-249"><span class="linenos"> 249</span></a><span class="sd">            The time t0 for G(t)v= lambda G(t_0)v</span>
-</span><span id="L-250"><a href="#L-250"><span class="linenos"> 250</span></a><span class="sd">        ts : int</span>
-</span><span id="L-251"><a href="#L-251"><span class="linenos"> 251</span></a><span class="sd">            fixed time G(t_s)v= lambda G(t_0)v  if return_list=False</span>
-</span><span id="L-252"><a href="#L-252"><span class="linenos"> 252</span></a><span class="sd">            If return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</span>
-</span><span id="L-253"><a href="#L-253"><span class="linenos"> 253</span></a><span class="sd">        state : int</span>
-</span><span id="L-254"><a href="#L-254"><span class="linenos"> 254</span></a><span class="sd">            The state one is interested in, ordered by energy. The lowest state is zero.</span>
-</span><span id="L-255"><a href="#L-255"><span class="linenos"> 255</span></a><span class="sd">        sorted_list : string</span>
-</span><span id="L-256"><a href="#L-256"><span class="linenos"> 256</span></a><span class="sd">            if this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.</span>
-</span><span id="L-257"><a href="#L-257"><span class="linenos"> 257</span></a><span class="sd">             &quot;Eigenvalue&quot;  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.</span>
-</span><span id="L-258"><a href="#L-258"><span class="linenos"> 258</span></a><span class="sd">             &quot;Eigenvector&quot; -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.</span>
-</span><span id="L-259"><a href="#L-259"><span class="linenos"> 259</span></a><span class="sd">                              The reference state is identified by its eigenvalue at t=ts</span>
-</span><span id="L-260"><a href="#L-260"><span class="linenos"> 260</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-261"><a href="#L-261"><span class="linenos"> 261</span></a>
-</span><span id="L-262"><a href="#L-262"><span class="linenos"> 262</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-263"><a href="#L-263"><span class="linenos"> 263</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;GEVP methods only works on correlator matrices and not single correlators.&quot;</span><span class="p">)</span>
-</span><span id="L-264"><a href="#L-264"><span class="linenos"> 264</span></a>
-</span><span id="L-265"><a href="#L-265"><span class="linenos"> 265</span></a>        <span class="n">symmetric_corr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">matrix_symmetric</span><span class="p">()</span>
-</span><span id="L-266"><a href="#L-266"><span class="linenos"> 266</span></a>        <span class="k">if</span> <span class="n">sorted_list</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-267"><a href="#L-267"><span class="linenos"> 267</span></a>            <span class="k">if</span> <span class="p">(</span><span class="n">ts</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-268"><a href="#L-268"><span class="linenos"> 268</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;ts is required if sorted_list=None&quot;</span><span class="p">)</span>
-</span><span id="L-269"><a href="#L-269"><span class="linenos"> 269</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t0</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">ts</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-270"><a href="#L-270"><span class="linenos"> 270</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr not defined at t0/ts&quot;</span><span class="p">)</span>
-</span><span id="L-271"><a href="#L-271"><span class="linenos"> 271</span></a>            <span class="n">G0</span><span class="p">,</span> <span class="n">Gt</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">)</span>
-</span><span id="L-272"><a href="#L-272"><span class="linenos"> 272</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-273"><a href="#L-273"><span class="linenos"> 273</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-274"><a href="#L-274"><span class="linenos"> 274</span></a>                    <span class="n">G0</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t0</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
-</span><span id="L-275"><a href="#L-275"><span class="linenos"> 275</span></a>                    <span class="n">Gt</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">ts</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
-</span><span id="L-276"><a href="#L-276"><span class="linenos"> 276</span></a>
-</span><span id="L-277"><a href="#L-277"><span class="linenos"> 277</span></a>            <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
-</span><span id="L-278"><a href="#L-278"><span class="linenos"> 278</span></a>            <span class="n">sp_vec</span> <span class="o">=</span> <span class="n">sp_vecs</span><span class="p">[</span><span class="n">state</span><span class="p">]</span>
-</span><span id="L-279"><a href="#L-279"><span class="linenos"> 279</span></a>            <span class="k">return</span> <span class="n">sp_vec</span>
-</span><span id="L-280"><a href="#L-280"><span class="linenos"> 280</span></a>        <span class="k">elif</span> <span class="n">sorted_list</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;Eigenvalue&quot;</span><span class="p">,</span> <span class="s2">&quot;Eigenvector&quot;</span><span class="p">]:</span>
-</span><span id="L-281"><a href="#L-281"><span class="linenos"> 281</span></a>            <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvalue&quot;</span> <span class="ow">and</span> <span class="n">ts</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-282"><a href="#L-282"><span class="linenos"> 282</span></a>                <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;ts has no effect when sorting by eigenvalue is chosen.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-283"><a href="#L-283"><span class="linenos"> 283</span></a>            <span class="n">all_vecs</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-284"><a href="#L-284"><span class="linenos"> 284</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-285"><a href="#L-285"><span class="linenos"> 285</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="L-286"><a href="#L-286"><span class="linenos"> 286</span></a>                    <span class="n">G0</span><span class="p">,</span> <span class="n">Gt</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">)</span>
-</span><span id="L-287"><a href="#L-287"><span class="linenos"> 287</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-288"><a href="#L-288"><span class="linenos"> 288</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-289"><a href="#L-289"><span class="linenos"> 289</span></a>                            <span class="n">G0</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t0</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
-</span><span id="L-290"><a href="#L-290"><span class="linenos"> 290</span></a>                            <span class="n">Gt</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
-</span><span id="L-291"><a href="#L-291"><span class="linenos"> 291</span></a>
-</span><span id="L-292"><a href="#L-292"><span class="linenos"> 292</span></a>                    <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
-</span><span id="L-293"><a href="#L-293"><span class="linenos"> 293</span></a>                    <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvalue&quot;</span><span class="p">:</span>
-</span><span id="L-294"><a href="#L-294"><span class="linenos"> 294</span></a>                        <span class="n">sp_vec</span> <span class="o">=</span> <span class="n">sp_vecs</span><span class="p">[</span><span class="n">state</span><span class="p">]</span>
-</span><span id="L-295"><a href="#L-295"><span class="linenos"> 295</span></a>                        <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">sp_vec</span><span class="p">)</span>
-</span><span id="L-296"><a href="#L-296"><span class="linenos"> 296</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-297"><a href="#L-297"><span class="linenos"> 297</span></a>                        <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">sp_vecs</span><span class="p">)</span>
-</span><span id="L-298"><a href="#L-298"><span class="linenos"> 298</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="L-299"><a href="#L-299"><span class="linenos"> 299</span></a>                    <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-300"><a href="#L-300"><span class="linenos"> 300</span></a>            <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvector&quot;</span><span class="p">:</span>
-</span><span id="L-301"><a href="#L-301"><span class="linenos"> 301</span></a>                <span class="k">if</span> <span class="p">(</span><span class="n">ts</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-302"><a href="#L-302"><span class="linenos"> 302</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;ts is required for the Eigenvector sorting method.&quot;</span><span class="p">)</span>
-</span><span id="L-303"><a href="#L-303"><span class="linenos"> 303</span></a>                <span class="n">all_vecs</span> <span class="o">=</span> <span class="n">_sort_vectors</span><span class="p">(</span><span class="n">all_vecs</span><span class="p">,</span> <span class="n">ts</span><span class="p">)</span>
-</span><span id="L-304"><a href="#L-304"><span class="linenos"> 304</span></a>                <span class="n">all_vecs</span> <span class="o">=</span> <span class="p">[</span><span class="n">a</span><span class="p">[</span><span class="n">state</span><span class="p">]</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="n">all_vecs</span><span class="p">]</span>
-</span><span id="L-305"><a href="#L-305"><span class="linenos"> 305</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-306"><a href="#L-306"><span class="linenos"> 306</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unkown value for &#39;sorted_list&#39;.&quot;</span><span class="p">)</span>
-</span><span id="L-307"><a href="#L-307"><span class="linenos"> 307</span></a>
-</span><span id="L-308"><a href="#L-308"><span class="linenos"> 308</span></a>        <span class="k">return</span> <span class="n">all_vecs</span>
-</span><span id="L-309"><a href="#L-309"><span class="linenos"> 309</span></a>
-</span><span id="L-310"><a href="#L-310"><span class="linenos"> 310</span></a>    <span class="k">def</span> <span class="nf">Eigenvalue</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-311"><a href="#L-311"><span class="linenos"> 311</span></a>        <span class="sd">&quot;&quot;&quot;Determines the eigenvalue of the GEVP by solving and projecting the correlator</span>
-</span><span id="L-312"><a href="#L-312"><span class="linenos"> 312</span></a>
-</span><span id="L-313"><a href="#L-313"><span class="linenos"> 313</span></a><span class="sd">        Parameters</span>
-</span><span id="L-314"><a href="#L-314"><span class="linenos"> 314</span></a><span class="sd">        ----------</span>
-</span><span id="L-315"><a href="#L-315"><span class="linenos"> 315</span></a><span class="sd">        t0 : int</span>
-</span><span id="L-316"><a href="#L-316"><span class="linenos"> 316</span></a><span class="sd">            The time t0 for G(t)v= lambda G(t_0)v</span>
-</span><span id="L-317"><a href="#L-317"><span class="linenos"> 317</span></a><span class="sd">        ts : int</span>
-</span><span id="L-318"><a href="#L-318"><span class="linenos"> 318</span></a><span class="sd">            fixed time G(t_s)v= lambda G(t_0)v  if return_list=False</span>
-</span><span id="L-319"><a href="#L-319"><span class="linenos"> 319</span></a><span class="sd">            If return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</span>
-</span><span id="L-320"><a href="#L-320"><span class="linenos"> 320</span></a><span class="sd">        state : int</span>
-</span><span id="L-321"><a href="#L-321"><span class="linenos"> 321</span></a><span class="sd">            The state one is interested in ordered by energy. The lowest state is zero.</span>
-</span><span id="L-322"><a href="#L-322"><span class="linenos"> 322</span></a><span class="sd">        sorted_list : string</span>
-</span><span id="L-323"><a href="#L-323"><span class="linenos"> 323</span></a><span class="sd">            if this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.</span>
-</span><span id="L-324"><a href="#L-324"><span class="linenos"> 324</span></a><span class="sd">             &quot;Eigenvalue&quot;  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.</span>
-</span><span id="L-325"><a href="#L-325"><span class="linenos"> 325</span></a><span class="sd">             &quot;Eigenvector&quot; -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.</span>
-</span><span id="L-326"><a href="#L-326"><span class="linenos"> 326</span></a><span class="sd">                              The reference state is identified by its eigenvalue at t=ts</span>
-</span><span id="L-327"><a href="#L-327"><span class="linenos"> 327</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-328"><a href="#L-328"><span class="linenos"> 328</span></a>        <span class="n">vec</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">GEVP</span><span class="p">(</span><span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="n">ts</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="n">state</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="n">sorted_list</span><span class="p">)</span>
-</span><span id="L-329"><a href="#L-329"><span class="linenos"> 329</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">projected</span><span class="p">(</span><span class="n">vec</span><span class="p">)</span>
-</span><span id="L-330"><a href="#L-330"><span class="linenos"> 330</span></a>
-</span><span id="L-331"><a href="#L-331"><span class="linenos"> 331</span></a>    <span class="k">def</span> <span class="nf">Hankel</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">N</span><span class="p">,</span> <span class="n">periodic</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="L-332"><a href="#L-332"><span class="linenos"> 332</span></a>        <span class="sd">&quot;&quot;&quot;Constructs an NxN Hankel matrix</span>
-</span><span id="L-333"><a href="#L-333"><span class="linenos"> 333</span></a>
-</span><span id="L-334"><a href="#L-334"><span class="linenos"> 334</span></a><span class="sd">        C(t) c(t+1) ... c(t+n-1)</span>
-</span><span id="L-335"><a href="#L-335"><span class="linenos"> 335</span></a><span class="sd">        C(t+1) c(t+2) ... c(t+n)</span>
-</span><span id="L-336"><a href="#L-336"><span class="linenos"> 336</span></a><span class="sd">        .................</span>
-</span><span id="L-337"><a href="#L-337"><span class="linenos"> 337</span></a><span class="sd">        C(t+(n-1)) c(t+n) ... c(t+2(n-1))</span>
-</span><span id="L-338"><a href="#L-338"><span class="linenos"> 338</span></a>
-</span><span id="L-339"><a href="#L-339"><span class="linenos"> 339</span></a><span class="sd">        Parameters</span>
-</span><span id="L-340"><a href="#L-340"><span class="linenos"> 340</span></a><span class="sd">        ----------</span>
-</span><span id="L-341"><a href="#L-341"><span class="linenos"> 341</span></a><span class="sd">        N : int</span>
-</span><span id="L-342"><a href="#L-342"><span class="linenos"> 342</span></a><span class="sd">            Dimension of the Hankel matrix</span>
-</span><span id="L-343"><a href="#L-343"><span class="linenos"> 343</span></a><span class="sd">        periodic : bool, optional</span>
-</span><span id="L-344"><a href="#L-344"><span class="linenos"> 344</span></a><span class="sd">            determines whether the matrix is extended periodically</span>
-</span><span id="L-345"><a href="#L-345"><span class="linenos"> 345</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-346"><a href="#L-346"><span class="linenos"> 346</span></a>
-</span><span id="L-347"><a href="#L-347"><span class="linenos"> 347</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-348"><a href="#L-348"><span class="linenos"> 348</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multi-operator Prony not implemented!&quot;</span><span class="p">)</span>
-</span><span id="L-349"><a href="#L-349"><span class="linenos"> 349</span></a>
-</span><span id="L-350"><a href="#L-350"><span class="linenos"> 350</span></a>        <span class="n">array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;object&quot;</span><span class="p">)</span>
-</span><span id="L-351"><a href="#L-351"><span class="linenos"> 351</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-352"><a href="#L-352"><span class="linenos"> 352</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-353"><a href="#L-353"><span class="linenos"> 353</span></a>            <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">array</span><span class="o">.</span><span class="n">copy</span><span class="p">())</span>
-</span><span id="L-354"><a href="#L-354"><span class="linenos"> 354</span></a>
-</span><span id="L-355"><a href="#L-355"><span class="linenos"> 355</span></a>        <span class="k">def</span> <span class="nf">wrap</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
-</span><span id="L-356"><a href="#L-356"><span class="linenos"> 356</span></a>            <span class="k">while</span> <span class="n">i</span> <span class="o">&gt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="L-357"><a href="#L-357"><span class="linenos"> 357</span></a>                <span class="n">i</span> <span class="o">-=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
-</span><span id="L-358"><a href="#L-358"><span class="linenos"> 358</span></a>            <span class="k">return</span> <span class="n">i</span>
-</span><span id="L-359"><a href="#L-359"><span class="linenos"> 359</span></a>
-</span><span id="L-360"><a href="#L-360"><span class="linenos"> 360</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-361"><a href="#L-361"><span class="linenos"> 361</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-362"><a href="#L-362"><span class="linenos"> 362</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-363"><a href="#L-363"><span class="linenos"> 363</span></a>                    <span class="k">if</span> <span class="n">periodic</span><span class="p">:</span>
-</span><span id="L-364"><a href="#L-364"><span class="linenos"> 364</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">wrap</span><span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">)][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-365"><a href="#L-365"><span class="linenos"> 365</span></a>                    <span class="k">elif</span> <span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">)</span> <span class="o">&gt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="L-366"><a href="#L-366"><span class="linenos"> 366</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-367"><a href="#L-367"><span class="linenos"> 367</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-368"><a href="#L-368"><span class="linenos"> 368</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-369"><a href="#L-369"><span class="linenos"> 369</span></a>
-</span><span id="L-370"><a href="#L-370"><span class="linenos"> 370</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
-</span><span id="L-371"><a href="#L-371"><span class="linenos"> 371</span></a>
-</span><span id="L-372"><a href="#L-372"><span class="linenos"> 372</span></a>    <span class="k">def</span> <span class="nf">roll</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">dt</span><span class="p">):</span>
-</span><span id="L-373"><a href="#L-373"><span class="linenos"> 373</span></a>        <span class="sd">&quot;&quot;&quot;Periodically shift the correlator by dt timeslices</span>
-</span><span id="L-374"><a href="#L-374"><span class="linenos"> 374</span></a>
-</span><span id="L-375"><a href="#L-375"><span class="linenos"> 375</span></a><span class="sd">        Parameters</span>
-</span><span id="L-376"><a href="#L-376"><span class="linenos"> 376</span></a><span class="sd">        ----------</span>
-</span><span id="L-377"><a href="#L-377"><span class="linenos"> 377</span></a><span class="sd">        dt : int</span>
-</span><span id="L-378"><a href="#L-378"><span class="linenos"> 378</span></a><span class="sd">            number of timeslices</span>
-</span><span id="L-379"><a href="#L-379"><span class="linenos"> 379</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-380"><a href="#L-380"><span class="linenos"> 380</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">roll</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">),</span> <span class="n">dt</span><span class="p">)))</span>
-</span><span id="L-381"><a href="#L-381"><span class="linenos"> 381</span></a>
-</span><span id="L-382"><a href="#L-382"><span class="linenos"> 382</span></a>    <span class="k">def</span> <span class="nf">reverse</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-383"><a href="#L-383"><span class="linenos"> 383</span></a>        <span class="sd">&quot;&quot;&quot;Reverse the time ordering of the Corr&quot;&quot;&quot;</span>
-</span><span id="L-384"><a href="#L-384"><span class="linenos"> 384</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[::</span> <span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-385"><a href="#L-385"><span class="linenos"> 385</span></a>
-</span><span id="L-386"><a href="#L-386"><span class="linenos"> 386</span></a>    <span class="k">def</span> <span class="nf">thin</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">spacing</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">offset</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span>
-</span><span id="L-387"><a href="#L-387"><span class="linenos"> 387</span></a>        <span class="sd">&quot;&quot;&quot;Thin out a correlator to suppress correlations</span>
-</span><span id="L-388"><a href="#L-388"><span class="linenos"> 388</span></a>
-</span><span id="L-389"><a href="#L-389"><span class="linenos"> 389</span></a><span class="sd">        Parameters</span>
-</span><span id="L-390"><a href="#L-390"><span class="linenos"> 390</span></a><span class="sd">        ----------</span>
-</span><span id="L-391"><a href="#L-391"><span class="linenos"> 391</span></a><span class="sd">        spacing : int</span>
-</span><span id="L-392"><a href="#L-392"><span class="linenos"> 392</span></a><span class="sd">            Keep only every &#39;spacing&#39;th entry of the correlator</span>
-</span><span id="L-393"><a href="#L-393"><span class="linenos"> 393</span></a><span class="sd">        offset : int</span>
-</span><span id="L-394"><a href="#L-394"><span class="linenos"> 394</span></a><span class="sd">            Offset the equal spacing</span>
-</span><span id="L-395"><a href="#L-395"><span class="linenos"> 395</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-396"><a href="#L-396"><span class="linenos"> 396</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-397"><a href="#L-397"><span class="linenos"> 397</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-398"><a href="#L-398"><span class="linenos"> 398</span></a>            <span class="k">if</span> <span class="p">(</span><span class="n">offset</span> <span class="o">+</span> <span class="n">t</span><span class="p">)</span> <span class="o">%</span> <span class="n">spacing</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-399"><a href="#L-399"><span class="linenos"> 399</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-400"><a href="#L-400"><span class="linenos"> 400</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-401"><a href="#L-401"><span class="linenos"> 401</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="L-402"><a href="#L-402"><span class="linenos"> 402</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
-</span><span id="L-403"><a href="#L-403"><span class="linenos"> 403</span></a>
-</span><span id="L-404"><a href="#L-404"><span class="linenos"> 404</span></a>    <span class="k">def</span> <span class="nf">correlate</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">partner</span><span class="p">):</span>
-</span><span id="L-405"><a href="#L-405"><span class="linenos"> 405</span></a>        <span class="sd">&quot;&quot;&quot;Correlate the correlator with another correlator or Obs</span>
-</span><span id="L-406"><a href="#L-406"><span class="linenos"> 406</span></a>
-</span><span id="L-407"><a href="#L-407"><span class="linenos"> 407</span></a><span class="sd">        Parameters</span>
-</span><span id="L-408"><a href="#L-408"><span class="linenos"> 408</span></a><span class="sd">        ----------</span>
-</span><span id="L-409"><a href="#L-409"><span class="linenos"> 409</span></a><span class="sd">        partner : Obs or Corr</span>
-</span><span id="L-410"><a href="#L-410"><span class="linenos"> 410</span></a><span class="sd">            partner to correlate the correlator with.</span>
-</span><span id="L-411"><a href="#L-411"><span class="linenos"> 411</span></a><span class="sd">            Can either be an Obs which is correlated with all entries of the</span>
-</span><span id="L-412"><a href="#L-412"><span class="linenos"> 412</span></a><span class="sd">            correlator or a Corr of same length.</span>
-</span><span id="L-413"><a href="#L-413"><span class="linenos"> 413</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-414"><a href="#L-414"><span class="linenos"> 414</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-415"><a href="#L-415"><span class="linenos"> 415</span></a>        <span class="k">for</span> <span class="n">x0</span><span class="p">,</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">):</span>
-</span><span id="L-416"><a href="#L-416"><span class="linenos"> 416</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-417"><a href="#L-417"><span class="linenos"> 417</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-418"><a href="#L-418"><span class="linenos"> 418</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-419"><a href="#L-419"><span class="linenos"> 419</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="L-420"><a href="#L-420"><span class="linenos"> 420</span></a>                    <span class="k">if</span> <span class="n">partner</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x0</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-421"><a href="#L-421"><span class="linenos"> 421</span></a>                        <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-422"><a href="#L-422"><span class="linenos"> 422</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-423"><a href="#L-423"><span class="linenos"> 423</span></a>                        <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">correlate</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">partner</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x0</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t_slice</span><span class="p">]))</span>
-</span><span id="L-424"><a href="#L-424"><span class="linenos"> 424</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>  <span class="c1"># Should this include CObs?</span>
-</span><span id="L-425"><a href="#L-425"><span class="linenos"> 425</span></a>                    <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">correlate</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">partner</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t_slice</span><span class="p">]))</span>
-</span><span id="L-426"><a href="#L-426"><span class="linenos"> 426</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-427"><a href="#L-427"><span class="linenos"> 427</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only correlate with an Obs or a Corr.&quot;</span><span class="p">)</span>
-</span><span id="L-428"><a href="#L-428"><span class="linenos"> 428</span></a>
-</span><span id="L-429"><a href="#L-429"><span class="linenos"> 429</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
-</span><span id="L-430"><a href="#L-430"><span class="linenos"> 430</span></a>
-</span><span id="L-431"><a href="#L-431"><span class="linenos"> 431</span></a>    <span class="k">def</span> <span class="nf">reweight</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">weight</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-432"><a href="#L-432"><span class="linenos"> 432</span></a>        <span class="sd">&quot;&quot;&quot;Reweight the correlator.</span>
-</span><span id="L-433"><a href="#L-433"><span class="linenos"> 433</span></a>
-</span><span id="L-434"><a href="#L-434"><span class="linenos"> 434</span></a><span class="sd">        Parameters</span>
-</span><span id="L-435"><a href="#L-435"><span class="linenos"> 435</span></a><span class="sd">        ----------</span>
-</span><span id="L-436"><a href="#L-436"><span class="linenos"> 436</span></a><span class="sd">        weight : Obs</span>
-</span><span id="L-437"><a href="#L-437"><span class="linenos"> 437</span></a><span class="sd">            Reweighting factor. An Observable that has to be defined on a superset of the</span>
-</span><span id="L-438"><a href="#L-438"><span class="linenos"> 438</span></a><span class="sd">            configurations in obs[i].idl for all i.</span>
-</span><span id="L-439"><a href="#L-439"><span class="linenos"> 439</span></a><span class="sd">        all_configs : bool</span>
-</span><span id="L-440"><a href="#L-440"><span class="linenos"> 440</span></a><span class="sd">            if True, the reweighted observables are normalized by the average of</span>
-</span><span id="L-441"><a href="#L-441"><span class="linenos"> 441</span></a><span class="sd">            the reweighting factor on all configurations in weight.idl and not</span>
-</span><span id="L-442"><a href="#L-442"><span class="linenos"> 442</span></a><span class="sd">            on the configurations in obs[i].idl.</span>
-</span><span id="L-443"><a href="#L-443"><span class="linenos"> 443</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-444"><a href="#L-444"><span class="linenos"> 444</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-445"><a href="#L-445"><span class="linenos"> 445</span></a>        <span class="k">for</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">:</span>
-</span><span id="L-446"><a href="#L-446"><span class="linenos"> 446</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-447"><a href="#L-447"><span class="linenos"> 447</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-448"><a href="#L-448"><span class="linenos"> 448</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-449"><a href="#L-449"><span class="linenos"> 449</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">reweight</span><span class="p">(</span><span class="n">weight</span><span class="p">,</span> <span class="n">t_slice</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)))</span>
-</span><span id="L-450"><a href="#L-450"><span class="linenos"> 450</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
-</span><span id="L-451"><a href="#L-451"><span class="linenos"> 451</span></a>
-</span><span id="L-452"><a href="#L-452"><span class="linenos"> 452</span></a>    <span class="k">def</span> <span class="nf">T_symmetry</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">partner</span><span class="p">,</span> <span class="n">parity</span><span class="o">=+</span><span class="mi">1</span><span class="p">):</span>
-</span><span id="L-453"><a href="#L-453"><span class="linenos"> 453</span></a>        <span class="sd">&quot;&quot;&quot;Return the time symmetry average of the correlator and its partner</span>
-</span><span id="L-454"><a href="#L-454"><span class="linenos"> 454</span></a>
-</span><span id="L-455"><a href="#L-455"><span class="linenos"> 455</span></a><span class="sd">        Parameters</span>
-</span><span id="L-456"><a href="#L-456"><span class="linenos"> 456</span></a><span class="sd">        ----------</span>
-</span><span id="L-457"><a href="#L-457"><span class="linenos"> 457</span></a><span class="sd">        partner : Corr</span>
-</span><span id="L-458"><a href="#L-458"><span class="linenos"> 458</span></a><span class="sd">            Time symmetry partner of the Corr</span>
-</span><span id="L-459"><a href="#L-459"><span class="linenos"> 459</span></a><span class="sd">        partity : int</span>
-</span><span id="L-460"><a href="#L-460"><span class="linenos"> 460</span></a><span class="sd">            Parity quantum number of the correlator, can be +1 or -1</span>
-</span><span id="L-461"><a href="#L-461"><span class="linenos"> 461</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-462"><a href="#L-462"><span class="linenos"> 462</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="L-463"><a href="#L-463"><span class="linenos"> 463</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;T partner has to be a Corr object.&quot;</span><span class="p">)</span>
-</span><span id="L-464"><a href="#L-464"><span class="linenos"> 464</span></a>        <span class="k">if</span> <span class="n">parity</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="o">+</span><span class="mi">1</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">]:</span>
-</span><span id="L-465"><a href="#L-465"><span class="linenos"> 465</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Parity has to be +1 or -1.&quot;</span><span class="p">)</span>
-</span><span id="L-466"><a href="#L-466"><span class="linenos"> 466</span></a>        <span class="n">T_partner</span> <span class="o">=</span> <span class="n">parity</span> <span class="o">*</span> <span class="n">partner</span><span class="o">.</span><span class="n">reverse</span><span class="p">()</span>
-</span><span id="L-467"><a href="#L-467"><span class="linenos"> 467</span></a>
-</span><span id="L-468"><a href="#L-468"><span class="linenos"> 468</span></a>        <span class="n">t_slices</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-469"><a href="#L-469"><span class="linenos"> 469</span></a>        <span class="n">test</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">T_partner</span><span class="p">)</span>
-</span><span id="L-470"><a href="#L-470"><span class="linenos"> 470</span></a>        <span class="n">test</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="L-471"><a href="#L-471"><span class="linenos"> 471</span></a>        <span class="k">for</span> <span class="n">x0</span><span class="p">,</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">test</span><span class="o">.</span><span class="n">content</span><span class="p">):</span>
-</span><span id="L-472"><a href="#L-472"><span class="linenos"> 472</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-473"><a href="#L-473"><span class="linenos"> 473</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">t_slice</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">is_zero_within_error</span><span class="p">(</span><span class="mi">5</span><span class="p">):</span>
-</span><span id="L-474"><a href="#L-474"><span class="linenos"> 474</span></a>                    <span class="n">t_slices</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span>
-</span><span id="L-475"><a href="#L-475"><span class="linenos"> 475</span></a>        <span class="k">if</span> <span class="n">t_slices</span><span class="p">:</span>
-</span><span id="L-476"><a href="#L-476"><span class="linenos"> 476</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;T symmetry partners do not agree within 5 sigma on time slices &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">t_slices</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-477"><a href="#L-477"><span class="linenos"> 477</span></a>
-</span><span id="L-478"><a href="#L-478"><span class="linenos"> 478</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">+</span> <span class="n">T_partner</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span>
-</span><span id="L-479"><a href="#L-479"><span class="linenos"> 479</span></a>
-</span><span id="L-480"><a href="#L-480"><span class="linenos"> 480</span></a>    <span class="k">def</span> <span class="nf">deriv</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s2">&quot;symmetric&quot;</span><span class="p">):</span>
-</span><span id="L-481"><a href="#L-481"><span class="linenos"> 481</span></a>        <span class="sd">&quot;&quot;&quot;Return the first derivative of the correlator with respect to x0.</span>
-</span><span id="L-482"><a href="#L-482"><span class="linenos"> 482</span></a>
-</span><span id="L-483"><a href="#L-483"><span class="linenos"> 483</span></a><span class="sd">        Parameters</span>
-</span><span id="L-484"><a href="#L-484"><span class="linenos"> 484</span></a><span class="sd">        ----------</span>
-</span><span id="L-485"><a href="#L-485"><span class="linenos"> 485</span></a><span class="sd">        variant : str</span>
-</span><span id="L-486"><a href="#L-486"><span class="linenos"> 486</span></a><span class="sd">            decides which definition of the finite differences derivative is used.</span>
-</span><span id="L-487"><a href="#L-487"><span class="linenos"> 487</span></a><span class="sd">            Available choice: symmetric, forward, backward, improved, default: symmetric</span>
-</span><span id="L-488"><a href="#L-488"><span class="linenos"> 488</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-489"><a href="#L-489"><span class="linenos"> 489</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;symmetric&quot;</span><span class="p">:</span>
-</span><span id="L-490"><a href="#L-490"><span class="linenos"> 490</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-491"><a href="#L-491"><span class="linenos"> 491</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="L-492"><a href="#L-492"><span class="linenos"> 492</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-493"><a href="#L-493"><span class="linenos"> 493</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-494"><a href="#L-494"><span class="linenos"> 494</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-495"><a href="#L-495"><span class="linenos"> 495</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-496"><a href="#L-496"><span class="linenos"> 496</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="L-497"><a href="#L-497"><span class="linenos"> 497</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Derivative is undefined at all timeslices&#39;</span><span class="p">)</span>
-</span><span id="L-498"><a href="#L-498"><span class="linenos"> 498</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="L-499"><a href="#L-499"><span class="linenos"> 499</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;forward&quot;</span><span class="p">:</span>
-</span><span id="L-500"><a href="#L-500"><span class="linenos"> 500</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-501"><a href="#L-501"><span class="linenos"> 501</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="L-502"><a href="#L-502"><span class="linenos"> 502</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-503"><a href="#L-503"><span class="linenos"> 503</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-504"><a href="#L-504"><span class="linenos"> 504</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-505"><a href="#L-505"><span class="linenos"> 505</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="L-506"><a href="#L-506"><span class="linenos"> 506</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="L-507"><a href="#L-507"><span class="linenos"> 507</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="L-508"><a href="#L-508"><span class="linenos"> 508</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="L-509"><a href="#L-509"><span class="linenos"> 509</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;backward&quot;</span><span class="p">:</span>
-</span><span id="L-510"><a href="#L-510"><span class="linenos"> 510</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-511"><a href="#L-511"><span class="linenos"> 511</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-512"><a href="#L-512"><span class="linenos"> 512</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-513"><a href="#L-513"><span class="linenos"> 513</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-514"><a href="#L-514"><span class="linenos"> 514</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-515"><a href="#L-515"><span class="linenos"> 515</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="L-516"><a href="#L-516"><span class="linenos"> 516</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="L-517"><a href="#L-517"><span class="linenos"> 517</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="L-518"><a href="#L-518"><span class="linenos"> 518</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">])</span>
-</span><span id="L-519"><a href="#L-519"><span class="linenos"> 519</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;improved&quot;</span><span class="p">:</span>
-</span><span id="L-520"><a href="#L-520"><span class="linenos"> 520</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-521"><a href="#L-521"><span class="linenos"> 521</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="L-522"><a href="#L-522"><span class="linenos"> 522</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-523"><a href="#L-523"><span class="linenos"> 523</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-524"><a href="#L-524"><span class="linenos"> 524</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-525"><a href="#L-525"><span class="linenos"> 525</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="mi">8</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">8</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]))</span>
-</span><span id="L-526"><a href="#L-526"><span class="linenos"> 526</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="L-527"><a href="#L-527"><span class="linenos"> 527</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Derivative is undefined at all timeslices&#39;</span><span class="p">)</span>
-</span><span id="L-528"><a href="#L-528"><span class="linenos"> 528</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="L-529"><a href="#L-529"><span class="linenos"> 529</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-530"><a href="#L-530"><span class="linenos"> 530</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown variant.&quot;</span><span class="p">)</span>
-</span><span id="L-531"><a href="#L-531"><span class="linenos"> 531</span></a>
-</span><span id="L-532"><a href="#L-532"><span class="linenos"> 532</span></a>    <span class="k">def</span> <span class="nf">second_deriv</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s2">&quot;symmetric&quot;</span><span class="p">):</span>
-</span><span id="L-533"><a href="#L-533"><span class="linenos"> 533</span></a>        <span class="sd">&quot;&quot;&quot;Return the second derivative of the correlator with respect to x0.</span>
-</span><span id="L-534"><a href="#L-534"><span class="linenos"> 534</span></a>
-</span><span id="L-535"><a href="#L-535"><span class="linenos"> 535</span></a><span class="sd">        Parameters</span>
-</span><span id="L-536"><a href="#L-536"><span class="linenos"> 536</span></a><span class="sd">        ----------</span>
-</span><span id="L-537"><a href="#L-537"><span class="linenos"> 537</span></a><span class="sd">        variant : str</span>
-</span><span id="L-538"><a href="#L-538"><span class="linenos"> 538</span></a><span class="sd">            decides which definition of the finite differences derivative is used.</span>
-</span><span id="L-539"><a href="#L-539"><span class="linenos"> 539</span></a><span class="sd">            Available choice: symmetric, improved, default: symmetric</span>
-</span><span id="L-540"><a href="#L-540"><span class="linenos"> 540</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-541"><a href="#L-541"><span class="linenos"> 541</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;symmetric&quot;</span><span class="p">:</span>
-</span><span id="L-542"><a href="#L-542"><span class="linenos"> 542</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-543"><a href="#L-543"><span class="linenos"> 543</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="L-544"><a href="#L-544"><span class="linenos"> 544</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-545"><a href="#L-545"><span class="linenos"> 545</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-546"><a href="#L-546"><span class="linenos"> 546</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-547"><a href="#L-547"><span class="linenos"> 547</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-548"><a href="#L-548"><span class="linenos"> 548</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="L-549"><a href="#L-549"><span class="linenos"> 549</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="L-550"><a href="#L-550"><span class="linenos"> 550</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="L-551"><a href="#L-551"><span class="linenos"> 551</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;improved&quot;</span><span class="p">:</span>
-</span><span id="L-552"><a href="#L-552"><span class="linenos"> 552</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-553"><a href="#L-553"><span class="linenos"> 553</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="L-554"><a href="#L-554"><span class="linenos"> 554</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-555"><a href="#L-555"><span class="linenos"> 555</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-556"><a href="#L-556"><span class="linenos"> 556</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-557"><a href="#L-557"><span class="linenos"> 557</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="o">+</span> <span class="mi">16</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="mi">30</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="mi">16</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]))</span>
-</span><span id="L-558"><a href="#L-558"><span class="linenos"> 558</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="L-559"><a href="#L-559"><span class="linenos"> 559</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="L-560"><a href="#L-560"><span class="linenos"> 560</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="L-561"><a href="#L-561"><span class="linenos"> 561</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-562"><a href="#L-562"><span class="linenos"> 562</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown variant.&quot;</span><span class="p">)</span>
-</span><span id="L-563"><a href="#L-563"><span class="linenos"> 563</span></a>
-</span><span id="L-564"><a href="#L-564"><span class="linenos"> 564</span></a>    <span class="k">def</span> <span class="nf">m_eff</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s1">&#39;log&#39;</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="mf">1.0</span><span class="p">):</span>
-</span><span id="L-565"><a href="#L-565"><span class="linenos"> 565</span></a>        <span class="sd">&quot;&quot;&quot;Returns the effective mass of the correlator as correlator object</span>
-</span><span id="L-566"><a href="#L-566"><span class="linenos"> 566</span></a>
-</span><span id="L-567"><a href="#L-567"><span class="linenos"> 567</span></a><span class="sd">        Parameters</span>
-</span><span id="L-568"><a href="#L-568"><span class="linenos"> 568</span></a><span class="sd">        ----------</span>
-</span><span id="L-569"><a href="#L-569"><span class="linenos"> 569</span></a><span class="sd">        variant : str</span>
-</span><span id="L-570"><a href="#L-570"><span class="linenos"> 570</span></a><span class="sd">            log : uses the standard effective mass log(C(t) / C(t+1))</span>
-</span><span id="L-571"><a href="#L-571"><span class="linenos"> 571</span></a><span class="sd">            cosh, periodic : Use periodicitiy of the correlator by solving C(t) / C(t+1) = cosh(m * (t - T/2)) / cosh(m * (t + 1 - T/2)) for m.</span>
-</span><span id="L-572"><a href="#L-572"><span class="linenos"> 572</span></a><span class="sd">            sinh : Use anti-periodicitiy of the correlator by solving C(t) / C(t+1) = sinh(m * (t - T/2)) / sinh(m * (t + 1 - T/2)) for m.</span>
-</span><span id="L-573"><a href="#L-573"><span class="linenos"> 573</span></a><span class="sd">            See, e.g., arXiv:1205.5380</span>
-</span><span id="L-574"><a href="#L-574"><span class="linenos"> 574</span></a><span class="sd">            arccosh : Uses the explicit form of the symmetrized correlator (not recommended)</span>
-</span><span id="L-575"><a href="#L-575"><span class="linenos"> 575</span></a><span class="sd">        guess : float</span>
-</span><span id="L-576"><a href="#L-576"><span class="linenos"> 576</span></a><span class="sd">            guess for the root finder, only relevant for the root variant</span>
-</span><span id="L-577"><a href="#L-577"><span class="linenos"> 577</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-578"><a href="#L-578"><span class="linenos"> 578</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-579"><a href="#L-579"><span class="linenos"> 579</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Correlator must be projected before getting m_eff&#39;</span><span class="p">)</span>
-</span><span id="L-580"><a href="#L-580"><span class="linenos"> 580</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;log&#39;</span><span class="p">:</span>
-</span><span id="L-581"><a href="#L-581"><span class="linenos"> 581</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-582"><a href="#L-582"><span class="linenos"> 582</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="L-583"><a href="#L-583"><span class="linenos"> 583</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-584"><a href="#L-584"><span class="linenos"> 584</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-585"><a href="#L-585"><span class="linenos"> 585</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-586"><a href="#L-586"><span class="linenos"> 586</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="L-587"><a href="#L-587"><span class="linenos"> 587</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="L-588"><a href="#L-588"><span class="linenos"> 588</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;m_eff is undefined at all timeslices&#39;</span><span class="p">)</span>
-</span><span id="L-589"><a href="#L-589"><span class="linenos"> 589</span></a>
-</span><span id="L-590"><a href="#L-590"><span class="linenos"> 590</span></a>            <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-591"><a href="#L-591"><span class="linenos"> 591</span></a>
-</span><span id="L-592"><a href="#L-592"><span class="linenos"> 592</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;periodic&#39;</span><span class="p">,</span> <span class="s1">&#39;cosh&#39;</span><span class="p">,</span> <span class="s1">&#39;sinh&#39;</span><span class="p">]:</span>
-</span><span id="L-593"><a href="#L-593"><span class="linenos"> 593</span></a>            <span class="k">if</span> <span class="n">variant</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;periodic&#39;</span><span class="p">,</span> <span class="s1">&#39;cosh&#39;</span><span class="p">]:</span>
-</span><span id="L-594"><a href="#L-594"><span class="linenos"> 594</span></a>                <span class="n">func</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">cosh</span>
-</span><span id="L-595"><a href="#L-595"><span class="linenos"> 595</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-596"><a href="#L-596"><span class="linenos"> 596</span></a>                <span class="n">func</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sinh</span>
-</span><span id="L-597"><a href="#L-597"><span class="linenos"> 597</span></a>
-</span><span id="L-598"><a href="#L-598"><span class="linenos"> 598</span></a>            <span class="k">def</span> <span class="nf">root_function</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">d</span><span class="p">):</span>
-</span><span id="L-599"><a href="#L-599"><span class="linenos"> 599</span></a>                <span class="k">return</span> <span class="n">func</span><span class="p">(</span><span class="n">x</span> <span class="o">*</span> <span class="p">(</span><span class="n">t</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">))</span> <span class="o">/</span> <span class="n">func</span><span class="p">(</span><span class="n">x</span> <span class="o">*</span> <span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">))</span> <span class="o">-</span> <span class="n">d</span>
-</span><span id="L-600"><a href="#L-600"><span class="linenos"> 600</span></a>
-</span><span id="L-601"><a href="#L-601"><span class="linenos"> 601</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-602"><a href="#L-602"><span class="linenos"> 602</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="L-603"><a href="#L-603"><span class="linenos"> 603</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-604"><a href="#L-604"><span class="linenos"> 604</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-605"><a href="#L-605"><span class="linenos"> 605</span></a>                <span class="c1"># Fill the two timeslices in the middle of the lattice with their predecessors</span>
-</span><span id="L-606"><a href="#L-606"><span class="linenos"> 606</span></a>                <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;sinh&#39;</span> <span class="ow">and</span> <span class="n">t</span> <span class="ow">in</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]:</span>
-</span><span id="L-607"><a href="#L-607"><span class="linenos"> 607</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-608"><a href="#L-608"><span class="linenos"> 608</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-609"><a href="#L-609"><span class="linenos"> 609</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">find_root</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">root_function</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="n">guess</span><span class="p">)))</span>
-</span><span id="L-610"><a href="#L-610"><span class="linenos"> 610</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="L-611"><a href="#L-611"><span class="linenos"> 611</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;m_eff is undefined at all timeslices&#39;</span><span class="p">)</span>
-</span><span id="L-612"><a href="#L-612"><span class="linenos"> 612</span></a>
-</span><span id="L-613"><a href="#L-613"><span class="linenos"> 613</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="L-614"><a href="#L-614"><span class="linenos"> 614</span></a>
-</span><span id="L-615"><a href="#L-615"><span class="linenos"> 615</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;arccosh&#39;</span><span class="p">:</span>
-</span><span id="L-616"><a href="#L-616"><span class="linenos"> 616</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-617"><a href="#L-617"><span class="linenos"> 617</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="L-618"><a href="#L-618"><span class="linenos"> 618</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-619"><a href="#L-619"><span class="linenos"> 619</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-620"><a href="#L-620"><span class="linenos"> 620</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-621"><a href="#L-621"><span class="linenos"> 621</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]))</span>
-</span><span id="L-622"><a href="#L-622"><span class="linenos"> 622</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="L-623"><a href="#L-623"><span class="linenos"> 623</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;m_eff is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="L-624"><a href="#L-624"><span class="linenos"> 624</span></a>            <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">arccosh</span><span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-625"><a href="#L-625"><span class="linenos"> 625</span></a>
-</span><span id="L-626"><a href="#L-626"><span class="linenos"> 626</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-627"><a href="#L-627"><span class="linenos"> 627</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown variant.&#39;</span><span class="p">)</span>
-</span><span id="L-628"><a href="#L-628"><span class="linenos"> 628</span></a>
-</span><span id="L-629"><a href="#L-629"><span class="linenos"> 629</span></a>    <span class="k">def</span> <span class="nf">fit</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">function</span><span class="p">,</span> <span class="n">fitrange</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-630"><a href="#L-630"><span class="linenos"> 630</span></a>        <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Fits function to the data</span>
-</span><span id="L-631"><a href="#L-631"><span class="linenos"> 631</span></a>
-</span><span id="L-632"><a href="#L-632"><span class="linenos"> 632</span></a><span class="sd">        Parameters</span>
-</span><span id="L-633"><a href="#L-633"><span class="linenos"> 633</span></a><span class="sd">        ----------</span>
-</span><span id="L-634"><a href="#L-634"><span class="linenos"> 634</span></a><span class="sd">        function : obj</span>
-</span><span id="L-635"><a href="#L-635"><span class="linenos"> 635</span></a><span class="sd">            function to fit to the data. See fits.least_squares for details.</span>
-</span><span id="L-636"><a href="#L-636"><span class="linenos"> 636</span></a><span class="sd">        fitrange : list</span>
-</span><span id="L-637"><a href="#L-637"><span class="linenos"> 637</span></a><span class="sd">            Two element list containing the timeslices on which the fit is supposed to start and stop.</span>
-</span><span id="L-638"><a href="#L-638"><span class="linenos"> 638</span></a><span class="sd">            Caution: This range is inclusive as opposed to standard python indexing.</span>
-</span><span id="L-639"><a href="#L-639"><span class="linenos"> 639</span></a><span class="sd">            `fitrange=[4, 6]` corresponds to the three entries 4, 5 and 6.</span>
-</span><span id="L-640"><a href="#L-640"><span class="linenos"> 640</span></a><span class="sd">            If not specified, self.prange or all timeslices are used.</span>
-</span><span id="L-641"><a href="#L-641"><span class="linenos"> 641</span></a><span class="sd">        silent : bool</span>
-</span><span id="L-642"><a href="#L-642"><span class="linenos"> 642</span></a><span class="sd">            Decides whether output is printed to the standard output.</span>
-</span><span id="L-643"><a href="#L-643"><span class="linenos"> 643</span></a><span class="sd">        &#39;&#39;&#39;</span>
-</span><span id="L-644"><a href="#L-644"><span class="linenos"> 644</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-645"><a href="#L-645"><span class="linenos"> 645</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before fitting&quot;</span><span class="p">)</span>
-</span><span id="L-646"><a href="#L-646"><span class="linenos"> 646</span></a>
-</span><span id="L-647"><a href="#L-647"><span class="linenos"> 647</span></a>        <span class="k">if</span> <span class="n">fitrange</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-648"><a href="#L-648"><span class="linenos"> 648</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
-</span><span id="L-649"><a href="#L-649"><span class="linenos"> 649</span></a>                <span class="n">fitrange</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span>
-</span><span id="L-650"><a href="#L-650"><span class="linenos"> 650</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-651"><a href="#L-651"><span class="linenos"> 651</span></a>                <span class="n">fitrange</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
-</span><span id="L-652"><a href="#L-652"><span class="linenos"> 652</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-653"><a href="#L-653"><span class="linenos"> 653</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">fitrange</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-654"><a href="#L-654"><span class="linenos"> 654</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;fitrange has to be a list with two elements&quot;</span><span class="p">)</span>
-</span><span id="L-655"><a href="#L-655"><span class="linenos"> 655</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">fitrange</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="L-656"><a href="#L-656"><span class="linenos"> 656</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;fitrange has to have exactly two elements [fit_start, fit_stop]&quot;</span><span class="p">)</span>
-</span><span id="L-657"><a href="#L-657"><span class="linenos"> 657</span></a>
-</span><span id="L-658"><a href="#L-658"><span class="linenos"> 658</span></a>        <span class="n">xs</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">fitrange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">fitrange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="L-659"><a href="#L-659"><span class="linenos"> 659</span></a>        <span class="n">ys</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">fitrange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">fitrange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="L-660"><a href="#L-660"><span class="linenos"> 660</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">least_squares</span><span class="p">(</span><span class="n">xs</span><span class="p">,</span> <span class="n">ys</span><span class="p">,</span> <span class="n">function</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-661"><a href="#L-661"><span class="linenos"> 661</span></a>        <span class="k">return</span> <span class="n">result</span>
-</span><span id="L-662"><a href="#L-662"><span class="linenos"> 662</span></a>
-</span><span id="L-663"><a href="#L-663"><span class="linenos"> 663</span></a>    <span class="k">def</span> <span class="nf">plateau</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">plateau_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">method</span><span class="o">=</span><span class="s2">&quot;fit&quot;</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="L-664"><a href="#L-664"><span class="linenos"> 664</span></a>        <span class="sd">&quot;&quot;&quot; Extract a plateau value from a Corr object</span>
-</span><span id="L-665"><a href="#L-665"><span class="linenos"> 665</span></a>
-</span><span id="L-666"><a href="#L-666"><span class="linenos"> 666</span></a><span class="sd">        Parameters</span>
-</span><span id="L-667"><a href="#L-667"><span class="linenos"> 667</span></a><span class="sd">        ----------</span>
-</span><span id="L-668"><a href="#L-668"><span class="linenos"> 668</span></a><span class="sd">        plateau_range : list</span>
-</span><span id="L-669"><a href="#L-669"><span class="linenos"> 669</span></a><span class="sd">            list with two entries, indicating the first and the last timeslice</span>
-</span><span id="L-670"><a href="#L-670"><span class="linenos"> 670</span></a><span class="sd">            of the plateau region.</span>
-</span><span id="L-671"><a href="#L-671"><span class="linenos"> 671</span></a><span class="sd">        method : str</span>
-</span><span id="L-672"><a href="#L-672"><span class="linenos"> 672</span></a><span class="sd">            method to extract the plateau.</span>
-</span><span id="L-673"><a href="#L-673"><span class="linenos"> 673</span></a><span class="sd">                &#39;fit&#39; fits a constant to the plateau region</span>
-</span><span id="L-674"><a href="#L-674"><span class="linenos"> 674</span></a><span class="sd">                &#39;avg&#39;, &#39;average&#39; or &#39;mean&#39; just average over the given timeslices.</span>
-</span><span id="L-675"><a href="#L-675"><span class="linenos"> 675</span></a><span class="sd">        auto_gamma : bool</span>
-</span><span id="L-676"><a href="#L-676"><span class="linenos"> 676</span></a><span class="sd">            apply gamma_method with default parameters to the Corr. Defaults to None</span>
-</span><span id="L-677"><a href="#L-677"><span class="linenos"> 677</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-678"><a href="#L-678"><span class="linenos"> 678</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">plateau_range</span><span class="p">:</span>
-</span><span id="L-679"><a href="#L-679"><span class="linenos"> 679</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
-</span><span id="L-680"><a href="#L-680"><span class="linenos"> 680</span></a>                <span class="n">plateau_range</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span>
-</span><span id="L-681"><a href="#L-681"><span class="linenos"> 681</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-682"><a href="#L-682"><span class="linenos"> 682</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;no plateau range provided&quot;</span><span class="p">)</span>
-</span><span id="L-683"><a href="#L-683"><span class="linenos"> 683</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-684"><a href="#L-684"><span class="linenos"> 684</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before getting a plateau.&quot;</span><span class="p">)</span>
-</span><span id="L-685"><a href="#L-685"><span class="linenos"> 685</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">plateau_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)])):</span>
-</span><span id="L-686"><a href="#L-686"><span class="linenos"> 686</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;plateau is undefined at all timeslices in plateaurange.&quot;</span><span class="p">)</span>
-</span><span id="L-687"><a href="#L-687"><span class="linenos"> 687</span></a>        <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
-</span><span id="L-688"><a href="#L-688"><span class="linenos"> 688</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="L-689"><a href="#L-689"><span class="linenos"> 689</span></a>        <span class="k">if</span> <span class="n">method</span> <span class="o">==</span> <span class="s2">&quot;fit&quot;</span><span class="p">:</span>
-</span><span id="L-690"><a href="#L-690"><span class="linenos"> 690</span></a>            <span class="k">def</span> <span class="nf">const_func</span><span class="p">(</span><span class="n">a</span><span class="p">,</span> <span class="n">t</span><span class="p">):</span>
-</span><span id="L-691"><a href="#L-691"><span class="linenos"> 691</span></a>                <span class="k">return</span> <span class="n">a</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-692"><a href="#L-692"><span class="linenos"> 692</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit</span><span class="p">(</span><span class="n">const_func</span><span class="p">,</span> <span class="n">plateau_range</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-693"><a href="#L-693"><span class="linenos"> 693</span></a>        <span class="k">elif</span> <span class="n">method</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;avg&quot;</span><span class="p">,</span> <span class="s2">&quot;average&quot;</span><span class="p">,</span> <span class="s2">&quot;mean&quot;</span><span class="p">]:</span>
-</span><span id="L-694"><a href="#L-694"><span class="linenos"> 694</span></a>            <span class="n">returnvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">([</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="n">item</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span>
-</span><span id="L-695"><a href="#L-695"><span class="linenos"> 695</span></a>            <span class="k">return</span> <span class="n">returnvalue</span>
-</span><span id="L-696"><a href="#L-696"><span class="linenos"> 696</span></a>
-</span><span id="L-697"><a href="#L-697"><span class="linenos"> 697</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-698"><a href="#L-698"><span class="linenos"> 698</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsupported plateau method: &quot;</span> <span class="o">+</span> <span class="n">method</span><span class="p">)</span>
-</span><span id="L-699"><a href="#L-699"><span class="linenos"> 699</span></a>
-</span><span id="L-700"><a href="#L-700"><span class="linenos"> 700</span></a>    <span class="k">def</span> <span class="nf">set_prange</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">prange</span><span class="p">):</span>
-</span><span id="L-701"><a href="#L-701"><span class="linenos"> 701</span></a>        <span class="sd">&quot;&quot;&quot;Sets the attribute prange of the Corr object.&quot;&quot;&quot;</span>
-</span><span id="L-702"><a href="#L-702"><span class="linenos"> 702</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">prange</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="L-703"><a href="#L-703"><span class="linenos"> 703</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;prange must be a list or array with two values&quot;</span><span class="p">)</span>
-</span><span id="L-704"><a href="#L-704"><span class="linenos"> 704</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">((</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">int</span><span class="p">))</span> <span class="ow">and</span> <span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="nb">int</span><span class="p">))):</span>
-</span><span id="L-705"><a href="#L-705"><span class="linenos"> 705</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Start and end point must be integers&quot;</span><span class="p">)</span>
-</span><span id="L-706"><a href="#L-706"><span class="linenos"> 706</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="mi">0</span> <span class="o">&lt;=</span> <span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="ow">and</span> <span class="mi">0</span> <span class="o">&lt;=</span> <span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="ow">and</span> <span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&lt;</span> <span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="L-707"><a href="#L-707"><span class="linenos"> 707</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Start and end point must define a range in the interval 0,T&quot;</span><span class="p">)</span>
-</span><span id="L-708"><a href="#L-708"><span class="linenos"> 708</span></a>
-</span><span id="L-709"><a href="#L-709"><span class="linenos"> 709</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">prange</span>
-</span><span id="L-710"><a href="#L-710"><span class="linenos"> 710</span></a>        <span class="k">return</span>
-</span><span id="L-711"><a href="#L-711"><span class="linenos"> 711</span></a>
-</span><span id="L-712"><a href="#L-712"><span class="linenos"> 712</span></a>    <span class="k">def</span> <span class="nf">show</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">comp</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">y_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">logscale</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">plateau</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">fit_res</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">ylabel</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">hide_sigma</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">references</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-713"><a href="#L-713"><span class="linenos"> 713</span></a>        <span class="sd">&quot;&quot;&quot;Plots the correlator using the tag of the correlator as label if available.</span>
-</span><span id="L-714"><a href="#L-714"><span class="linenos"> 714</span></a>
-</span><span id="L-715"><a href="#L-715"><span class="linenos"> 715</span></a><span class="sd">        Parameters</span>
-</span><span id="L-716"><a href="#L-716"><span class="linenos"> 716</span></a><span class="sd">        ----------</span>
-</span><span id="L-717"><a href="#L-717"><span class="linenos"> 717</span></a><span class="sd">        x_range : list</span>
-</span><span id="L-718"><a href="#L-718"><span class="linenos"> 718</span></a><span class="sd">            list of two values, determining the range of the x-axis e.g. [4, 8]</span>
-</span><span id="L-719"><a href="#L-719"><span class="linenos"> 719</span></a><span class="sd">        comp : Corr or list of Corr</span>
-</span><span id="L-720"><a href="#L-720"><span class="linenos"> 720</span></a><span class="sd">            Correlator or list of correlators which are plotted for comparison.</span>
-</span><span id="L-721"><a href="#L-721"><span class="linenos"> 721</span></a><span class="sd">            The tags of these correlators are used as labels if available.</span>
-</span><span id="L-722"><a href="#L-722"><span class="linenos"> 722</span></a><span class="sd">        logscale : bool</span>
-</span><span id="L-723"><a href="#L-723"><span class="linenos"> 723</span></a><span class="sd">            Sets y-axis to logscale</span>
-</span><span id="L-724"><a href="#L-724"><span class="linenos"> 724</span></a><span class="sd">        plateau : Obs</span>
-</span><span id="L-725"><a href="#L-725"><span class="linenos"> 725</span></a><span class="sd">            Plateau value to be visualized in the figure</span>
-</span><span id="L-726"><a href="#L-726"><span class="linenos"> 726</span></a><span class="sd">        fit_res : Fit_result</span>
-</span><span id="L-727"><a href="#L-727"><span class="linenos"> 727</span></a><span class="sd">            Fit_result object to be visualized</span>
-</span><span id="L-728"><a href="#L-728"><span class="linenos"> 728</span></a><span class="sd">        ylabel : str</span>
-</span><span id="L-729"><a href="#L-729"><span class="linenos"> 729</span></a><span class="sd">            Label for the y-axis</span>
-</span><span id="L-730"><a href="#L-730"><span class="linenos"> 730</span></a><span class="sd">        save : str</span>
-</span><span id="L-731"><a href="#L-731"><span class="linenos"> 731</span></a><span class="sd">            path to file in which the figure should be saved</span>
-</span><span id="L-732"><a href="#L-732"><span class="linenos"> 732</span></a><span class="sd">        auto_gamma : bool</span>
-</span><span id="L-733"><a href="#L-733"><span class="linenos"> 733</span></a><span class="sd">            Apply the gamma method with standard parameters to all correlators and plateau values before plotting.</span>
-</span><span id="L-734"><a href="#L-734"><span class="linenos"> 734</span></a><span class="sd">        hide_sigma : float</span>
-</span><span id="L-735"><a href="#L-735"><span class="linenos"> 735</span></a><span class="sd">            Hides data points from the first value on which is consistent with zero within &#39;hide_sigma&#39; standard errors.</span>
-</span><span id="L-736"><a href="#L-736"><span class="linenos"> 736</span></a><span class="sd">        references : list</span>
-</span><span id="L-737"><a href="#L-737"><span class="linenos"> 737</span></a><span class="sd">            List of floating point values that are displayed as horizontal lines for reference.</span>
-</span><span id="L-738"><a href="#L-738"><span class="linenos"> 738</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-739"><a href="#L-739"><span class="linenos"> 739</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-740"><a href="#L-740"><span class="linenos"> 740</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before plotting&quot;</span><span class="p">)</span>
-</span><span id="L-741"><a href="#L-741"><span class="linenos"> 741</span></a>
-</span><span id="L-742"><a href="#L-742"><span class="linenos"> 742</span></a>        <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
-</span><span id="L-743"><a href="#L-743"><span class="linenos"> 743</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="L-744"><a href="#L-744"><span class="linenos"> 744</span></a>
-</span><span id="L-745"><a href="#L-745"><span class="linenos"> 745</span></a>        <span class="k">if</span> <span class="n">x_range</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-746"><a href="#L-746"><span class="linenos"> 746</span></a>            <span class="n">x_range</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
-</span><span id="L-747"><a href="#L-747"><span class="linenos"> 747</span></a>
-</span><span id="L-748"><a href="#L-748"><span class="linenos"> 748</span></a>        <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="L-749"><a href="#L-749"><span class="linenos"> 749</span></a>        <span class="n">ax1</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">111</span><span class="p">)</span>
-</span><span id="L-750"><a href="#L-750"><span class="linenos"> 750</span></a>
-</span><span id="L-751"><a href="#L-751"><span class="linenos"> 751</span></a>        <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">y_err</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">plottable</span><span class="p">()</span>
-</span><span id="L-752"><a href="#L-752"><span class="linenos"> 752</span></a>        <span class="k">if</span> <span class="n">hide_sigma</span><span class="p">:</span>
-</span><span id="L-753"><a href="#L-753"><span class="linenos"> 753</span></a>            <span class="n">hide_from</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">((</span><span class="n">hide_sigma</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">y_err</span><span class="p">))</span> <span class="o">&gt;</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="L-754"><a href="#L-754"><span class="linenos"> 754</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-755"><a href="#L-755"><span class="linenos"> 755</span></a>            <span class="n">hide_from</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-756"><a href="#L-756"><span class="linenos"> 756</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y_err</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">label</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
-</span><span id="L-757"><a href="#L-757"><span class="linenos"> 757</span></a>        <span class="k">if</span> <span class="n">logscale</span><span class="p">:</span>
-</span><span id="L-758"><a href="#L-758"><span class="linenos"> 758</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">set_yscale</span><span class="p">(</span><span class="s1">&#39;log&#39;</span><span class="p">)</span>
-</span><span id="L-759"><a href="#L-759"><span class="linenos"> 759</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-760"><a href="#L-760"><span class="linenos"> 760</span></a>            <span class="k">if</span> <span class="n">y_range</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-761"><a href="#L-761"><span class="linenos"> 761</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="L-762"><a href="#L-762"><span class="linenos"> 762</span></a>                    <span class="n">y_min</span> <span class="o">=</span> <span class="nb">min</span><span class="p">([(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="p">(</span><span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">and</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">&lt;</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="L-763"><a href="#L-763"><span class="linenos"> 763</span></a>                    <span class="n">y_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="p">(</span><span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">and</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">&lt;</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="L-764"><a href="#L-764"><span class="linenos"> 764</span></a>                    <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">([</span><span class="n">y_min</span> <span class="o">-</span> <span class="mf">0.1</span> <span class="o">*</span> <span class="p">(</span><span class="n">y_max</span> <span class="o">-</span> <span class="n">y_min</span><span class="p">),</span> <span class="n">y_max</span> <span class="o">+</span> <span class="mf">0.1</span> <span class="o">*</span> <span class="p">(</span><span class="n">y_max</span> <span class="o">-</span> <span class="n">y_min</span><span class="p">)])</span>
-</span><span id="L-765"><a href="#L-765"><span class="linenos"> 765</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="L-766"><a href="#L-766"><span class="linenos"> 766</span></a>                    <span class="k">pass</span>
-</span><span id="L-767"><a href="#L-767"><span class="linenos"> 767</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-768"><a href="#L-768"><span class="linenos"> 768</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">(</span><span class="n">y_range</span><span class="p">)</span>
-</span><span id="L-769"><a href="#L-769"><span class="linenos"> 769</span></a>        <span class="k">if</span> <span class="n">comp</span><span class="p">:</span>
-</span><span id="L-770"><a href="#L-770"><span class="linenos"> 770</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">comp</span><span class="p">,</span> <span class="p">(</span><span class="n">Corr</span><span class="p">,</span> <span class="nb">list</span><span class="p">)):</span>
-</span><span id="L-771"><a href="#L-771"><span class="linenos"> 771</span></a>                <span class="k">for</span> <span class="n">corr</span> <span class="ow">in</span> <span class="n">comp</span> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">comp</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="k">else</span> <span class="p">[</span><span class="n">comp</span><span class="p">]:</span>
-</span><span id="L-772"><a href="#L-772"><span class="linenos"> 772</span></a>                    <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
-</span><span id="L-773"><a href="#L-773"><span class="linenos"> 773</span></a>                        <span class="n">corr</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="L-774"><a href="#L-774"><span class="linenos"> 774</span></a>                    <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">y_err</span> <span class="o">=</span> <span class="n">corr</span><span class="o">.</span><span class="n">plottable</span><span class="p">()</span>
-</span><span id="L-775"><a href="#L-775"><span class="linenos"> 775</span></a>                    <span class="k">if</span> <span class="n">hide_sigma</span><span class="p">:</span>
-</span><span id="L-776"><a href="#L-776"><span class="linenos"> 776</span></a>                        <span class="n">hide_from</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">((</span><span class="n">hide_sigma</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">y_err</span><span class="p">))</span> <span class="o">&gt;</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="L-777"><a href="#L-777"><span class="linenos"> 777</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-778"><a href="#L-778"><span class="linenos"> 778</span></a>                        <span class="n">hide_from</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-779"><a href="#L-779"><span class="linenos"> 779</span></a>                    <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y_err</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">label</span><span class="o">=</span><span class="n">corr</span><span class="o">.</span><span class="n">tag</span><span class="p">,</span> <span class="n">mfc</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;axes.facecolor&#39;</span><span class="p">])</span>
-</span><span id="L-780"><a href="#L-780"><span class="linenos"> 780</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-781"><a href="#L-781"><span class="linenos"> 781</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;comp&#39; must be a correlator or a list of correlators.&quot;</span><span class="p">)</span>
-</span><span id="L-782"><a href="#L-782"><span class="linenos"> 782</span></a>
-</span><span id="L-783"><a href="#L-783"><span class="linenos"> 783</span></a>        <span class="k">if</span> <span class="n">plateau</span><span class="p">:</span>
-</span><span id="L-784"><a href="#L-784"><span class="linenos"> 784</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">plateau</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-785"><a href="#L-785"><span class="linenos"> 785</span></a>                <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
-</span><span id="L-786"><a href="#L-786"><span class="linenos"> 786</span></a>                    <span class="n">plateau</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="L-787"><a href="#L-787"><span class="linenos"> 787</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="n">plateau</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="nb">str</span><span class="p">(</span><span class="n">plateau</span><span class="p">))</span>
-</span><span id="L-788"><a href="#L-788"><span class="linenos"> 788</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">axhspan</span><span class="p">(</span><span class="n">plateau</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">plateau</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">plateau</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">plateau</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.25</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">)</span>
-</span><span id="L-789"><a href="#L-789"><span class="linenos"> 789</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-790"><a href="#L-790"><span class="linenos"> 790</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;plateau&#39; must be an Obs&quot;</span><span class="p">)</span>
-</span><span id="L-791"><a href="#L-791"><span class="linenos"> 791</span></a>
-</span><span id="L-792"><a href="#L-792"><span class="linenos"> 792</span></a>        <span class="k">if</span> <span class="n">references</span><span class="p">:</span>
-</span><span id="L-793"><a href="#L-793"><span class="linenos"> 793</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">references</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-794"><a href="#L-794"><span class="linenos"> 794</span></a>                <span class="k">for</span> <span class="n">ref</span> <span class="ow">in</span> <span class="n">references</span><span class="p">:</span>
-</span><span id="L-795"><a href="#L-795"><span class="linenos"> 795</span></a>                    <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="n">ref</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">)</span>
-</span><span id="L-796"><a href="#L-796"><span class="linenos"> 796</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-797"><a href="#L-797"><span class="linenos"> 797</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;references&#39; must be a list of floating pint values.&quot;</span><span class="p">)</span>
-</span><span id="L-798"><a href="#L-798"><span class="linenos"> 798</span></a>
-</span><span id="L-799"><a href="#L-799"><span class="linenos"> 799</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
-</span><span id="L-800"><a href="#L-800"><span class="linenos"> 800</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="L-801"><a href="#L-801"><span class="linenos"> 801</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="L-802"><a href="#L-802"><span class="linenos"> 802</span></a>
-</span><span id="L-803"><a href="#L-803"><span class="linenos"> 803</span></a>        <span class="k">if</span> <span class="n">fit_res</span><span class="p">:</span>
-</span><span id="L-804"><a href="#L-804"><span class="linenos"> 804</span></a>            <span class="n">x_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mf">0.05</span><span class="p">)</span>
-</span><span id="L-805"><a href="#L-805"><span class="linenos"> 805</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span>
-</span><span id="L-806"><a href="#L-806"><span class="linenos"> 806</span></a>                     <span class="n">fit_res</span><span class="o">.</span><span class="n">fit_function</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">],</span> <span class="n">x_samples</span><span class="p">),</span>
-</span><span id="L-807"><a href="#L-807"><span class="linenos"> 807</span></a>                     <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
-</span><span id="L-808"><a href="#L-808"><span class="linenos"> 808</span></a>
-</span><span id="L-809"><a href="#L-809"><span class="linenos"> 809</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$x_0 / a$&#39;</span><span class="p">)</span>
-</span><span id="L-810"><a href="#L-810"><span class="linenos"> 810</span></a>        <span class="k">if</span> <span class="n">ylabel</span><span class="p">:</span>
-</span><span id="L-811"><a href="#L-811"><span class="linenos"> 811</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="n">ylabel</span><span class="p">)</span>
-</span><span id="L-812"><a href="#L-812"><span class="linenos"> 812</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">,</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">])</span>
-</span><span id="L-813"><a href="#L-813"><span class="linenos"> 813</span></a>
-</span><span id="L-814"><a href="#L-814"><span class="linenos"> 814</span></a>        <span class="n">handles</span><span class="p">,</span> <span class="n">labels</span> <span class="o">=</span> <span class="n">ax1</span><span class="o">.</span><span class="n">get_legend_handles_labels</span><span class="p">()</span>
-</span><span id="L-815"><a href="#L-815"><span class="linenos"> 815</span></a>        <span class="k">if</span> <span class="n">labels</span><span class="p">:</span>
-</span><span id="L-816"><a href="#L-816"><span class="linenos"> 816</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
-</span><span id="L-817"><a href="#L-817"><span class="linenos"> 817</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="L-818"><a href="#L-818"><span class="linenos"> 818</span></a>
-</span><span id="L-819"><a href="#L-819"><span class="linenos"> 819</span></a>        <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
-</span><span id="L-820"><a href="#L-820"><span class="linenos"> 820</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">save</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="L-821"><a href="#L-821"><span class="linenos"> 821</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span><span class="p">)</span>
-</span><span id="L-822"><a href="#L-822"><span class="linenos"> 822</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-823"><a href="#L-823"><span class="linenos"> 823</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;save&#39; has to be a string.&quot;</span><span class="p">)</span>
-</span><span id="L-824"><a href="#L-824"><span class="linenos"> 824</span></a>
-</span><span id="L-825"><a href="#L-825"><span class="linenos"> 825</span></a>    <span class="k">def</span> <span class="nf">spaghetti_plot</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">logscale</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="L-826"><a href="#L-826"><span class="linenos"> 826</span></a>        <span class="sd">&quot;&quot;&quot;Produces a spaghetti plot of the correlator suited to monitor exceptional configurations.</span>
-</span><span id="L-827"><a href="#L-827"><span class="linenos"> 827</span></a>
-</span><span id="L-828"><a href="#L-828"><span class="linenos"> 828</span></a><span class="sd">        Parameters</span>
-</span><span id="L-829"><a href="#L-829"><span class="linenos"> 829</span></a><span class="sd">        ----------</span>
-</span><span id="L-830"><a href="#L-830"><span class="linenos"> 830</span></a><span class="sd">        logscale : bool</span>
-</span><span id="L-831"><a href="#L-831"><span class="linenos"> 831</span></a><span class="sd">            Determines whether the scale of the y-axis is logarithmic or standard.</span>
-</span><span id="L-832"><a href="#L-832"><span class="linenos"> 832</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-833"><a href="#L-833"><span class="linenos"> 833</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-834"><a href="#L-834"><span class="linenos"> 834</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator needs to be projected first.&quot;</span><span class="p">)</span>
-</span><span id="L-835"><a href="#L-835"><span class="linenos"> 835</span></a>
-</span><span id="L-836"><a href="#L-836"><span class="linenos"> 836</span></a>        <span class="n">mc_names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">mc_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]))</span>
-</span><span id="L-837"><a href="#L-837"><span class="linenos"> 837</span></a>        <span class="n">x0_vals</span> <span class="o">=</span> <span class="p">[</span><span class="n">n</span> <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">o</span><span class="p">)</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="L-838"><a href="#L-838"><span class="linenos"> 838</span></a>
-</span><span id="L-839"><a href="#L-839"><span class="linenos"> 839</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
-</span><span id="L-840"><a href="#L-840"><span class="linenos"> 840</span></a>            <span class="n">data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span><span class="o">.</span><span class="n">T</span>
-</span><span id="L-841"><a href="#L-841"><span class="linenos"> 841</span></a>
-</span><span id="L-842"><a href="#L-842"><span class="linenos"> 842</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="L-843"><a href="#L-843"><span class="linenos"> 843</span></a>            <span class="n">ax</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">111</span><span class="p">)</span>
-</span><span id="L-844"><a href="#L-844"><span class="linenos"> 844</span></a>            <span class="k">for</span> <span class="n">dat</span> <span class="ow">in</span> <span class="n">data</span><span class="p">:</span>
-</span><span id="L-845"><a href="#L-845"><span class="linenos"> 845</span></a>                <span class="n">ax</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x0_vals</span><span class="p">,</span> <span class="n">dat</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="L-846"><a href="#L-846"><span class="linenos"> 846</span></a>
-</span><span id="L-847"><a href="#L-847"><span class="linenos"> 847</span></a>            <span class="k">if</span> <span class="n">logscale</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-848"><a href="#L-848"><span class="linenos"> 848</span></a>                <span class="n">ax</span><span class="o">.</span><span class="n">set_yscale</span><span class="p">(</span><span class="s1">&#39;log&#39;</span><span class="p">)</span>
-</span><span id="L-849"><a href="#L-849"><span class="linenos"> 849</span></a>
-</span><span id="L-850"><a href="#L-850"><span class="linenos"> 850</span></a>            <span class="n">ax</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$x_0 / a$&#39;</span><span class="p">)</span>
-</span><span id="L-851"><a href="#L-851"><span class="linenos"> 851</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="L-852"><a href="#L-852"><span class="linenos"> 852</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="L-853"><a href="#L-853"><span class="linenos"> 853</span></a>
-</span><span id="L-854"><a href="#L-854"><span class="linenos"> 854</span></a>    <span class="k">def</span> <span class="nf">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="n">datatype</span><span class="o">=</span><span class="s2">&quot;json.gz&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-855"><a href="#L-855"><span class="linenos"> 855</span></a>        <span class="sd">&quot;&quot;&quot;Dumps the Corr into a file of chosen type</span>
-</span><span id="L-856"><a href="#L-856"><span class="linenos"> 856</span></a><span class="sd">        Parameters</span>
-</span><span id="L-857"><a href="#L-857"><span class="linenos"> 857</span></a><span class="sd">        ----------</span>
-</span><span id="L-858"><a href="#L-858"><span class="linenos"> 858</span></a><span class="sd">        filename : str</span>
-</span><span id="L-859"><a href="#L-859"><span class="linenos"> 859</span></a><span class="sd">            Name of the file to be saved.</span>
-</span><span id="L-860"><a href="#L-860"><span class="linenos"> 860</span></a><span class="sd">        datatype : str</span>
-</span><span id="L-861"><a href="#L-861"><span class="linenos"> 861</span></a><span class="sd">            Format of the exported file. Supported formats include</span>
-</span><span id="L-862"><a href="#L-862"><span class="linenos"> 862</span></a><span class="sd">            &quot;json.gz&quot; and &quot;pickle&quot;</span>
-</span><span id="L-863"><a href="#L-863"><span class="linenos"> 863</span></a><span class="sd">        path : str</span>
-</span><span id="L-864"><a href="#L-864"><span class="linenos"> 864</span></a><span class="sd">            specifies a custom path for the file (default &#39;.&#39;)</span>
-</span><span id="L-865"><a href="#L-865"><span class="linenos"> 865</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-866"><a href="#L-866"><span class="linenos"> 866</span></a>        <span class="k">if</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;json.gz&quot;</span><span class="p">:</span>
-</span><span id="L-867"><a href="#L-867"><span class="linenos"> 867</span></a>            <span class="kn">from</span> <span class="nn">.input.json</span> <span class="kn">import</span> <span class="n">dump_to_json</span>
-</span><span id="L-868"><a href="#L-868"><span class="linenos"> 868</span></a>            <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-869"><a href="#L-869"><span class="linenos"> 869</span></a>                <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">filename</span>
-</span><span id="L-870"><a href="#L-870"><span class="linenos"> 870</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-871"><a href="#L-871"><span class="linenos"> 871</span></a>                <span class="n">file_name</span> <span class="o">=</span> <span class="n">filename</span>
-</span><span id="L-872"><a href="#L-872"><span class="linenos"> 872</span></a>            <span class="n">dump_to_json</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">file_name</span><span class="p">)</span>
-</span><span id="L-873"><a href="#L-873"><span class="linenos"> 873</span></a>        <span class="k">elif</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;pickle&quot;</span><span class="p">:</span>
-</span><span id="L-874"><a href="#L-874"><span class="linenos"> 874</span></a>            <span class="n">dump_object</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-875"><a href="#L-875"><span class="linenos"> 875</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-876"><a href="#L-876"><span class="linenos"> 876</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown datatype &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">datatype</span><span class="p">))</span>
-</span><span id="L-877"><a href="#L-877"><span class="linenos"> 877</span></a>
-</span><span id="L-878"><a href="#L-878"><span class="linenos"> 878</span></a>    <span class="k">def</span> <span class="nf">print</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="nb">range</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="kc">None</span><span class="p">]):</span>
-</span><span id="L-879"><a href="#L-879"><span class="linenos"> 879</span></a>        <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="fm">__repr__</span><span class="p">(</span><span class="nb">range</span><span class="p">))</span>
-</span><span id="L-880"><a href="#L-880"><span class="linenos"> 880</span></a>
-</span><span id="L-881"><a href="#L-881"><span class="linenos"> 881</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="nb">range</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="kc">None</span><span class="p">]):</span>
-</span><span id="L-882"><a href="#L-882"><span class="linenos"> 882</span></a>        <span class="n">content_string</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
-</span><span id="L-883"><a href="#L-883"><span class="linenos"> 883</span></a>
-</span><span id="L-884"><a href="#L-884"><span class="linenos"> 884</span></a>        <span class="n">content_string</span> <span class="o">+=</span> <span class="s2">&quot;Corr T=&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot; N=&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\n</span><span class="s2">&quot;</span>  <span class="c1"># +&quot; filled with&quot;+ str(type(self.content[0][0])) there should be a good solution here</span>
-</span><span id="L-885"><a href="#L-885"><span class="linenos"> 885</span></a>
-</span><span id="L-886"><a href="#L-886"><span class="linenos"> 886</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-887"><a href="#L-887"><span class="linenos"> 887</span></a>            <span class="n">content_string</span> <span class="o">+=</span> <span class="s2">&quot;Description: &quot;</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\n</span><span class="s2">&quot;</span>
-</span><span id="L-888"><a href="#L-888"><span class="linenos"> 888</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-889"><a href="#L-889"><span class="linenos"> 889</span></a>            <span class="k">return</span> <span class="n">content_string</span>
-</span><span id="L-890"><a href="#L-890"><span class="linenos"> 890</span></a>
-</span><span id="L-891"><a href="#L-891"><span class="linenos"> 891</span></a>        <span class="k">if</span> <span class="nb">range</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
-</span><span id="L-892"><a href="#L-892"><span class="linenos"> 892</span></a>            <span class="nb">range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-893"><a href="#L-893"><span class="linenos"> 893</span></a>        <span class="n">content_string</span> <span class="o">+=</span> <span class="s1">&#39;x0/a</span><span class="se">\t</span><span class="s1">Corr(x0/a)</span><span class="se">\n</span><span class="s1">------------------</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-894"><a href="#L-894"><span class="linenos"> 894</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">sub_corr</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="nb">range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span><span class="nb">range</span><span class="p">[</span><span class="mi">1</span><span class="p">]]):</span>
-</span><span id="L-895"><a href="#L-895"><span class="linenos"> 895</span></a>            <span class="k">if</span> <span class="n">sub_corr</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-896"><a href="#L-896"><span class="linenos"> 896</span></a>                <span class="n">content_string</span> <span class="o">+=</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="nb">range</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-897"><a href="#L-897"><span class="linenos"> 897</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-898"><a href="#L-898"><span class="linenos"> 898</span></a>                <span class="n">content_string</span> <span class="o">+=</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="nb">range</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-899"><a href="#L-899"><span class="linenos"> 899</span></a>                <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">sub_corr</span><span class="p">:</span>
-</span><span id="L-900"><a href="#L-900"><span class="linenos"> 900</span></a>                    <span class="n">content_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">*</span> <span class="nb">int</span><span class="p">(</span><span class="n">element</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="L-901"><a href="#L-901"><span class="linenos"> 901</span></a>                <span class="n">content_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-902"><a href="#L-902"><span class="linenos"> 902</span></a>        <span class="k">return</span> <span class="n">content_string</span>
-</span><span id="L-903"><a href="#L-903"><span class="linenos"> 903</span></a>
-</span><span id="L-904"><a href="#L-904"><span class="linenos"> 904</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-905"><a href="#L-905"><span class="linenos"> 905</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="fm">__repr__</span><span class="p">()</span>
-</span><span id="L-906"><a href="#L-906"><span class="linenos"> 906</span></a>
-</span><span id="L-907"><a href="#L-907"><span class="linenos"> 907</span></a>    <span class="c1"># We define the basic operations, that can be performed with correlators.</span>
-</span><span id="L-908"><a href="#L-908"><span class="linenos"> 908</span></a>    <span class="c1"># While */+- get defined here, they only work for Corr*Obs and not Obs*Corr.</span>
-</span><span id="L-909"><a href="#L-909"><span class="linenos"> 909</span></a>    <span class="c1"># This is because Obs*Corr checks Obs.__mul__ first and does not catch an exception.</span>
-</span><span id="L-910"><a href="#L-910"><span class="linenos"> 910</span></a>    <span class="c1"># One could try and tell Obs to check if the y in __mul__ is a Corr and</span>
-</span><span id="L-911"><a href="#L-911"><span class="linenos"> 911</span></a>
-</span><span id="L-912"><a href="#L-912"><span class="linenos"> 912</span></a>    <span class="k">def</span> <span class="fm">__add__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-913"><a href="#L-913"><span class="linenos"> 913</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="L-914"><a href="#L-914"><span class="linenos"> 914</span></a>            <span class="k">if</span> <span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">!=</span> <span class="n">y</span><span class="o">.</span><span class="n">T</span><span class="p">)):</span>
-</span><span id="L-915"><a href="#L-915"><span class="linenos"> 915</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Addition of Corrs with different shape&quot;</span><span class="p">)</span>
-</span><span id="L-916"><a href="#L-916"><span class="linenos"> 916</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-917"><a href="#L-917"><span class="linenos"> 917</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-918"><a href="#L-918"><span class="linenos"> 918</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-919"><a href="#L-919"><span class="linenos"> 919</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-920"><a href="#L-920"><span class="linenos"> 920</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-921"><a href="#L-921"><span class="linenos"> 921</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="L-922"><a href="#L-922"><span class="linenos"> 922</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="L-923"><a href="#L-923"><span class="linenos"> 923</span></a>
-</span><span id="L-924"><a href="#L-924"><span class="linenos"> 924</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
-</span><span id="L-925"><a href="#L-925"><span class="linenos"> 925</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-926"><a href="#L-926"><span class="linenos"> 926</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-927"><a href="#L-927"><span class="linenos"> 927</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-928"><a href="#L-928"><span class="linenos"> 928</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-929"><a href="#L-929"><span class="linenos"> 929</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-930"><a href="#L-930"><span class="linenos"> 930</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="n">y</span><span class="p">)</span>
-</span><span id="L-931"><a href="#L-931"><span class="linenos"> 931</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="L-932"><a href="#L-932"><span class="linenos"> 932</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-933"><a href="#L-933"><span class="linenos"> 933</span></a>            <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">,):</span>
-</span><span id="L-934"><a href="#L-934"><span class="linenos"> 934</span></a>                <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span><span class="o">.</span><span class="n">T</span> <span class="o">+</span> <span class="n">y</span><span class="p">)</span><span class="o">.</span><span class="n">T</span><span class="p">))</span>
-</span><span id="L-935"><a href="#L-935"><span class="linenos"> 935</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-936"><a href="#L-936"><span class="linenos"> 936</span></a>                <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;operands could not be broadcast together&quot;</span><span class="p">)</span>
-</span><span id="L-937"><a href="#L-937"><span class="linenos"> 937</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-938"><a href="#L-938"><span class="linenos"> 938</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s2">&quot;Corr + wrong type&quot;</span><span class="p">)</span>
-</span><span id="L-939"><a href="#L-939"><span class="linenos"> 939</span></a>
-</span><span id="L-940"><a href="#L-940"><span class="linenos"> 940</span></a>    <span class="k">def</span> <span class="fm">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-941"><a href="#L-941"><span class="linenos"> 941</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="L-942"><a href="#L-942"><span class="linenos"> 942</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-943"><a href="#L-943"><span class="linenos"> 943</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multiplication of Corr object requires N=N or N=1 and T=T&quot;</span><span class="p">)</span>
-</span><span id="L-944"><a href="#L-944"><span class="linenos"> 944</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-945"><a href="#L-945"><span class="linenos"> 945</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-946"><a href="#L-946"><span class="linenos"> 946</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-947"><a href="#L-947"><span class="linenos"> 947</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-948"><a href="#L-948"><span class="linenos"> 948</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-949"><a href="#L-949"><span class="linenos"> 949</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">*</span> <span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="L-950"><a href="#L-950"><span class="linenos"> 950</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="L-951"><a href="#L-951"><span class="linenos"> 951</span></a>
-</span><span id="L-952"><a href="#L-952"><span class="linenos"> 952</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
-</span><span id="L-953"><a href="#L-953"><span class="linenos"> 953</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-954"><a href="#L-954"><span class="linenos"> 954</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-955"><a href="#L-955"><span class="linenos"> 955</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-956"><a href="#L-956"><span class="linenos"> 956</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-957"><a href="#L-957"><span class="linenos"> 957</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-958"><a href="#L-958"><span class="linenos"> 958</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">*</span> <span class="n">y</span><span class="p">)</span>
-</span><span id="L-959"><a href="#L-959"><span class="linenos"> 959</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="L-960"><a href="#L-960"><span class="linenos"> 960</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-961"><a href="#L-961"><span class="linenos"> 961</span></a>            <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">,):</span>
-</span><span id="L-962"><a href="#L-962"><span class="linenos"> 962</span></a>                <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span><span class="o">.</span><span class="n">T</span> <span class="o">*</span> <span class="n">y</span><span class="p">)</span><span class="o">.</span><span class="n">T</span><span class="p">))</span>
-</span><span id="L-963"><a href="#L-963"><span class="linenos"> 963</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-964"><a href="#L-964"><span class="linenos"> 964</span></a>                <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;operands could not be broadcast together&quot;</span><span class="p">)</span>
-</span><span id="L-965"><a href="#L-965"><span class="linenos"> 965</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-966"><a href="#L-966"><span class="linenos"> 966</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s2">&quot;Corr * wrong type&quot;</span><span class="p">)</span>
-</span><span id="L-967"><a href="#L-967"><span class="linenos"> 967</span></a>
-</span><span id="L-968"><a href="#L-968"><span class="linenos"> 968</span></a>    <span class="k">def</span> <span class="fm">__truediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-969"><a href="#L-969"><span class="linenos"> 969</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="L-970"><a href="#L-970"><span class="linenos"> 970</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-971"><a href="#L-971"><span class="linenos"> 971</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multiplication of Corr object requires N=N or N=1 and T=T&quot;</span><span class="p">)</span>
-</span><span id="L-972"><a href="#L-972"><span class="linenos"> 972</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-973"><a href="#L-973"><span class="linenos"> 973</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-974"><a href="#L-974"><span class="linenos"> 974</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-975"><a href="#L-975"><span class="linenos"> 975</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-976"><a href="#L-976"><span class="linenos"> 976</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-977"><a href="#L-977"><span class="linenos"> 977</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="L-978"><a href="#L-978"><span class="linenos"> 978</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-979"><a href="#L-979"><span class="linenos"> 979</span></a>                <span class="k">if</span> <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-980"><a href="#L-980"><span class="linenos"> 980</span></a>                    <span class="k">continue</span>
-</span><span id="L-981"><a href="#L-981"><span class="linenos"> 981</span></a>                <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">])</span><span class="o">.</span><span class="n">value</span><span class="p">):</span>
-</span><span id="L-982"><a href="#L-982"><span class="linenos"> 982</span></a>                    <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-983"><a href="#L-983"><span class="linenos"> 983</span></a>
-</span><span id="L-984"><a href="#L-984"><span class="linenos"> 984</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">]):</span>
-</span><span id="L-985"><a href="#L-985"><span class="linenos"> 985</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Division returns completely undefined correlator&quot;</span><span class="p">)</span>
-</span><span id="L-986"><a href="#L-986"><span class="linenos"> 986</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="L-987"><a href="#L-987"><span class="linenos"> 987</span></a>
-</span><span id="L-988"><a href="#L-988"><span class="linenos"> 988</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
-</span><span id="L-989"><a href="#L-989"><span class="linenos"> 989</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-990"><a href="#L-990"><span class="linenos"> 990</span></a>                <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-991"><a href="#L-991"><span class="linenos"> 991</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Division by zero will return undefined correlator&#39;</span><span class="p">)</span>
-</span><span id="L-992"><a href="#L-992"><span class="linenos"> 992</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">CObs</span><span class="p">):</span>
-</span><span id="L-993"><a href="#L-993"><span class="linenos"> 993</span></a>                <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">is_zero</span><span class="p">():</span>
-</span><span id="L-994"><a href="#L-994"><span class="linenos"> 994</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Division by zero will return undefined correlator&#39;</span><span class="p">)</span>
-</span><span id="L-995"><a href="#L-995"><span class="linenos"> 995</span></a>
-</span><span id="L-996"><a href="#L-996"><span class="linenos"> 996</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-997"><a href="#L-997"><span class="linenos"> 997</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-998"><a href="#L-998"><span class="linenos"> 998</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-999"><a href="#L-999"><span class="linenos"> 999</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-1000"><a href="#L-1000"><span class="linenos">1000</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1001"><a href="#L-1001"><span class="linenos">1001</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span>
-</span><span id="L-1002"><a href="#L-1002"><span class="linenos">1002</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="L-1003"><a href="#L-1003"><span class="linenos">1003</span></a>
-</span><span id="L-1004"><a href="#L-1004"><span class="linenos">1004</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
-</span><span id="L-1005"><a href="#L-1005"><span class="linenos">1005</span></a>            <span class="k">if</span> <span class="n">y</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-1006"><a href="#L-1006"><span class="linenos">1006</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Division by zero will return undefined correlator&#39;</span><span class="p">)</span>
-</span><span id="L-1007"><a href="#L-1007"><span class="linenos">1007</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1008"><a href="#L-1008"><span class="linenos">1008</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-1009"><a href="#L-1009"><span class="linenos">1009</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="L-1010"><a href="#L-1010"><span class="linenos">1010</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-1011"><a href="#L-1011"><span class="linenos">1011</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1012"><a href="#L-1012"><span class="linenos">1012</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span>
-</span><span id="L-1013"><a href="#L-1013"><span class="linenos">1013</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="L-1014"><a href="#L-1014"><span class="linenos">1014</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-1015"><a href="#L-1015"><span class="linenos">1015</span></a>            <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">,):</span>
-</span><span id="L-1016"><a href="#L-1016"><span class="linenos">1016</span></a>                <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span><span class="o">.</span><span class="n">T</span><span class="p">))</span>
-</span><span id="L-1017"><a href="#L-1017"><span class="linenos">1017</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1018"><a href="#L-1018"><span class="linenos">1018</span></a>                <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;operands could not be broadcast together&quot;</span><span class="p">)</span>
-</span><span id="L-1019"><a href="#L-1019"><span class="linenos">1019</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1020"><a href="#L-1020"><span class="linenos">1020</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;Corr / wrong type&#39;</span><span class="p">)</span>
-</span><span id="L-1021"><a href="#L-1021"><span class="linenos">1021</span></a>
-</span><span id="L-1022"><a href="#L-1022"><span class="linenos">1022</span></a>    <span class="k">def</span> <span class="fm">__neg__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1023"><a href="#L-1023"><span class="linenos">1023</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="o">-</span><span class="mf">1.</span> <span class="o">*</span> <span class="n">item</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="L-1024"><a href="#L-1024"><span class="linenos">1024</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="L-1025"><a href="#L-1025"><span class="linenos">1025</span></a>
-</span><span id="L-1026"><a href="#L-1026"><span class="linenos">1026</span></a>    <span class="k">def</span> <span class="fm">__sub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-1027"><a href="#L-1027"><span class="linenos">1027</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="p">(</span><span class="o">-</span><span class="n">y</span><span class="p">)</span>
-</span><span id="L-1028"><a href="#L-1028"><span class="linenos">1028</span></a>
-</span><span id="L-1029"><a href="#L-1029"><span class="linenos">1029</span></a>    <span class="k">def</span> <span class="fm">__pow__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-1030"><a href="#L-1030"><span class="linenos">1030</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
-</span><span id="L-1031"><a href="#L-1031"><span class="linenos">1031</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">item</span><span class="o">**</span><span class="n">y</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="L-1032"><a href="#L-1032"><span class="linenos">1032</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="L-1033"><a href="#L-1033"><span class="linenos">1033</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1034"><a href="#L-1034"><span class="linenos">1034</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;Type of exponent not supported&#39;</span><span class="p">)</span>
-</span><span id="L-1035"><a href="#L-1035"><span class="linenos">1035</span></a>
-</span><span id="L-1036"><a href="#L-1036"><span class="linenos">1036</span></a>    <span class="k">def</span> <span class="fm">__abs__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1037"><a href="#L-1037"><span class="linenos">1037</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="L-1038"><a href="#L-1038"><span class="linenos">1038</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="L-1039"><a href="#L-1039"><span class="linenos">1039</span></a>
-</span><span id="L-1040"><a href="#L-1040"><span class="linenos">1040</span></a>    <span class="c1"># The numpy functions:</span>
-</span><span id="L-1041"><a href="#L-1041"><span class="linenos">1041</span></a>    <span class="k">def</span> <span class="nf">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1042"><a href="#L-1042"><span class="linenos">1042</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">**</span><span class="mf">0.5</span>
-</span><span id="L-1043"><a href="#L-1043"><span class="linenos">1043</span></a>
-</span><span id="L-1044"><a href="#L-1044"><span class="linenos">1044</span></a>    <span class="k">def</span> <span class="nf">log</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1045"><a href="#L-1045"><span class="linenos">1045</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="L-1046"><a href="#L-1046"><span class="linenos">1046</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="L-1047"><a href="#L-1047"><span class="linenos">1047</span></a>
-</span><span id="L-1048"><a href="#L-1048"><span class="linenos">1048</span></a>    <span class="k">def</span> <span class="nf">exp</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1049"><a href="#L-1049"><span class="linenos">1049</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="L-1050"><a href="#L-1050"><span class="linenos">1050</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="L-1051"><a href="#L-1051"><span class="linenos">1051</span></a>
-</span><span id="L-1052"><a href="#L-1052"><span class="linenos">1052</span></a>    <span class="k">def</span> <span class="nf">_apply_func_to_corr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">func</span><span class="p">):</span>
-</span><span id="L-1053"><a href="#L-1053"><span class="linenos">1053</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">func</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="L-1054"><a href="#L-1054"><span class="linenos">1054</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-1055"><a href="#L-1055"><span class="linenos">1055</span></a>            <span class="k">if</span> <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-1056"><a href="#L-1056"><span class="linenos">1056</span></a>                <span class="k">continue</span>
-</span><span id="L-1057"><a href="#L-1057"><span class="linenos">1057</span></a>            <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">])</span><span class="o">.</span><span class="n">value</span><span class="p">):</span>
-</span><span id="L-1058"><a href="#L-1058"><span class="linenos">1058</span></a>                <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-1059"><a href="#L-1059"><span class="linenos">1059</span></a>        <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">]):</span>
-</span><span id="L-1060"><a href="#L-1060"><span class="linenos">1060</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Operation returns undefined correlator&#39;</span><span class="p">)</span>
-</span><span id="L-1061"><a href="#L-1061"><span class="linenos">1061</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="L-1062"><a href="#L-1062"><span class="linenos">1062</span></a>
-</span><span id="L-1063"><a href="#L-1063"><span class="linenos">1063</span></a>    <span class="k">def</span> <span class="nf">sin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1064"><a href="#L-1064"><span class="linenos">1064</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">)</span>
-</span><span id="L-1065"><a href="#L-1065"><span class="linenos">1065</span></a>
-</span><span id="L-1066"><a href="#L-1066"><span class="linenos">1066</span></a>    <span class="k">def</span> <span class="nf">cos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1067"><a href="#L-1067"><span class="linenos">1067</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">)</span>
-</span><span id="L-1068"><a href="#L-1068"><span class="linenos">1068</span></a>
-</span><span id="L-1069"><a href="#L-1069"><span class="linenos">1069</span></a>    <span class="k">def</span> <span class="nf">tan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1070"><a href="#L-1070"><span class="linenos">1070</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">tan</span><span class="p">)</span>
-</span><span id="L-1071"><a href="#L-1071"><span class="linenos">1071</span></a>
-</span><span id="L-1072"><a href="#L-1072"><span class="linenos">1072</span></a>    <span class="k">def</span> <span class="nf">sinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1073"><a href="#L-1073"><span class="linenos">1073</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">)</span>
-</span><span id="L-1074"><a href="#L-1074"><span class="linenos">1074</span></a>
-</span><span id="L-1075"><a href="#L-1075"><span class="linenos">1075</span></a>    <span class="k">def</span> <span class="nf">cosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1076"><a href="#L-1076"><span class="linenos">1076</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">)</span>
-</span><span id="L-1077"><a href="#L-1077"><span class="linenos">1077</span></a>
-</span><span id="L-1078"><a href="#L-1078"><span class="linenos">1078</span></a>    <span class="k">def</span> <span class="nf">tanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1079"><a href="#L-1079"><span class="linenos">1079</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">tanh</span><span class="p">)</span>
-</span><span id="L-1080"><a href="#L-1080"><span class="linenos">1080</span></a>
-</span><span id="L-1081"><a href="#L-1081"><span class="linenos">1081</span></a>    <span class="k">def</span> <span class="nf">arcsin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1082"><a href="#L-1082"><span class="linenos">1082</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arcsin</span><span class="p">)</span>
-</span><span id="L-1083"><a href="#L-1083"><span class="linenos">1083</span></a>
-</span><span id="L-1084"><a href="#L-1084"><span class="linenos">1084</span></a>    <span class="k">def</span> <span class="nf">arccos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1085"><a href="#L-1085"><span class="linenos">1085</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arccos</span><span class="p">)</span>
-</span><span id="L-1086"><a href="#L-1086"><span class="linenos">1086</span></a>
-</span><span id="L-1087"><a href="#L-1087"><span class="linenos">1087</span></a>    <span class="k">def</span> <span class="nf">arctan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1088"><a href="#L-1088"><span class="linenos">1088</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arctan</span><span class="p">)</span>
-</span><span id="L-1089"><a href="#L-1089"><span class="linenos">1089</span></a>
-</span><span id="L-1090"><a href="#L-1090"><span class="linenos">1090</span></a>    <span class="k">def</span> <span class="nf">arcsinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1091"><a href="#L-1091"><span class="linenos">1091</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arcsinh</span><span class="p">)</span>
-</span><span id="L-1092"><a href="#L-1092"><span class="linenos">1092</span></a>
-</span><span id="L-1093"><a href="#L-1093"><span class="linenos">1093</span></a>    <span class="k">def</span> <span class="nf">arccosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1094"><a href="#L-1094"><span class="linenos">1094</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arccosh</span><span class="p">)</span>
-</span><span id="L-1095"><a href="#L-1095"><span class="linenos">1095</span></a>
-</span><span id="L-1096"><a href="#L-1096"><span class="linenos">1096</span></a>    <span class="k">def</span> <span class="nf">arctanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1097"><a href="#L-1097"><span class="linenos">1097</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arctanh</span><span class="p">)</span>
-</span><span id="L-1098"><a href="#L-1098"><span class="linenos">1098</span></a>
-</span><span id="L-1099"><a href="#L-1099"><span class="linenos">1099</span></a>    <span class="c1"># Right hand side operations (require tweak in main module to work)</span>
-</span><span id="L-1100"><a href="#L-1100"><span class="linenos">1100</span></a>    <span class="k">def</span> <span class="fm">__radd__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-1101"><a href="#L-1101"><span class="linenos">1101</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
-</span><span id="L-1102"><a href="#L-1102"><span class="linenos">1102</span></a>
-</span><span id="L-1103"><a href="#L-1103"><span class="linenos">1103</span></a>    <span class="k">def</span> <span class="fm">__rsub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-1104"><a href="#L-1104"><span class="linenos">1104</span></a>        <span class="k">return</span> <span class="o">-</span><span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
-</span><span id="L-1105"><a href="#L-1105"><span class="linenos">1105</span></a>
-</span><span id="L-1106"><a href="#L-1106"><span class="linenos">1106</span></a>    <span class="k">def</span> <span class="fm">__rmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-1107"><a href="#L-1107"><span class="linenos">1107</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">y</span>
-</span><span id="L-1108"><a href="#L-1108"><span class="linenos">1108</span></a>
-</span><span id="L-1109"><a href="#L-1109"><span class="linenos">1109</span></a>    <span class="k">def</span> <span class="fm">__rtruediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-1110"><a href="#L-1110"><span class="linenos">1110</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span> <span class="o">**</span> <span class="p">(</span><span class="o">-</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="L-1111"><a href="#L-1111"><span class="linenos">1111</span></a>
-</span><span id="L-1112"><a href="#L-1112"><span class="linenos">1112</span></a>    <span class="nd">@property</span>
-</span><span id="L-1113"><a href="#L-1113"><span class="linenos">1113</span></a>    <span class="k">def</span> <span class="nf">real</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1114"><a href="#L-1114"><span class="linenos">1114</span></a>        <span class="k">def</span> <span class="nf">return_real</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">):</span>
-</span><span id="L-1115"><a href="#L-1115"><span class="linenos">1115</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">):</span>
-</span><span id="L-1116"><a href="#L-1116"><span class="linenos">1116</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span><span class="o">.</span><span class="n">real</span>
-</span><span id="L-1117"><a href="#L-1117"><span class="linenos">1117</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1118"><a href="#L-1118"><span class="linenos">1118</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span>
-</span><span id="L-1119"><a href="#L-1119"><span class="linenos">1119</span></a>
-</span><span id="L-1120"><a href="#L-1120"><span class="linenos">1120</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">return_real</span><span class="p">)</span>
-</span><span id="L-1121"><a href="#L-1121"><span class="linenos">1121</span></a>
-</span><span id="L-1122"><a href="#L-1122"><span class="linenos">1122</span></a>    <span class="nd">@property</span>
-</span><span id="L-1123"><a href="#L-1123"><span class="linenos">1123</span></a>    <span class="k">def</span> <span class="nf">imag</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-1124"><a href="#L-1124"><span class="linenos">1124</span></a>        <span class="k">def</span> <span class="nf">return_imag</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">):</span>
-</span><span id="L-1125"><a href="#L-1125"><span class="linenos">1125</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">):</span>
-</span><span id="L-1126"><a href="#L-1126"><span class="linenos">1126</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span><span class="o">.</span><span class="n">imag</span>
-</span><span id="L-1127"><a href="#L-1127"><span class="linenos">1127</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1128"><a href="#L-1128"><span class="linenos">1128</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span> <span class="o">*</span> <span class="mi">0</span>  <span class="c1"># So it stays the right type</span>
-</span><span id="L-1129"><a href="#L-1129"><span class="linenos">1129</span></a>
-</span><span id="L-1130"><a href="#L-1130"><span class="linenos">1130</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">return_imag</span><span class="p">)</span>
-</span><span id="L-1131"><a href="#L-1131"><span class="linenos">1131</span></a>
-</span><span id="L-1132"><a href="#L-1132"><span class="linenos">1132</span></a>    <span class="k">def</span> <span class="nf">prune</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">Ntrunc</span><span class="p">,</span> <span class="n">tproj</span><span class="o">=</span><span class="mi">3</span><span class="p">,</span> <span class="n">t0proj</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">basematrix</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-1133"><a href="#L-1133"><span class="linenos">1133</span></a>        <span class="sa">r</span><span class="sd">&#39;&#39;&#39; Project large correlation matrix to lowest states</span>
-</span><span id="L-1134"><a href="#L-1134"><span class="linenos">1134</span></a>
-</span><span id="L-1135"><a href="#L-1135"><span class="linenos">1135</span></a><span class="sd">        This method can be used to reduce the size of an (N x N) correlation matrix</span>
-</span><span id="L-1136"><a href="#L-1136"><span class="linenos">1136</span></a><span class="sd">        to (Ntrunc x Ntrunc) by solving a GEVP at very early times where the noise</span>
-</span><span id="L-1137"><a href="#L-1137"><span class="linenos">1137</span></a><span class="sd">        is still small.</span>
-</span><span id="L-1138"><a href="#L-1138"><span class="linenos">1138</span></a>
-</span><span id="L-1139"><a href="#L-1139"><span class="linenos">1139</span></a><span class="sd">        Parameters</span>
-</span><span id="L-1140"><a href="#L-1140"><span class="linenos">1140</span></a><span class="sd">        ----------</span>
-</span><span id="L-1141"><a href="#L-1141"><span class="linenos">1141</span></a><span class="sd">        Ntrunc: int</span>
-</span><span id="L-1142"><a href="#L-1142"><span class="linenos">1142</span></a><span class="sd">            Rank of the target matrix.</span>
-</span><span id="L-1143"><a href="#L-1143"><span class="linenos">1143</span></a><span class="sd">        tproj: int</span>
-</span><span id="L-1144"><a href="#L-1144"><span class="linenos">1144</span></a><span class="sd">            Time where the eigenvectors are evaluated, corresponds to ts in the GEVP method.</span>
-</span><span id="L-1145"><a href="#L-1145"><span class="linenos">1145</span></a><span class="sd">            The default value is 3.</span>
-</span><span id="L-1146"><a href="#L-1146"><span class="linenos">1146</span></a><span class="sd">        t0proj: int</span>
-</span><span id="L-1147"><a href="#L-1147"><span class="linenos">1147</span></a><span class="sd">            Time where the correlation matrix is inverted. Choosing t0proj=1 is strongly</span>
-</span><span id="L-1148"><a href="#L-1148"><span class="linenos">1148</span></a><span class="sd">            discouraged for O(a) improved theories, since the correctness of the procedure</span>
-</span><span id="L-1149"><a href="#L-1149"><span class="linenos">1149</span></a><span class="sd">            cannot be granted in this case. The default value is 2.</span>
-</span><span id="L-1150"><a href="#L-1150"><span class="linenos">1150</span></a><span class="sd">        basematrix : Corr</span>
-</span><span id="L-1151"><a href="#L-1151"><span class="linenos">1151</span></a><span class="sd">            Correlation matrix that is used to determine the eigenvectors of the</span>
-</span><span id="L-1152"><a href="#L-1152"><span class="linenos">1152</span></a><span class="sd">            lowest states based on a GEVP. basematrix is taken to be the Corr itself if</span>
-</span><span id="L-1153"><a href="#L-1153"><span class="linenos">1153</span></a><span class="sd">            is is not specified.</span>
-</span><span id="L-1154"><a href="#L-1154"><span class="linenos">1154</span></a>
-</span><span id="L-1155"><a href="#L-1155"><span class="linenos">1155</span></a><span class="sd">        Notes</span>
-</span><span id="L-1156"><a href="#L-1156"><span class="linenos">1156</span></a><span class="sd">        -----</span>
-</span><span id="L-1157"><a href="#L-1157"><span class="linenos">1157</span></a><span class="sd">        We have the basematrix $C(t)$ and the target matrix $G(t)$. We start by solving</span>
-</span><span id="L-1158"><a href="#L-1158"><span class="linenos">1158</span></a><span class="sd">        the GEVP $$C(t) v_n(t, t_0) = \lambda_n(t, t_0) C(t_0) v_n(t, t_0)$$ where $t \equiv t_\mathrm{proj}$</span>
-</span><span id="L-1159"><a href="#L-1159"><span class="linenos">1159</span></a><span class="sd">        and $t_0 \equiv t_{0, \mathrm{proj}}$. The target matrix is projected onto the subspace of the</span>
-</span><span id="L-1160"><a href="#L-1160"><span class="linenos">1160</span></a><span class="sd">        resulting eigenvectors $v_n, n=1,\dots,N_\mathrm{trunc}$ via</span>
-</span><span id="L-1161"><a href="#L-1161"><span class="linenos">1161</span></a><span class="sd">        $$G^\prime_{i, j}(t) = (v_i, G(t) v_j)$$. This allows to reduce the size of a large</span>
-</span><span id="L-1162"><a href="#L-1162"><span class="linenos">1162</span></a><span class="sd">        correlation matrix and to remove some noise that is added by irrelevant operators.</span>
-</span><span id="L-1163"><a href="#L-1163"><span class="linenos">1163</span></a><span class="sd">        This may allow to use the GEVP on $G(t)$ at late times such that the theoretically motivated</span>
-</span><span id="L-1164"><a href="#L-1164"><span class="linenos">1164</span></a><span class="sd">        bound $t_0 \leq t/2$ holds, since the condition number of $G(t)$ is decreased, compared to $C(t)$.</span>
-</span><span id="L-1165"><a href="#L-1165"><span class="linenos">1165</span></a><span class="sd">        &#39;&#39;&#39;</span>
-</span><span id="L-1166"><a href="#L-1166"><span class="linenos">1166</span></a>
-</span><span id="L-1167"><a href="#L-1167"><span class="linenos">1167</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-1168"><a href="#L-1168"><span class="linenos">1168</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Method cannot be applied to one-dimensional correlators.&#39;</span><span class="p">)</span>
-</span><span id="L-1169"><a href="#L-1169"><span class="linenos">1169</span></a>        <span class="k">if</span> <span class="n">basematrix</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-1170"><a href="#L-1170"><span class="linenos">1170</span></a>            <span class="n">basematrix</span> <span class="o">=</span> <span class="bp">self</span>
-</span><span id="L-1171"><a href="#L-1171"><span class="linenos">1171</span></a>        <span class="k">if</span> <span class="n">Ntrunc</span> <span class="o">&gt;=</span> <span class="n">basematrix</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
-</span><span id="L-1172"><a href="#L-1172"><span class="linenos">1172</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Cannot truncate using Ntrunc &lt;= </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
-</span><span id="L-1173"><a href="#L-1173"><span class="linenos">1173</span></a>        <span class="k">if</span> <span class="n">basematrix</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
-</span><span id="L-1174"><a href="#L-1174"><span class="linenos">1174</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;basematrix and targetmatrix have to be of the same size.&#39;</span><span class="p">)</span>
-</span><span id="L-1175"><a href="#L-1175"><span class="linenos">1175</span></a>
-</span><span id="L-1176"><a href="#L-1176"><span class="linenos">1176</span></a>        <span class="n">evecs</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1177"><a href="#L-1177"><span class="linenos">1177</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
-</span><span id="L-1178"><a href="#L-1178"><span class="linenos">1178</span></a>            <span class="n">evecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">GEVP</span><span class="p">(</span><span class="n">t0proj</span><span class="p">,</span> <span class="n">tproj</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="n">i</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span><span class="p">))</span>
-</span><span id="L-1179"><a href="#L-1179"><span class="linenos">1179</span></a>
-</span><span id="L-1180"><a href="#L-1180"><span class="linenos">1180</span></a>        <span class="n">tmpmat</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">Ntrunc</span><span class="p">,</span> <span class="n">Ntrunc</span><span class="p">),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="L-1181"><a href="#L-1181"><span class="linenos">1181</span></a>        <span class="n">rmat</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1182"><a href="#L-1182"><span class="linenos">1182</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-1183"><a href="#L-1183"><span class="linenos">1183</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
-</span><span id="L-1184"><a href="#L-1184"><span class="linenos">1184</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
-</span><span id="L-1185"><a href="#L-1185"><span class="linenos">1185</span></a>                    <span class="n">tmpmat</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">evecs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="bp">self</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">evecs</span><span class="p">[</span><span class="n">j</span><span class="p">]</span>
-</span><span id="L-1186"><a href="#L-1186"><span class="linenos">1186</span></a>            <span class="n">rmat</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">copy</span><span class="p">(</span><span class="n">tmpmat</span><span class="p">))</span>
-</span><span id="L-1187"><a href="#L-1187"><span class="linenos">1187</span></a>
-</span><span id="L-1188"><a href="#L-1188"><span class="linenos">1188</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">rmat</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)]</span>
-</span><span id="L-1189"><a href="#L-1189"><span class="linenos">1189</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="L-1190"><a href="#L-1190"><span class="linenos">1190</span></a>
+</span><span id="L-12"><a href="#L-12"><span class="linenos">  12</span></a>
+</span><span id="L-13"><a href="#L-13"><span class="linenos">  13</span></a><span class="k">class</span> <span class="nc">Corr</span><span class="p">:</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos">  14</span></a>    <span class="sd">&quot;&quot;&quot;The class for a correlator (time dependent sequence of pe.Obs).</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos">  15</span></a>
+</span><span id="L-16"><a href="#L-16"><span class="linenos">  16</span></a><span class="sd">    Everything, this class does, can be achieved using lists or arrays of Obs.</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos">  17</span></a><span class="sd">    But it is simply more convenient to have a dedicated object for correlators.</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos">  18</span></a><span class="sd">    One often wants to add or multiply correlators of the same length at every timeslice and it is inconvenient</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos">  19</span></a><span class="sd">    to iterate over all timeslices for every operation. This is especially true, when dealing with matrices.</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos">  20</span></a>
+</span><span id="L-21"><a href="#L-21"><span class="linenos">  21</span></a><span class="sd">    The correlator can have two types of content: An Obs at every timeslice OR a GEVP</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos">  22</span></a><span class="sd">    matrix at every timeslice. Other dependency (eg. spatial) are not supported.</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos">  23</span></a>
+</span><span id="L-24"><a href="#L-24"><span class="linenos">  24</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos">  25</span></a>
+</span><span id="L-26"><a href="#L-26"><span class="linenos">  26</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data_input</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="n">prange</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos">  27</span></a>        <span class="sd">&quot;&quot;&quot; Initialize a Corr object.</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos">  28</span></a>
+</span><span id="L-29"><a href="#L-29"><span class="linenos">  29</span></a><span class="sd">        Parameters</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos">  30</span></a><span class="sd">        ----------</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos">  31</span></a><span class="sd">        data_input : list or array</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos">  32</span></a><span class="sd">            list of Obs or list of arrays of Obs or array of Corrs</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos">  33</span></a><span class="sd">        padding : list, optional</span>
+</span><span id="L-34"><a href="#L-34"><span class="linenos">  34</span></a><span class="sd">            List with two entries where the first labels the padding</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos">  35</span></a><span class="sd">            at the front of the correlator and the second the padding</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos">  36</span></a><span class="sd">            at the back.</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos">  37</span></a><span class="sd">        prange : list, optional</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos">  38</span></a><span class="sd">            List containing the first and last timeslice of the plateau</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos">  39</span></a><span class="sd">            region indentified for this correlator.</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos">  40</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos">  41</span></a>
+</span><span id="L-42"><a href="#L-42"><span class="linenos">  42</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data_input</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos">  43</span></a>
+</span><span id="L-44"><a href="#L-44"><span class="linenos">  44</span></a>            <span class="c1"># This only works, if the array fulfills the conditions below</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos">  45</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span> <span class="ow">and</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos">  46</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Incompatible array shape&quot;</span><span class="p">)</span>
+</span><span id="L-47"><a href="#L-47"><span class="linenos">  47</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">Corr</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos">  48</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;If the input is an array, its elements must be of type pe.Corr&quot;</span><span class="p">)</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos">  49</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos">  50</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only construct matrix correlator from single valued correlators&quot;</span><span class="p">)</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos">  51</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">T</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]))</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos">  52</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All input Correlators must be defined over the same timeslices.&quot;</span><span class="p">)</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos">  53</span></a>
+</span><span id="L-54"><a href="#L-54"><span class="linenos">  54</span></a>            <span class="n">T</span> <span class="o">=</span> <span class="n">data_input</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">T</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos">  55</span></a>            <span class="n">N</span> <span class="o">=</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-56"><a href="#L-56"><span class="linenos">  56</span></a>            <span class="n">input_as_list</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos">  57</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos">  58</span></a>                <span class="k">if</span> <span class="nb">any</span><span class="p">([(</span><span class="n">item</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
+</span><span id="L-59"><a href="#L-59"><span class="linenos">  59</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([(</span><span class="n">item</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
+</span><span id="L-60"><a href="#L-60"><span class="linenos">  60</span></a>                        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Input ill-defined at different timeslices. Conversion leads to data loss!&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-61"><a href="#L-61"><span class="linenos">  61</span></a>                    <span class="n">input_as_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos">  62</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos">  63</span></a>                    <span class="n">array_at_timeslace</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;object&quot;</span><span class="p">)</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos">  64</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-65"><a href="#L-65"><span class="linenos">  65</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos">  66</span></a>                            <span class="n">array_at_timeslace</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">data_input</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">][</span><span class="n">t</span><span class="p">]</span>
+</span><span id="L-67"><a href="#L-67"><span class="linenos">  67</span></a>                    <span class="n">input_as_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">array_at_timeslace</span><span class="p">)</span>
+</span><span id="L-68"><a href="#L-68"><span class="linenos">  68</span></a>            <span class="n">data_input</span> <span class="o">=</span> <span class="n">input_as_list</span>
+</span><span id="L-69"><a href="#L-69"><span class="linenos">  69</span></a>
+</span><span id="L-70"><a href="#L-70"><span class="linenos">  70</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data_input</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos">  71</span></a>
+</span><span id="L-72"><a href="#L-72"><span class="linenos">  72</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">))</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos">  73</span></a>                <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">data_input</span><span class="p">)</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos">  74</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">item</span><span class="p">])</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos">  75</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">))</span> <span class="ow">or</span> <span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos">  76</span></a>                <span class="n">_assert_equal_properties</span><span class="p">([</span><span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">data_input</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span>
+</span><span id="L-77"><a href="#L-77"><span class="linenos">  77</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">item</span><span class="p">])</span> <span class="k">if</span> <span class="n">item</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos">  78</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos">  79</span></a>
+</span><span id="L-80"><a href="#L-80"><span class="linenos">  80</span></a>            <span class="k">elif</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span> <span class="ow">or</span> <span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">])</span> <span class="ow">and</span> <span class="nb">any</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos">  81</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="n">data_input</span>
+</span><span id="L-82"><a href="#L-82"><span class="linenos">  82</span></a>                <span class="n">noNull</span> <span class="o">=</span> <span class="p">[</span><span class="n">a</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">a</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)]</span>  <span class="c1"># To check if the matrices are correct for all undefined elements</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos">  83</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos">  84</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">!=</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos">  85</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Smearing matrices are not NxN&quot;</span><span class="p">)</span>
+</span><span id="L-86"><a href="#L-86"><span class="linenos">  86</span></a>                <span class="k">if</span> <span class="p">(</span><span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">noNull</span><span class="p">])):</span>
+</span><span id="L-87"><a href="#L-87"><span class="linenos">  87</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Items in data_input are not of identical shape.&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noNull</span><span class="p">))</span>
+</span><span id="L-88"><a href="#L-88"><span class="linenos">  88</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos">  89</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;data_input contains item of wrong type&quot;</span><span class="p">)</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos">  90</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos">  91</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Data input was not given as list or correct array&quot;</span><span class="p">)</span>
+</span><span id="L-92"><a href="#L-92"><span class="linenos">  92</span></a>
+</span><span id="L-93"><a href="#L-93"><span class="linenos">  93</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-94"><a href="#L-94"><span class="linenos">  94</span></a>
+</span><span id="L-95"><a href="#L-95"><span class="linenos">  95</span></a>        <span class="c1"># An undefined timeslice is represented by the None object</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos">  96</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">padding</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">+</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">padding</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-97"><a href="#L-97"><span class="linenos">  97</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos">  98</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">prange</span>
+</span><span id="L-99"><a href="#L-99"><span class="linenos">  99</span></a>
+</span><span id="L-100"><a href="#L-100"><span class="linenos"> 100</span></a>    <span class="k">def</span> <span class="fm">__getitem__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">idx</span><span class="p">):</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos"> 101</span></a>        <span class="sd">&quot;&quot;&quot;Return the content of timeslice idx&quot;&quot;&quot;</span>
+</span><span id="L-102"><a href="#L-102"><span class="linenos"> 102</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos"> 103</span></a>            <span class="k">return</span> <span class="kc">None</span>
+</span><span id="L-104"><a href="#L-104"><span class="linenos"> 104</span></a>        <span class="k">elif</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-105"><a href="#L-105"><span class="linenos"> 105</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-106"><a href="#L-106"><span class="linenos"> 106</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-107"><a href="#L-107"><span class="linenos"> 107</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span>
+</span><span id="L-108"><a href="#L-108"><span class="linenos"> 108</span></a>
+</span><span id="L-109"><a href="#L-109"><span class="linenos"> 109</span></a>    <span class="nd">@property</span>
+</span><span id="L-110"><a href="#L-110"><span class="linenos"> 110</span></a>    <span class="k">def</span> <span class="nf">reweighted</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-111"><a href="#L-111"><span class="linenos"> 111</span></a>        <span class="n">bool_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">reweighted</span><span class="p">,</span> <span class="n">o</span><span class="p">))</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]])</span>
+</span><span id="L-112"><a href="#L-112"><span class="linenos"> 112</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">bool_array</span> <span class="o">==</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos"> 113</span></a>            <span class="k">return</span> <span class="kc">True</span>
+</span><span id="L-114"><a href="#L-114"><span class="linenos"> 114</span></a>        <span class="k">elif</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">bool_array</span> <span class="o">==</span> <span class="mi">0</span><span class="p">):</span>
+</span><span id="L-115"><a href="#L-115"><span class="linenos"> 115</span></a>            <span class="k">return</span> <span class="kc">False</span>
+</span><span id="L-116"><a href="#L-116"><span class="linenos"> 116</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-117"><a href="#L-117"><span class="linenos"> 117</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Reweighting status of correlator corrupted.&quot;</span><span class="p">)</span>
+</span><span id="L-118"><a href="#L-118"><span class="linenos"> 118</span></a>
+</span><span id="L-119"><a href="#L-119"><span class="linenos"> 119</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-120"><a href="#L-120"><span class="linenos"> 120</span></a>        <span class="sd">&quot;&quot;&quot;Apply the gamma method to the content of the Corr.&quot;&quot;&quot;</span>
+</span><span id="L-121"><a href="#L-121"><span class="linenos"> 121</span></a>        <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">:</span>
+</span><span id="L-122"><a href="#L-122"><span class="linenos"> 122</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-123"><a href="#L-123"><span class="linenos"> 123</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-124"><a href="#L-124"><span class="linenos"> 124</span></a>                    <span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-125"><a href="#L-125"><span class="linenos"> 125</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-126"><a href="#L-126"><span class="linenos"> 126</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-127"><a href="#L-127"><span class="linenos"> 127</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-128"><a href="#L-128"><span class="linenos"> 128</span></a>                            <span class="n">item</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-129"><a href="#L-129"><span class="linenos"> 129</span></a>
+</span><span id="L-130"><a href="#L-130"><span class="linenos"> 130</span></a>    <span class="k">def</span> <span class="nf">projected</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">vector_l</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">vector_r</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="L-131"><a href="#L-131"><span class="linenos"> 131</span></a>        <span class="sd">&quot;&quot;&quot;We need to project the Correlator with a Vector to get a single value at each timeslice.</span>
+</span><span id="L-132"><a href="#L-132"><span class="linenos"> 132</span></a>
+</span><span id="L-133"><a href="#L-133"><span class="linenos"> 133</span></a><span class="sd">        The method can use one or two vectors.</span>
+</span><span id="L-134"><a href="#L-134"><span class="linenos"> 134</span></a><span class="sd">        If two are specified it returns v1@G@v2 (the order might be very important.)</span>
+</span><span id="L-135"><a href="#L-135"><span class="linenos"> 135</span></a><span class="sd">        By default it will return the lowest source, which usually means unsmeared-unsmeared (0,0), but it does not have to</span>
+</span><span id="L-136"><a href="#L-136"><span class="linenos"> 136</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-137"><a href="#L-137"><span class="linenos"> 137</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-138"><a href="#L-138"><span class="linenos"> 138</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to project a Corr, that already has N=1.&quot;</span><span class="p">)</span>
+</span><span id="L-139"><a href="#L-139"><span class="linenos"> 139</span></a>
+</span><span id="L-140"><a href="#L-140"><span class="linenos"> 140</span></a>        <span class="k">if</span> <span class="n">vector_l</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-141"><a href="#L-141"><span class="linenos"> 141</span></a>            <span class="n">vector_l</span><span class="p">,</span> <span class="n">vector_r</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="mf">1.</span><span class="p">]</span> <span class="o">+</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.</span><span class="p">]),</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="mf">1.</span><span class="p">]</span> <span class="o">+</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.</span><span class="p">])</span>
+</span><span id="L-142"><a href="#L-142"><span class="linenos"> 142</span></a>        <span class="k">elif</span><span class="p">(</span><span class="n">vector_r</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-143"><a href="#L-143"><span class="linenos"> 143</span></a>            <span class="n">vector_r</span> <span class="o">=</span> <span class="n">vector_l</span>
+</span><span id="L-144"><a href="#L-144"><span class="linenos"> 144</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_r</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-145"><a href="#L-145"><span class="linenos"> 145</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vector_l</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="L-146"><a href="#L-146"><span class="linenos"> 146</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Length of vector list must be equal to T&quot;</span><span class="p">)</span>
+</span><span id="L-147"><a href="#L-147"><span class="linenos"> 147</span></a>            <span class="n">vector_r</span> <span class="o">=</span> <span class="p">[</span><span class="n">vector_r</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
+</span><span id="L-148"><a href="#L-148"><span class="linenos"> 148</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_r</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-149"><a href="#L-149"><span class="linenos"> 149</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vector_r</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="L-150"><a href="#L-150"><span class="linenos"> 150</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Length of vector list must be equal to T&quot;</span><span class="p">)</span>
+</span><span id="L-151"><a href="#L-151"><span class="linenos"> 151</span></a>            <span class="n">vector_l</span> <span class="o">=</span> <span class="p">[</span><span class="n">vector_l</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
+</span><span id="L-152"><a href="#L-152"><span class="linenos"> 152</span></a>
+</span><span id="L-153"><a href="#L-153"><span class="linenos"> 153</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-154"><a href="#L-154"><span class="linenos"> 154</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">vector_l</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="n">vector_r</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,):</span>
+</span><span id="L-155"><a href="#L-155"><span class="linenos"> 155</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Vectors are of wrong shape!&quot;</span><span class="p">)</span>
+</span><span id="L-156"><a href="#L-156"><span class="linenos"> 156</span></a>            <span class="k">if</span> <span class="n">normalize</span><span class="p">:</span>
+</span><span id="L-157"><a href="#L-157"><span class="linenos"> 157</span></a>                <span class="n">vector_l</span><span class="p">,</span> <span class="n">vector_r</span> <span class="o">=</span> <span class="n">vector_l</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">vector_l</span> <span class="o">@</span> <span class="n">vector_l</span><span class="p">)),</span> <span class="n">vector_r</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">vector_r</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">)</span>
+</span><span id="L-158"><a href="#L-158"><span class="linenos"> 158</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">vector_l</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">item</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">])</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="L-159"><a href="#L-159"><span class="linenos"> 159</span></a>
+</span><span id="L-160"><a href="#L-160"><span class="linenos"> 160</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-161"><a href="#L-161"><span class="linenos"> 161</span></a>            <span class="c1"># There are no checks here yet. There are so many possible scenarios, where this can go wrong.</span>
+</span><span id="L-162"><a href="#L-162"><span class="linenos"> 162</span></a>            <span class="k">if</span> <span class="n">normalize</span><span class="p">:</span>
+</span><span id="L-163"><a href="#L-163"><span class="linenos"> 163</span></a>                <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-164"><a href="#L-164"><span class="linenos"> 164</span></a>                    <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">])),</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="L-165"><a href="#L-165"><span class="linenos"> 165</span></a>
+</span><span id="L-166"><a href="#L-166"><span class="linenos"> 166</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]])</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)]</span>
+</span><span id="L-167"><a href="#L-167"><span class="linenos"> 167</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+</span><span id="L-168"><a href="#L-168"><span class="linenos"> 168</span></a>
+</span><span id="L-169"><a href="#L-169"><span class="linenos"> 169</span></a>    <span class="k">def</span> <span class="nf">item</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">):</span>
+</span><span id="L-170"><a href="#L-170"><span class="linenos"> 170</span></a>        <span class="sd">&quot;&quot;&quot;Picks the element [i,j] from every matrix and returns a correlator containing one Obs per timeslice.</span>
+</span><span id="L-171"><a href="#L-171"><span class="linenos"> 171</span></a>
+</span><span id="L-172"><a href="#L-172"><span class="linenos"> 172</span></a><span class="sd">        Parameters</span>
+</span><span id="L-173"><a href="#L-173"><span class="linenos"> 173</span></a><span class="sd">        ----------</span>
+</span><span id="L-174"><a href="#L-174"><span class="linenos"> 174</span></a><span class="sd">        i : int</span>
+</span><span id="L-175"><a href="#L-175"><span class="linenos"> 175</span></a><span class="sd">            First index to be picked.</span>
+</span><span id="L-176"><a href="#L-176"><span class="linenos"> 176</span></a><span class="sd">        j : int</span>
+</span><span id="L-177"><a href="#L-177"><span class="linenos"> 177</span></a><span class="sd">            Second index to be picked.</span>
+</span><span id="L-178"><a href="#L-178"><span class="linenos"> 178</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-179"><a href="#L-179"><span class="linenos"> 179</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-180"><a href="#L-180"><span class="linenos"> 180</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to pick item from projected Corr&quot;</span><span class="p">)</span>
+</span><span id="L-181"><a href="#L-181"><span class="linenos"> 181</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span><span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">item</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="L-182"><a href="#L-182"><span class="linenos"> 182</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+</span><span id="L-183"><a href="#L-183"><span class="linenos"> 183</span></a>
+</span><span id="L-184"><a href="#L-184"><span class="linenos"> 184</span></a>    <span class="k">def</span> <span class="nf">plottable</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-185"><a href="#L-185"><span class="linenos"> 185</span></a>        <span class="sd">&quot;&quot;&quot;Outputs the correlator in a plotable format.</span>
+</span><span id="L-186"><a href="#L-186"><span class="linenos"> 186</span></a>
+</span><span id="L-187"><a href="#L-187"><span class="linenos"> 187</span></a><span class="sd">        Outputs three lists containing the timeslice index, the value on each</span>
+</span><span id="L-188"><a href="#L-188"><span class="linenos"> 188</span></a><span class="sd">        timeslice and the error on each timeslice.</span>
+</span><span id="L-189"><a href="#L-189"><span class="linenos"> 189</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-190"><a href="#L-190"><span class="linenos"> 190</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-191"><a href="#L-191"><span class="linenos"> 191</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only make Corr[N=1] plottable&quot;</span><span class="p">)</span>
+</span><span id="L-192"><a href="#L-192"><span class="linenos"> 192</span></a>        <span class="n">x_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="L-193"><a href="#L-193"><span class="linenos"> 193</span></a>        <span class="n">y_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="L-194"><a href="#L-194"><span class="linenos"> 194</span></a>        <span class="n">y_err_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="L-195"><a href="#L-195"><span class="linenos"> 195</span></a>
+</span><span id="L-196"><a href="#L-196"><span class="linenos"> 196</span></a>        <span class="k">return</span> <span class="n">x_list</span><span class="p">,</span> <span class="n">y_list</span><span class="p">,</span> <span class="n">y_err_list</span>
+</span><span id="L-197"><a href="#L-197"><span class="linenos"> 197</span></a>
+</span><span id="L-198"><a href="#L-198"><span class="linenos"> 198</span></a>    <span class="k">def</span> <span class="nf">symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-199"><a href="#L-199"><span class="linenos"> 199</span></a>        <span class="sd">&quot;&quot;&quot; Symmetrize the correlator around x0=0.&quot;&quot;&quot;</span>
+</span><span id="L-200"><a href="#L-200"><span class="linenos"> 200</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">%</span> <span class="mi">2</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-201"><a href="#L-201"><span class="linenos"> 201</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can not symmetrize odd T&quot;</span><span class="p">)</span>
+</span><span id="L-202"><a href="#L-202"><span class="linenos"> 202</span></a>
+</span><span id="L-203"><a href="#L-203"><span class="linenos"> 203</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">))</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-204"><a href="#L-204"><span class="linenos"> 204</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlator does not seem to be symmetric around x0=0.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-205"><a href="#L-205"><span class="linenos"> 205</span></a>
+</span><span id="L-206"><a href="#L-206"><span class="linenos"> 206</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
+</span><span id="L-207"><a href="#L-207"><span class="linenos"> 207</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-208"><a href="#L-208"><span class="linenos"> 208</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-209"><a href="#L-209"><span class="linenos"> 209</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-210"><a href="#L-210"><span class="linenos"> 210</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-211"><a href="#L-211"><span class="linenos"> 211</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]))</span>
+</span><span id="L-212"><a href="#L-212"><span class="linenos"> 212</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="L-213"><a href="#L-213"><span class="linenos"> 213</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr could not be symmetrized: No redundant values&quot;</span><span class="p">)</span>
+</span><span id="L-214"><a href="#L-214"><span class="linenos"> 214</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="L-215"><a href="#L-215"><span class="linenos"> 215</span></a>
+</span><span id="L-216"><a href="#L-216"><span class="linenos"> 216</span></a>    <span class="k">def</span> <span class="nf">anti_symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-217"><a href="#L-217"><span class="linenos"> 217</span></a>        <span class="sd">&quot;&quot;&quot;Anti-symmetrize the correlator around x0=0.&quot;&quot;&quot;</span>
+</span><span id="L-218"><a href="#L-218"><span class="linenos"> 218</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">%</span> <span class="mi">2</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-219"><a href="#L-219"><span class="linenos"> 219</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can not symmetrize odd T&quot;</span><span class="p">)</span>
+</span><span id="L-220"><a href="#L-220"><span class="linenos"> 220</span></a>
+</span><span id="L-221"><a href="#L-221"><span class="linenos"> 221</span></a>        <span class="n">test</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
+</span><span id="L-222"><a href="#L-222"><span class="linenos"> 222</span></a>        <span class="n">test</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="L-223"><a href="#L-223"><span class="linenos"> 223</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">is_zero_within_error</span><span class="p">(</span><span class="mi">3</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">test</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]):</span>
+</span><span id="L-224"><a href="#L-224"><span class="linenos"> 224</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlator does not seem to be anti-symmetric around x0=0.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-225"><a href="#L-225"><span class="linenos"> 225</span></a>
+</span><span id="L-226"><a href="#L-226"><span class="linenos"> 226</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
+</span><span id="L-227"><a href="#L-227"><span class="linenos"> 227</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-228"><a href="#L-228"><span class="linenos"> 228</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-229"><a href="#L-229"><span class="linenos"> 229</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-230"><a href="#L-230"><span class="linenos"> 230</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-231"><a href="#L-231"><span class="linenos"> 231</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]))</span>
+</span><span id="L-232"><a href="#L-232"><span class="linenos"> 232</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="L-233"><a href="#L-233"><span class="linenos"> 233</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr could not be symmetrized: No redundant values&quot;</span><span class="p">)</span>
+</span><span id="L-234"><a href="#L-234"><span class="linenos"> 234</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="L-235"><a href="#L-235"><span class="linenos"> 235</span></a>
+</span><span id="L-236"><a href="#L-236"><span class="linenos"> 236</span></a>    <span class="k">def</span> <span class="nf">matrix_symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-237"><a href="#L-237"><span class="linenos"> 237</span></a>        <span class="sd">&quot;&quot;&quot;Symmetrizes the correlator matrices on every timeslice.&quot;&quot;&quot;</span>
+</span><span id="L-238"><a href="#L-238"><span class="linenos"> 238</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-239"><a href="#L-239"><span class="linenos"> 239</span></a>            <span class="n">transposed</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">G</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">G</span><span class="o">.</span><span class="n">T</span> <span class="k">for</span> <span class="n">G</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="L-240"><a href="#L-240"><span class="linenos"> 240</span></a>            <span class="k">return</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">transposed</span><span class="p">)</span> <span class="o">+</span> <span class="bp">self</span><span class="p">)</span>
+</span><span id="L-241"><a href="#L-241"><span class="linenos"> 241</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-242"><a href="#L-242"><span class="linenos"> 242</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to symmetrize a correlator matrix, that already has N=1.&quot;</span><span class="p">)</span>
+</span><span id="L-243"><a href="#L-243"><span class="linenos"> 243</span></a>
+</span><span id="L-244"><a href="#L-244"><span class="linenos"> 244</span></a>    <span class="k">def</span> <span class="nf">GEVP</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="s2">&quot;Eigenvalue&quot;</span><span class="p">):</span>
+</span><span id="L-245"><a href="#L-245"><span class="linenos"> 245</span></a>        <span class="sd">&quot;&quot;&quot;Solve the general eigenvalue problem on the current correlator</span>
+</span><span id="L-246"><a href="#L-246"><span class="linenos"> 246</span></a>
+</span><span id="L-247"><a href="#L-247"><span class="linenos"> 247</span></a><span class="sd">        Parameters</span>
+</span><span id="L-248"><a href="#L-248"><span class="linenos"> 248</span></a><span class="sd">        ----------</span>
+</span><span id="L-249"><a href="#L-249"><span class="linenos"> 249</span></a><span class="sd">        t0 : int</span>
+</span><span id="L-250"><a href="#L-250"><span class="linenos"> 250</span></a><span class="sd">            The time t0 for G(t)v= lambda G(t_0)v</span>
+</span><span id="L-251"><a href="#L-251"><span class="linenos"> 251</span></a><span class="sd">        ts : int</span>
+</span><span id="L-252"><a href="#L-252"><span class="linenos"> 252</span></a><span class="sd">            fixed time G(t_s)v= lambda G(t_0)v  if return_list=False</span>
+</span><span id="L-253"><a href="#L-253"><span class="linenos"> 253</span></a><span class="sd">            If return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</span>
+</span><span id="L-254"><a href="#L-254"><span class="linenos"> 254</span></a><span class="sd">        state : int</span>
+</span><span id="L-255"><a href="#L-255"><span class="linenos"> 255</span></a><span class="sd">            The state one is interested in, ordered by energy. The lowest state is zero.</span>
+</span><span id="L-256"><a href="#L-256"><span class="linenos"> 256</span></a><span class="sd">        sorted_list : string</span>
+</span><span id="L-257"><a href="#L-257"><span class="linenos"> 257</span></a><span class="sd">            if this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.</span>
+</span><span id="L-258"><a href="#L-258"><span class="linenos"> 258</span></a><span class="sd">             &quot;Eigenvalue&quot;  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.</span>
+</span><span id="L-259"><a href="#L-259"><span class="linenos"> 259</span></a><span class="sd">             &quot;Eigenvector&quot; -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.</span>
+</span><span id="L-260"><a href="#L-260"><span class="linenos"> 260</span></a><span class="sd">                              The reference state is identified by its eigenvalue at t=ts</span>
+</span><span id="L-261"><a href="#L-261"><span class="linenos"> 261</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-262"><a href="#L-262"><span class="linenos"> 262</span></a>
+</span><span id="L-263"><a href="#L-263"><span class="linenos"> 263</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-264"><a href="#L-264"><span class="linenos"> 264</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;GEVP methods only works on correlator matrices and not single correlators.&quot;</span><span class="p">)</span>
+</span><span id="L-265"><a href="#L-265"><span class="linenos"> 265</span></a>
+</span><span id="L-266"><a href="#L-266"><span class="linenos"> 266</span></a>        <span class="n">symmetric_corr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">matrix_symmetric</span><span class="p">()</span>
+</span><span id="L-267"><a href="#L-267"><span class="linenos"> 267</span></a>        <span class="k">if</span> <span class="n">sorted_list</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-268"><a href="#L-268"><span class="linenos"> 268</span></a>            <span class="k">if</span> <span class="p">(</span><span class="n">ts</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-269"><a href="#L-269"><span class="linenos"> 269</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;ts is required if sorted_list=None&quot;</span><span class="p">)</span>
+</span><span id="L-270"><a href="#L-270"><span class="linenos"> 270</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t0</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">ts</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-271"><a href="#L-271"><span class="linenos"> 271</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr not defined at t0/ts&quot;</span><span class="p">)</span>
+</span><span id="L-272"><a href="#L-272"><span class="linenos"> 272</span></a>            <span class="n">G0</span><span class="p">,</span> <span class="n">Gt</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">)</span>
+</span><span id="L-273"><a href="#L-273"><span class="linenos"> 273</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-274"><a href="#L-274"><span class="linenos"> 274</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-275"><a href="#L-275"><span class="linenos"> 275</span></a>                    <span class="n">G0</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t0</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
+</span><span id="L-276"><a href="#L-276"><span class="linenos"> 276</span></a>                    <span class="n">Gt</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">ts</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
+</span><span id="L-277"><a href="#L-277"><span class="linenos"> 277</span></a>
+</span><span id="L-278"><a href="#L-278"><span class="linenos"> 278</span></a>            <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
+</span><span id="L-279"><a href="#L-279"><span class="linenos"> 279</span></a>            <span class="n">sp_vec</span> <span class="o">=</span> <span class="n">sp_vecs</span><span class="p">[</span><span class="n">state</span><span class="p">]</span>
+</span><span id="L-280"><a href="#L-280"><span class="linenos"> 280</span></a>            <span class="k">return</span> <span class="n">sp_vec</span>
+</span><span id="L-281"><a href="#L-281"><span class="linenos"> 281</span></a>        <span class="k">elif</span> <span class="n">sorted_list</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;Eigenvalue&quot;</span><span class="p">,</span> <span class="s2">&quot;Eigenvector&quot;</span><span class="p">]:</span>
+</span><span id="L-282"><a href="#L-282"><span class="linenos"> 282</span></a>            <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvalue&quot;</span> <span class="ow">and</span> <span class="n">ts</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-283"><a href="#L-283"><span class="linenos"> 283</span></a>                <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;ts has no effect when sorting by eigenvalue is chosen.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-284"><a href="#L-284"><span class="linenos"> 284</span></a>            <span class="n">all_vecs</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-285"><a href="#L-285"><span class="linenos"> 285</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-286"><a href="#L-286"><span class="linenos"> 286</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="L-287"><a href="#L-287"><span class="linenos"> 287</span></a>                    <span class="n">G0</span><span class="p">,</span> <span class="n">Gt</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">)</span>
+</span><span id="L-288"><a href="#L-288"><span class="linenos"> 288</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-289"><a href="#L-289"><span class="linenos"> 289</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-290"><a href="#L-290"><span class="linenos"> 290</span></a>                            <span class="n">G0</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t0</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
+</span><span id="L-291"><a href="#L-291"><span class="linenos"> 291</span></a>                            <span class="n">Gt</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
+</span><span id="L-292"><a href="#L-292"><span class="linenos"> 292</span></a>
+</span><span id="L-293"><a href="#L-293"><span class="linenos"> 293</span></a>                    <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
+</span><span id="L-294"><a href="#L-294"><span class="linenos"> 294</span></a>                    <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvalue&quot;</span><span class="p">:</span>
+</span><span id="L-295"><a href="#L-295"><span class="linenos"> 295</span></a>                        <span class="n">sp_vec</span> <span class="o">=</span> <span class="n">sp_vecs</span><span class="p">[</span><span class="n">state</span><span class="p">]</span>
+</span><span id="L-296"><a href="#L-296"><span class="linenos"> 296</span></a>                        <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">sp_vec</span><span class="p">)</span>
+</span><span id="L-297"><a href="#L-297"><span class="linenos"> 297</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-298"><a href="#L-298"><span class="linenos"> 298</span></a>                        <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">sp_vecs</span><span class="p">)</span>
+</span><span id="L-299"><a href="#L-299"><span class="linenos"> 299</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="L-300"><a href="#L-300"><span class="linenos"> 300</span></a>                    <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-301"><a href="#L-301"><span class="linenos"> 301</span></a>            <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvector&quot;</span><span class="p">:</span>
+</span><span id="L-302"><a href="#L-302"><span class="linenos"> 302</span></a>                <span class="k">if</span> <span class="p">(</span><span class="n">ts</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-303"><a href="#L-303"><span class="linenos"> 303</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;ts is required for the Eigenvector sorting method.&quot;</span><span class="p">)</span>
+</span><span id="L-304"><a href="#L-304"><span class="linenos"> 304</span></a>                <span class="n">all_vecs</span> <span class="o">=</span> <span class="n">_sort_vectors</span><span class="p">(</span><span class="n">all_vecs</span><span class="p">,</span> <span class="n">ts</span><span class="p">)</span>
+</span><span id="L-305"><a href="#L-305"><span class="linenos"> 305</span></a>                <span class="n">all_vecs</span> <span class="o">=</span> <span class="p">[</span><span class="n">a</span><span class="p">[</span><span class="n">state</span><span class="p">]</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="n">all_vecs</span><span class="p">]</span>
+</span><span id="L-306"><a href="#L-306"><span class="linenos"> 306</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-307"><a href="#L-307"><span class="linenos"> 307</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unkown value for &#39;sorted_list&#39;.&quot;</span><span class="p">)</span>
+</span><span id="L-308"><a href="#L-308"><span class="linenos"> 308</span></a>
+</span><span id="L-309"><a href="#L-309"><span class="linenos"> 309</span></a>        <span class="k">return</span> <span class="n">all_vecs</span>
+</span><span id="L-310"><a href="#L-310"><span class="linenos"> 310</span></a>
+</span><span id="L-311"><a href="#L-311"><span class="linenos"> 311</span></a>    <span class="k">def</span> <span class="nf">Eigenvalue</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-312"><a href="#L-312"><span class="linenos"> 312</span></a>        <span class="sd">&quot;&quot;&quot;Determines the eigenvalue of the GEVP by solving and projecting the correlator</span>
+</span><span id="L-313"><a href="#L-313"><span class="linenos"> 313</span></a>
+</span><span id="L-314"><a href="#L-314"><span class="linenos"> 314</span></a><span class="sd">        Parameters</span>
+</span><span id="L-315"><a href="#L-315"><span class="linenos"> 315</span></a><span class="sd">        ----------</span>
+</span><span id="L-316"><a href="#L-316"><span class="linenos"> 316</span></a><span class="sd">        t0 : int</span>
+</span><span id="L-317"><a href="#L-317"><span class="linenos"> 317</span></a><span class="sd">            The time t0 for G(t)v= lambda G(t_0)v</span>
+</span><span id="L-318"><a href="#L-318"><span class="linenos"> 318</span></a><span class="sd">        ts : int</span>
+</span><span id="L-319"><a href="#L-319"><span class="linenos"> 319</span></a><span class="sd">            fixed time G(t_s)v= lambda G(t_0)v  if return_list=False</span>
+</span><span id="L-320"><a href="#L-320"><span class="linenos"> 320</span></a><span class="sd">            If return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</span>
+</span><span id="L-321"><a href="#L-321"><span class="linenos"> 321</span></a><span class="sd">        state : int</span>
+</span><span id="L-322"><a href="#L-322"><span class="linenos"> 322</span></a><span class="sd">            The state one is interested in ordered by energy. The lowest state is zero.</span>
+</span><span id="L-323"><a href="#L-323"><span class="linenos"> 323</span></a><span class="sd">        sorted_list : string</span>
+</span><span id="L-324"><a href="#L-324"><span class="linenos"> 324</span></a><span class="sd">            if this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.</span>
+</span><span id="L-325"><a href="#L-325"><span class="linenos"> 325</span></a><span class="sd">             &quot;Eigenvalue&quot;  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.</span>
+</span><span id="L-326"><a href="#L-326"><span class="linenos"> 326</span></a><span class="sd">             &quot;Eigenvector&quot; -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.</span>
+</span><span id="L-327"><a href="#L-327"><span class="linenos"> 327</span></a><span class="sd">                              The reference state is identified by its eigenvalue at t=ts</span>
+</span><span id="L-328"><a href="#L-328"><span class="linenos"> 328</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-329"><a href="#L-329"><span class="linenos"> 329</span></a>        <span class="n">vec</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">GEVP</span><span class="p">(</span><span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="n">ts</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="n">state</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="n">sorted_list</span><span class="p">)</span>
+</span><span id="L-330"><a href="#L-330"><span class="linenos"> 330</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">projected</span><span class="p">(</span><span class="n">vec</span><span class="p">)</span>
+</span><span id="L-331"><a href="#L-331"><span class="linenos"> 331</span></a>
+</span><span id="L-332"><a href="#L-332"><span class="linenos"> 332</span></a>    <span class="k">def</span> <span class="nf">Hankel</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">N</span><span class="p">,</span> <span class="n">periodic</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="L-333"><a href="#L-333"><span class="linenos"> 333</span></a>        <span class="sd">&quot;&quot;&quot;Constructs an NxN Hankel matrix</span>
+</span><span id="L-334"><a href="#L-334"><span class="linenos"> 334</span></a>
+</span><span id="L-335"><a href="#L-335"><span class="linenos"> 335</span></a><span class="sd">        C(t) c(t+1) ... c(t+n-1)</span>
+</span><span id="L-336"><a href="#L-336"><span class="linenos"> 336</span></a><span class="sd">        C(t+1) c(t+2) ... c(t+n)</span>
+</span><span id="L-337"><a href="#L-337"><span class="linenos"> 337</span></a><span class="sd">        .................</span>
+</span><span id="L-338"><a href="#L-338"><span class="linenos"> 338</span></a><span class="sd">        C(t+(n-1)) c(t+n) ... c(t+2(n-1))</span>
+</span><span id="L-339"><a href="#L-339"><span class="linenos"> 339</span></a>
+</span><span id="L-340"><a href="#L-340"><span class="linenos"> 340</span></a><span class="sd">        Parameters</span>
+</span><span id="L-341"><a href="#L-341"><span class="linenos"> 341</span></a><span class="sd">        ----------</span>
+</span><span id="L-342"><a href="#L-342"><span class="linenos"> 342</span></a><span class="sd">        N : int</span>
+</span><span id="L-343"><a href="#L-343"><span class="linenos"> 343</span></a><span class="sd">            Dimension of the Hankel matrix</span>
+</span><span id="L-344"><a href="#L-344"><span class="linenos"> 344</span></a><span class="sd">        periodic : bool, optional</span>
+</span><span id="L-345"><a href="#L-345"><span class="linenos"> 345</span></a><span class="sd">            determines whether the matrix is extended periodically</span>
+</span><span id="L-346"><a href="#L-346"><span class="linenos"> 346</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-347"><a href="#L-347"><span class="linenos"> 347</span></a>
+</span><span id="L-348"><a href="#L-348"><span class="linenos"> 348</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-349"><a href="#L-349"><span class="linenos"> 349</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multi-operator Prony not implemented!&quot;</span><span class="p">)</span>
+</span><span id="L-350"><a href="#L-350"><span class="linenos"> 350</span></a>
+</span><span id="L-351"><a href="#L-351"><span class="linenos"> 351</span></a>        <span class="n">array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;object&quot;</span><span class="p">)</span>
+</span><span id="L-352"><a href="#L-352"><span class="linenos"> 352</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-353"><a href="#L-353"><span class="linenos"> 353</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-354"><a href="#L-354"><span class="linenos"> 354</span></a>            <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">array</span><span class="o">.</span><span class="n">copy</span><span class="p">())</span>
+</span><span id="L-355"><a href="#L-355"><span class="linenos"> 355</span></a>
+</span><span id="L-356"><a href="#L-356"><span class="linenos"> 356</span></a>        <span class="k">def</span> <span class="nf">wrap</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+</span><span id="L-357"><a href="#L-357"><span class="linenos"> 357</span></a>            <span class="k">while</span> <span class="n">i</span> <span class="o">&gt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="L-358"><a href="#L-358"><span class="linenos"> 358</span></a>                <span class="n">i</span> <span class="o">-=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
+</span><span id="L-359"><a href="#L-359"><span class="linenos"> 359</span></a>            <span class="k">return</span> <span class="n">i</span>
+</span><span id="L-360"><a href="#L-360"><span class="linenos"> 360</span></a>
+</span><span id="L-361"><a href="#L-361"><span class="linenos"> 361</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-362"><a href="#L-362"><span class="linenos"> 362</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-363"><a href="#L-363"><span class="linenos"> 363</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-364"><a href="#L-364"><span class="linenos"> 364</span></a>                    <span class="k">if</span> <span class="n">periodic</span><span class="p">:</span>
+</span><span id="L-365"><a href="#L-365"><span class="linenos"> 365</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">wrap</span><span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">)][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-366"><a href="#L-366"><span class="linenos"> 366</span></a>                    <span class="k">elif</span> <span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">)</span> <span class="o">&gt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="L-367"><a href="#L-367"><span class="linenos"> 367</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-368"><a href="#L-368"><span class="linenos"> 368</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-369"><a href="#L-369"><span class="linenos"> 369</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-370"><a href="#L-370"><span class="linenos"> 370</span></a>
+</span><span id="L-371"><a href="#L-371"><span class="linenos"> 371</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
+</span><span id="L-372"><a href="#L-372"><span class="linenos"> 372</span></a>
+</span><span id="L-373"><a href="#L-373"><span class="linenos"> 373</span></a>    <span class="k">def</span> <span class="nf">roll</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">dt</span><span class="p">):</span>
+</span><span id="L-374"><a href="#L-374"><span class="linenos"> 374</span></a>        <span class="sd">&quot;&quot;&quot;Periodically shift the correlator by dt timeslices</span>
+</span><span id="L-375"><a href="#L-375"><span class="linenos"> 375</span></a>
+</span><span id="L-376"><a href="#L-376"><span class="linenos"> 376</span></a><span class="sd">        Parameters</span>
+</span><span id="L-377"><a href="#L-377"><span class="linenos"> 377</span></a><span class="sd">        ----------</span>
+</span><span id="L-378"><a href="#L-378"><span class="linenos"> 378</span></a><span class="sd">        dt : int</span>
+</span><span id="L-379"><a href="#L-379"><span class="linenos"> 379</span></a><span class="sd">            number of timeslices</span>
+</span><span id="L-380"><a href="#L-380"><span class="linenos"> 380</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-381"><a href="#L-381"><span class="linenos"> 381</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">roll</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">),</span> <span class="n">dt</span><span class="p">)))</span>
+</span><span id="L-382"><a href="#L-382"><span class="linenos"> 382</span></a>
+</span><span id="L-383"><a href="#L-383"><span class="linenos"> 383</span></a>    <span class="k">def</span> <span class="nf">reverse</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-384"><a href="#L-384"><span class="linenos"> 384</span></a>        <span class="sd">&quot;&quot;&quot;Reverse the time ordering of the Corr&quot;&quot;&quot;</span>
+</span><span id="L-385"><a href="#L-385"><span class="linenos"> 385</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[::</span> <span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-386"><a href="#L-386"><span class="linenos"> 386</span></a>
+</span><span id="L-387"><a href="#L-387"><span class="linenos"> 387</span></a>    <span class="k">def</span> <span class="nf">thin</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">spacing</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">offset</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span>
+</span><span id="L-388"><a href="#L-388"><span class="linenos"> 388</span></a>        <span class="sd">&quot;&quot;&quot;Thin out a correlator to suppress correlations</span>
+</span><span id="L-389"><a href="#L-389"><span class="linenos"> 389</span></a>
+</span><span id="L-390"><a href="#L-390"><span class="linenos"> 390</span></a><span class="sd">        Parameters</span>
+</span><span id="L-391"><a href="#L-391"><span class="linenos"> 391</span></a><span class="sd">        ----------</span>
+</span><span id="L-392"><a href="#L-392"><span class="linenos"> 392</span></a><span class="sd">        spacing : int</span>
+</span><span id="L-393"><a href="#L-393"><span class="linenos"> 393</span></a><span class="sd">            Keep only every &#39;spacing&#39;th entry of the correlator</span>
+</span><span id="L-394"><a href="#L-394"><span class="linenos"> 394</span></a><span class="sd">        offset : int</span>
+</span><span id="L-395"><a href="#L-395"><span class="linenos"> 395</span></a><span class="sd">            Offset the equal spacing</span>
+</span><span id="L-396"><a href="#L-396"><span class="linenos"> 396</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-397"><a href="#L-397"><span class="linenos"> 397</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-398"><a href="#L-398"><span class="linenos"> 398</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-399"><a href="#L-399"><span class="linenos"> 399</span></a>            <span class="k">if</span> <span class="p">(</span><span class="n">offset</span> <span class="o">+</span> <span class="n">t</span><span class="p">)</span> <span class="o">%</span> <span class="n">spacing</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-400"><a href="#L-400"><span class="linenos"> 400</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-401"><a href="#L-401"><span class="linenos"> 401</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-402"><a href="#L-402"><span class="linenos"> 402</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="L-403"><a href="#L-403"><span class="linenos"> 403</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
+</span><span id="L-404"><a href="#L-404"><span class="linenos"> 404</span></a>
+</span><span id="L-405"><a href="#L-405"><span class="linenos"> 405</span></a>    <span class="k">def</span> <span class="nf">correlate</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">partner</span><span class="p">):</span>
+</span><span id="L-406"><a href="#L-406"><span class="linenos"> 406</span></a>        <span class="sd">&quot;&quot;&quot;Correlate the correlator with another correlator or Obs</span>
+</span><span id="L-407"><a href="#L-407"><span class="linenos"> 407</span></a>
+</span><span id="L-408"><a href="#L-408"><span class="linenos"> 408</span></a><span class="sd">        Parameters</span>
+</span><span id="L-409"><a href="#L-409"><span class="linenos"> 409</span></a><span class="sd">        ----------</span>
+</span><span id="L-410"><a href="#L-410"><span class="linenos"> 410</span></a><span class="sd">        partner : Obs or Corr</span>
+</span><span id="L-411"><a href="#L-411"><span class="linenos"> 411</span></a><span class="sd">            partner to correlate the correlator with.</span>
+</span><span id="L-412"><a href="#L-412"><span class="linenos"> 412</span></a><span class="sd">            Can either be an Obs which is correlated with all entries of the</span>
+</span><span id="L-413"><a href="#L-413"><span class="linenos"> 413</span></a><span class="sd">            correlator or a Corr of same length.</span>
+</span><span id="L-414"><a href="#L-414"><span class="linenos"> 414</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-415"><a href="#L-415"><span class="linenos"> 415</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-416"><a href="#L-416"><span class="linenos"> 416</span></a>        <span class="k">for</span> <span class="n">x0</span><span class="p">,</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">):</span>
+</span><span id="L-417"><a href="#L-417"><span class="linenos"> 417</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-418"><a href="#L-418"><span class="linenos"> 418</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-419"><a href="#L-419"><span class="linenos"> 419</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-420"><a href="#L-420"><span class="linenos"> 420</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="L-421"><a href="#L-421"><span class="linenos"> 421</span></a>                    <span class="k">if</span> <span class="n">partner</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x0</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-422"><a href="#L-422"><span class="linenos"> 422</span></a>                        <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-423"><a href="#L-423"><span class="linenos"> 423</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-424"><a href="#L-424"><span class="linenos"> 424</span></a>                        <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">correlate</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">partner</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x0</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t_slice</span><span class="p">]))</span>
+</span><span id="L-425"><a href="#L-425"><span class="linenos"> 425</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>  <span class="c1"># Should this include CObs?</span>
+</span><span id="L-426"><a href="#L-426"><span class="linenos"> 426</span></a>                    <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">correlate</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">partner</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t_slice</span><span class="p">]))</span>
+</span><span id="L-427"><a href="#L-427"><span class="linenos"> 427</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-428"><a href="#L-428"><span class="linenos"> 428</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only correlate with an Obs or a Corr.&quot;</span><span class="p">)</span>
+</span><span id="L-429"><a href="#L-429"><span class="linenos"> 429</span></a>
+</span><span id="L-430"><a href="#L-430"><span class="linenos"> 430</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
+</span><span id="L-431"><a href="#L-431"><span class="linenos"> 431</span></a>
+</span><span id="L-432"><a href="#L-432"><span class="linenos"> 432</span></a>    <span class="k">def</span> <span class="nf">reweight</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">weight</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-433"><a href="#L-433"><span class="linenos"> 433</span></a>        <span class="sd">&quot;&quot;&quot;Reweight the correlator.</span>
+</span><span id="L-434"><a href="#L-434"><span class="linenos"> 434</span></a>
+</span><span id="L-435"><a href="#L-435"><span class="linenos"> 435</span></a><span class="sd">        Parameters</span>
+</span><span id="L-436"><a href="#L-436"><span class="linenos"> 436</span></a><span class="sd">        ----------</span>
+</span><span id="L-437"><a href="#L-437"><span class="linenos"> 437</span></a><span class="sd">        weight : Obs</span>
+</span><span id="L-438"><a href="#L-438"><span class="linenos"> 438</span></a><span class="sd">            Reweighting factor. An Observable that has to be defined on a superset of the</span>
+</span><span id="L-439"><a href="#L-439"><span class="linenos"> 439</span></a><span class="sd">            configurations in obs[i].idl for all i.</span>
+</span><span id="L-440"><a href="#L-440"><span class="linenos"> 440</span></a><span class="sd">        all_configs : bool</span>
+</span><span id="L-441"><a href="#L-441"><span class="linenos"> 441</span></a><span class="sd">            if True, the reweighted observables are normalized by the average of</span>
+</span><span id="L-442"><a href="#L-442"><span class="linenos"> 442</span></a><span class="sd">            the reweighting factor on all configurations in weight.idl and not</span>
+</span><span id="L-443"><a href="#L-443"><span class="linenos"> 443</span></a><span class="sd">            on the configurations in obs[i].idl.</span>
+</span><span id="L-444"><a href="#L-444"><span class="linenos"> 444</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-445"><a href="#L-445"><span class="linenos"> 445</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-446"><a href="#L-446"><span class="linenos"> 446</span></a>        <span class="k">for</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">:</span>
+</span><span id="L-447"><a href="#L-447"><span class="linenos"> 447</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-448"><a href="#L-448"><span class="linenos"> 448</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-449"><a href="#L-449"><span class="linenos"> 449</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-450"><a href="#L-450"><span class="linenos"> 450</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">reweight</span><span class="p">(</span><span class="n">weight</span><span class="p">,</span> <span class="n">t_slice</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)))</span>
+</span><span id="L-451"><a href="#L-451"><span class="linenos"> 451</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
+</span><span id="L-452"><a href="#L-452"><span class="linenos"> 452</span></a>
+</span><span id="L-453"><a href="#L-453"><span class="linenos"> 453</span></a>    <span class="k">def</span> <span class="nf">T_symmetry</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">partner</span><span class="p">,</span> <span class="n">parity</span><span class="o">=+</span><span class="mi">1</span><span class="p">):</span>
+</span><span id="L-454"><a href="#L-454"><span class="linenos"> 454</span></a>        <span class="sd">&quot;&quot;&quot;Return the time symmetry average of the correlator and its partner</span>
+</span><span id="L-455"><a href="#L-455"><span class="linenos"> 455</span></a>
+</span><span id="L-456"><a href="#L-456"><span class="linenos"> 456</span></a><span class="sd">        Parameters</span>
+</span><span id="L-457"><a href="#L-457"><span class="linenos"> 457</span></a><span class="sd">        ----------</span>
+</span><span id="L-458"><a href="#L-458"><span class="linenos"> 458</span></a><span class="sd">        partner : Corr</span>
+</span><span id="L-459"><a href="#L-459"><span class="linenos"> 459</span></a><span class="sd">            Time symmetry partner of the Corr</span>
+</span><span id="L-460"><a href="#L-460"><span class="linenos"> 460</span></a><span class="sd">        partity : int</span>
+</span><span id="L-461"><a href="#L-461"><span class="linenos"> 461</span></a><span class="sd">            Parity quantum number of the correlator, can be +1 or -1</span>
+</span><span id="L-462"><a href="#L-462"><span class="linenos"> 462</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-463"><a href="#L-463"><span class="linenos"> 463</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="L-464"><a href="#L-464"><span class="linenos"> 464</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;T partner has to be a Corr object.&quot;</span><span class="p">)</span>
+</span><span id="L-465"><a href="#L-465"><span class="linenos"> 465</span></a>        <span class="k">if</span> <span class="n">parity</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="o">+</span><span class="mi">1</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">]:</span>
+</span><span id="L-466"><a href="#L-466"><span class="linenos"> 466</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Parity has to be +1 or -1.&quot;</span><span class="p">)</span>
+</span><span id="L-467"><a href="#L-467"><span class="linenos"> 467</span></a>        <span class="n">T_partner</span> <span class="o">=</span> <span class="n">parity</span> <span class="o">*</span> <span class="n">partner</span><span class="o">.</span><span class="n">reverse</span><span class="p">()</span>
+</span><span id="L-468"><a href="#L-468"><span class="linenos"> 468</span></a>
+</span><span id="L-469"><a href="#L-469"><span class="linenos"> 469</span></a>        <span class="n">t_slices</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-470"><a href="#L-470"><span class="linenos"> 470</span></a>        <span class="n">test</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">T_partner</span><span class="p">)</span>
+</span><span id="L-471"><a href="#L-471"><span class="linenos"> 471</span></a>        <span class="n">test</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="L-472"><a href="#L-472"><span class="linenos"> 472</span></a>        <span class="k">for</span> <span class="n">x0</span><span class="p">,</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">test</span><span class="o">.</span><span class="n">content</span><span class="p">):</span>
+</span><span id="L-473"><a href="#L-473"><span class="linenos"> 473</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-474"><a href="#L-474"><span class="linenos"> 474</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">t_slice</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">is_zero_within_error</span><span class="p">(</span><span class="mi">5</span><span class="p">):</span>
+</span><span id="L-475"><a href="#L-475"><span class="linenos"> 475</span></a>                    <span class="n">t_slices</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span>
+</span><span id="L-476"><a href="#L-476"><span class="linenos"> 476</span></a>        <span class="k">if</span> <span class="n">t_slices</span><span class="p">:</span>
+</span><span id="L-477"><a href="#L-477"><span class="linenos"> 477</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;T symmetry partners do not agree within 5 sigma on time slices &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">t_slices</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-478"><a href="#L-478"><span class="linenos"> 478</span></a>
+</span><span id="L-479"><a href="#L-479"><span class="linenos"> 479</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">+</span> <span class="n">T_partner</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span>
+</span><span id="L-480"><a href="#L-480"><span class="linenos"> 480</span></a>
+</span><span id="L-481"><a href="#L-481"><span class="linenos"> 481</span></a>    <span class="k">def</span> <span class="nf">deriv</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s2">&quot;symmetric&quot;</span><span class="p">):</span>
+</span><span id="L-482"><a href="#L-482"><span class="linenos"> 482</span></a>        <span class="sd">&quot;&quot;&quot;Return the first derivative of the correlator with respect to x0.</span>
+</span><span id="L-483"><a href="#L-483"><span class="linenos"> 483</span></a>
+</span><span id="L-484"><a href="#L-484"><span class="linenos"> 484</span></a><span class="sd">        Parameters</span>
+</span><span id="L-485"><a href="#L-485"><span class="linenos"> 485</span></a><span class="sd">        ----------</span>
+</span><span id="L-486"><a href="#L-486"><span class="linenos"> 486</span></a><span class="sd">        variant : str</span>
+</span><span id="L-487"><a href="#L-487"><span class="linenos"> 487</span></a><span class="sd">            decides which definition of the finite differences derivative is used.</span>
+</span><span id="L-488"><a href="#L-488"><span class="linenos"> 488</span></a><span class="sd">            Available choice: symmetric, forward, backward, improved, default: symmetric</span>
+</span><span id="L-489"><a href="#L-489"><span class="linenos"> 489</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-490"><a href="#L-490"><span class="linenos"> 490</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;symmetric&quot;</span><span class="p">:</span>
+</span><span id="L-491"><a href="#L-491"><span class="linenos"> 491</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-492"><a href="#L-492"><span class="linenos"> 492</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="L-493"><a href="#L-493"><span class="linenos"> 493</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-494"><a href="#L-494"><span class="linenos"> 494</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-495"><a href="#L-495"><span class="linenos"> 495</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-496"><a href="#L-496"><span class="linenos"> 496</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-497"><a href="#L-497"><span class="linenos"> 497</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="L-498"><a href="#L-498"><span class="linenos"> 498</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Derivative is undefined at all timeslices&#39;</span><span class="p">)</span>
+</span><span id="L-499"><a href="#L-499"><span class="linenos"> 499</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="L-500"><a href="#L-500"><span class="linenos"> 500</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;forward&quot;</span><span class="p">:</span>
+</span><span id="L-501"><a href="#L-501"><span class="linenos"> 501</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-502"><a href="#L-502"><span class="linenos"> 502</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="L-503"><a href="#L-503"><span class="linenos"> 503</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-504"><a href="#L-504"><span class="linenos"> 504</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-505"><a href="#L-505"><span class="linenos"> 505</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-506"><a href="#L-506"><span class="linenos"> 506</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="L-507"><a href="#L-507"><span class="linenos"> 507</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="L-508"><a href="#L-508"><span class="linenos"> 508</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="L-509"><a href="#L-509"><span class="linenos"> 509</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="L-510"><a href="#L-510"><span class="linenos"> 510</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;backward&quot;</span><span class="p">:</span>
+</span><span id="L-511"><a href="#L-511"><span class="linenos"> 511</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-512"><a href="#L-512"><span class="linenos"> 512</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-513"><a href="#L-513"><span class="linenos"> 513</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-514"><a href="#L-514"><span class="linenos"> 514</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-515"><a href="#L-515"><span class="linenos"> 515</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-516"><a href="#L-516"><span class="linenos"> 516</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="L-517"><a href="#L-517"><span class="linenos"> 517</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="L-518"><a href="#L-518"><span class="linenos"> 518</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="L-519"><a href="#L-519"><span class="linenos"> 519</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">])</span>
+</span><span id="L-520"><a href="#L-520"><span class="linenos"> 520</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;improved&quot;</span><span class="p">:</span>
+</span><span id="L-521"><a href="#L-521"><span class="linenos"> 521</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-522"><a href="#L-522"><span class="linenos"> 522</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="L-523"><a href="#L-523"><span class="linenos"> 523</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-524"><a href="#L-524"><span class="linenos"> 524</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-525"><a href="#L-525"><span class="linenos"> 525</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-526"><a href="#L-526"><span class="linenos"> 526</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="mi">8</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">8</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]))</span>
+</span><span id="L-527"><a href="#L-527"><span class="linenos"> 527</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="L-528"><a href="#L-528"><span class="linenos"> 528</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Derivative is undefined at all timeslices&#39;</span><span class="p">)</span>
+</span><span id="L-529"><a href="#L-529"><span class="linenos"> 529</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="L-530"><a href="#L-530"><span class="linenos"> 530</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-531"><a href="#L-531"><span class="linenos"> 531</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown variant.&quot;</span><span class="p">)</span>
+</span><span id="L-532"><a href="#L-532"><span class="linenos"> 532</span></a>
+</span><span id="L-533"><a href="#L-533"><span class="linenos"> 533</span></a>    <span class="k">def</span> <span class="nf">second_deriv</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s2">&quot;symmetric&quot;</span><span class="p">):</span>
+</span><span id="L-534"><a href="#L-534"><span class="linenos"> 534</span></a>        <span class="sd">&quot;&quot;&quot;Return the second derivative of the correlator with respect to x0.</span>
+</span><span id="L-535"><a href="#L-535"><span class="linenos"> 535</span></a>
+</span><span id="L-536"><a href="#L-536"><span class="linenos"> 536</span></a><span class="sd">        Parameters</span>
+</span><span id="L-537"><a href="#L-537"><span class="linenos"> 537</span></a><span class="sd">        ----------</span>
+</span><span id="L-538"><a href="#L-538"><span class="linenos"> 538</span></a><span class="sd">        variant : str</span>
+</span><span id="L-539"><a href="#L-539"><span class="linenos"> 539</span></a><span class="sd">            decides which definition of the finite differences derivative is used.</span>
+</span><span id="L-540"><a href="#L-540"><span class="linenos"> 540</span></a><span class="sd">            Available choice: symmetric, improved, default: symmetric</span>
+</span><span id="L-541"><a href="#L-541"><span class="linenos"> 541</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-542"><a href="#L-542"><span class="linenos"> 542</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;symmetric&quot;</span><span class="p">:</span>
+</span><span id="L-543"><a href="#L-543"><span class="linenos"> 543</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-544"><a href="#L-544"><span class="linenos"> 544</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="L-545"><a href="#L-545"><span class="linenos"> 545</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-546"><a href="#L-546"><span class="linenos"> 546</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-547"><a href="#L-547"><span class="linenos"> 547</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-548"><a href="#L-548"><span class="linenos"> 548</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-549"><a href="#L-549"><span class="linenos"> 549</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="L-550"><a href="#L-550"><span class="linenos"> 550</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="L-551"><a href="#L-551"><span class="linenos"> 551</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="L-552"><a href="#L-552"><span class="linenos"> 552</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;improved&quot;</span><span class="p">:</span>
+</span><span id="L-553"><a href="#L-553"><span class="linenos"> 553</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-554"><a href="#L-554"><span class="linenos"> 554</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="L-555"><a href="#L-555"><span class="linenos"> 555</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-556"><a href="#L-556"><span class="linenos"> 556</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-557"><a href="#L-557"><span class="linenos"> 557</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-558"><a href="#L-558"><span class="linenos"> 558</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="o">+</span> <span class="mi">16</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="mi">30</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="mi">16</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]))</span>
+</span><span id="L-559"><a href="#L-559"><span class="linenos"> 559</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="L-560"><a href="#L-560"><span class="linenos"> 560</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="L-561"><a href="#L-561"><span class="linenos"> 561</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="L-562"><a href="#L-562"><span class="linenos"> 562</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-563"><a href="#L-563"><span class="linenos"> 563</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown variant.&quot;</span><span class="p">)</span>
+</span><span id="L-564"><a href="#L-564"><span class="linenos"> 564</span></a>
+</span><span id="L-565"><a href="#L-565"><span class="linenos"> 565</span></a>    <span class="k">def</span> <span class="nf">m_eff</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s1">&#39;log&#39;</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="mf">1.0</span><span class="p">):</span>
+</span><span id="L-566"><a href="#L-566"><span class="linenos"> 566</span></a>        <span class="sd">&quot;&quot;&quot;Returns the effective mass of the correlator as correlator object</span>
+</span><span id="L-567"><a href="#L-567"><span class="linenos"> 567</span></a>
+</span><span id="L-568"><a href="#L-568"><span class="linenos"> 568</span></a><span class="sd">        Parameters</span>
+</span><span id="L-569"><a href="#L-569"><span class="linenos"> 569</span></a><span class="sd">        ----------</span>
+</span><span id="L-570"><a href="#L-570"><span class="linenos"> 570</span></a><span class="sd">        variant : str</span>
+</span><span id="L-571"><a href="#L-571"><span class="linenos"> 571</span></a><span class="sd">            log : uses the standard effective mass log(C(t) / C(t+1))</span>
+</span><span id="L-572"><a href="#L-572"><span class="linenos"> 572</span></a><span class="sd">            cosh, periodic : Use periodicitiy of the correlator by solving C(t) / C(t+1) = cosh(m * (t - T/2)) / cosh(m * (t + 1 - T/2)) for m.</span>
+</span><span id="L-573"><a href="#L-573"><span class="linenos"> 573</span></a><span class="sd">            sinh : Use anti-periodicitiy of the correlator by solving C(t) / C(t+1) = sinh(m * (t - T/2)) / sinh(m * (t + 1 - T/2)) for m.</span>
+</span><span id="L-574"><a href="#L-574"><span class="linenos"> 574</span></a><span class="sd">            See, e.g., arXiv:1205.5380</span>
+</span><span id="L-575"><a href="#L-575"><span class="linenos"> 575</span></a><span class="sd">            arccosh : Uses the explicit form of the symmetrized correlator (not recommended)</span>
+</span><span id="L-576"><a href="#L-576"><span class="linenos"> 576</span></a><span class="sd">        guess : float</span>
+</span><span id="L-577"><a href="#L-577"><span class="linenos"> 577</span></a><span class="sd">            guess for the root finder, only relevant for the root variant</span>
+</span><span id="L-578"><a href="#L-578"><span class="linenos"> 578</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-579"><a href="#L-579"><span class="linenos"> 579</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-580"><a href="#L-580"><span class="linenos"> 580</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Correlator must be projected before getting m_eff&#39;</span><span class="p">)</span>
+</span><span id="L-581"><a href="#L-581"><span class="linenos"> 581</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;log&#39;</span><span class="p">:</span>
+</span><span id="L-582"><a href="#L-582"><span class="linenos"> 582</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-583"><a href="#L-583"><span class="linenos"> 583</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="L-584"><a href="#L-584"><span class="linenos"> 584</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-585"><a href="#L-585"><span class="linenos"> 585</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-586"><a href="#L-586"><span class="linenos"> 586</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-587"><a href="#L-587"><span class="linenos"> 587</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="L-588"><a href="#L-588"><span class="linenos"> 588</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="L-589"><a href="#L-589"><span class="linenos"> 589</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;m_eff is undefined at all timeslices&#39;</span><span class="p">)</span>
+</span><span id="L-590"><a href="#L-590"><span class="linenos"> 590</span></a>
+</span><span id="L-591"><a href="#L-591"><span class="linenos"> 591</span></a>            <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-592"><a href="#L-592"><span class="linenos"> 592</span></a>
+</span><span id="L-593"><a href="#L-593"><span class="linenos"> 593</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;periodic&#39;</span><span class="p">,</span> <span class="s1">&#39;cosh&#39;</span><span class="p">,</span> <span class="s1">&#39;sinh&#39;</span><span class="p">]:</span>
+</span><span id="L-594"><a href="#L-594"><span class="linenos"> 594</span></a>            <span class="k">if</span> <span class="n">variant</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;periodic&#39;</span><span class="p">,</span> <span class="s1">&#39;cosh&#39;</span><span class="p">]:</span>
+</span><span id="L-595"><a href="#L-595"><span class="linenos"> 595</span></a>                <span class="n">func</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">cosh</span>
+</span><span id="L-596"><a href="#L-596"><span class="linenos"> 596</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-597"><a href="#L-597"><span class="linenos"> 597</span></a>                <span class="n">func</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sinh</span>
+</span><span id="L-598"><a href="#L-598"><span class="linenos"> 598</span></a>
+</span><span id="L-599"><a href="#L-599"><span class="linenos"> 599</span></a>            <span class="k">def</span> <span class="nf">root_function</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">d</span><span class="p">):</span>
+</span><span id="L-600"><a href="#L-600"><span class="linenos"> 600</span></a>                <span class="k">return</span> <span class="n">func</span><span class="p">(</span><span class="n">x</span> <span class="o">*</span> <span class="p">(</span><span class="n">t</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">))</span> <span class="o">/</span> <span class="n">func</span><span class="p">(</span><span class="n">x</span> <span class="o">*</span> <span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">))</span> <span class="o">-</span> <span class="n">d</span>
+</span><span id="L-601"><a href="#L-601"><span class="linenos"> 601</span></a>
+</span><span id="L-602"><a href="#L-602"><span class="linenos"> 602</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-603"><a href="#L-603"><span class="linenos"> 603</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="L-604"><a href="#L-604"><span class="linenos"> 604</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-605"><a href="#L-605"><span class="linenos"> 605</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-606"><a href="#L-606"><span class="linenos"> 606</span></a>                <span class="c1"># Fill the two timeslices in the middle of the lattice with their predecessors</span>
+</span><span id="L-607"><a href="#L-607"><span class="linenos"> 607</span></a>                <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;sinh&#39;</span> <span class="ow">and</span> <span class="n">t</span> <span class="ow">in</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]:</span>
+</span><span id="L-608"><a href="#L-608"><span class="linenos"> 608</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-609"><a href="#L-609"><span class="linenos"> 609</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-610"><a href="#L-610"><span class="linenos"> 610</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">find_root</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">root_function</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="n">guess</span><span class="p">)))</span>
+</span><span id="L-611"><a href="#L-611"><span class="linenos"> 611</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="L-612"><a href="#L-612"><span class="linenos"> 612</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;m_eff is undefined at all timeslices&#39;</span><span class="p">)</span>
+</span><span id="L-613"><a href="#L-613"><span class="linenos"> 613</span></a>
+</span><span id="L-614"><a href="#L-614"><span class="linenos"> 614</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="L-615"><a href="#L-615"><span class="linenos"> 615</span></a>
+</span><span id="L-616"><a href="#L-616"><span class="linenos"> 616</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;arccosh&#39;</span><span class="p">:</span>
+</span><span id="L-617"><a href="#L-617"><span class="linenos"> 617</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-618"><a href="#L-618"><span class="linenos"> 618</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="L-619"><a href="#L-619"><span class="linenos"> 619</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-620"><a href="#L-620"><span class="linenos"> 620</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-621"><a href="#L-621"><span class="linenos"> 621</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-622"><a href="#L-622"><span class="linenos"> 622</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]))</span>
+</span><span id="L-623"><a href="#L-623"><span class="linenos"> 623</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="L-624"><a href="#L-624"><span class="linenos"> 624</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;m_eff is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="L-625"><a href="#L-625"><span class="linenos"> 625</span></a>            <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">arccosh</span><span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-626"><a href="#L-626"><span class="linenos"> 626</span></a>
+</span><span id="L-627"><a href="#L-627"><span class="linenos"> 627</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-628"><a href="#L-628"><span class="linenos"> 628</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown variant.&#39;</span><span class="p">)</span>
+</span><span id="L-629"><a href="#L-629"><span class="linenos"> 629</span></a>
+</span><span id="L-630"><a href="#L-630"><span class="linenos"> 630</span></a>    <span class="k">def</span> <span class="nf">fit</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">function</span><span class="p">,</span> <span class="n">fitrange</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-631"><a href="#L-631"><span class="linenos"> 631</span></a>        <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Fits function to the data</span>
+</span><span id="L-632"><a href="#L-632"><span class="linenos"> 632</span></a>
+</span><span id="L-633"><a href="#L-633"><span class="linenos"> 633</span></a><span class="sd">        Parameters</span>
+</span><span id="L-634"><a href="#L-634"><span class="linenos"> 634</span></a><span class="sd">        ----------</span>
+</span><span id="L-635"><a href="#L-635"><span class="linenos"> 635</span></a><span class="sd">        function : obj</span>
+</span><span id="L-636"><a href="#L-636"><span class="linenos"> 636</span></a><span class="sd">            function to fit to the data. See fits.least_squares for details.</span>
+</span><span id="L-637"><a href="#L-637"><span class="linenos"> 637</span></a><span class="sd">        fitrange : list</span>
+</span><span id="L-638"><a href="#L-638"><span class="linenos"> 638</span></a><span class="sd">            Two element list containing the timeslices on which the fit is supposed to start and stop.</span>
+</span><span id="L-639"><a href="#L-639"><span class="linenos"> 639</span></a><span class="sd">            Caution: This range is inclusive as opposed to standard python indexing.</span>
+</span><span id="L-640"><a href="#L-640"><span class="linenos"> 640</span></a><span class="sd">            `fitrange=[4, 6]` corresponds to the three entries 4, 5 and 6.</span>
+</span><span id="L-641"><a href="#L-641"><span class="linenos"> 641</span></a><span class="sd">            If not specified, self.prange or all timeslices are used.</span>
+</span><span id="L-642"><a href="#L-642"><span class="linenos"> 642</span></a><span class="sd">        silent : bool</span>
+</span><span id="L-643"><a href="#L-643"><span class="linenos"> 643</span></a><span class="sd">            Decides whether output is printed to the standard output.</span>
+</span><span id="L-644"><a href="#L-644"><span class="linenos"> 644</span></a><span class="sd">        &#39;&#39;&#39;</span>
+</span><span id="L-645"><a href="#L-645"><span class="linenos"> 645</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-646"><a href="#L-646"><span class="linenos"> 646</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before fitting&quot;</span><span class="p">)</span>
+</span><span id="L-647"><a href="#L-647"><span class="linenos"> 647</span></a>
+</span><span id="L-648"><a href="#L-648"><span class="linenos"> 648</span></a>        <span class="k">if</span> <span class="n">fitrange</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-649"><a href="#L-649"><span class="linenos"> 649</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
+</span><span id="L-650"><a href="#L-650"><span class="linenos"> 650</span></a>                <span class="n">fitrange</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span>
+</span><span id="L-651"><a href="#L-651"><span class="linenos"> 651</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-652"><a href="#L-652"><span class="linenos"> 652</span></a>                <span class="n">fitrange</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
+</span><span id="L-653"><a href="#L-653"><span class="linenos"> 653</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-654"><a href="#L-654"><span class="linenos"> 654</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">fitrange</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-655"><a href="#L-655"><span class="linenos"> 655</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;fitrange has to be a list with two elements&quot;</span><span class="p">)</span>
+</span><span id="L-656"><a href="#L-656"><span class="linenos"> 656</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">fitrange</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="L-657"><a href="#L-657"><span class="linenos"> 657</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;fitrange has to have exactly two elements [fit_start, fit_stop]&quot;</span><span class="p">)</span>
+</span><span id="L-658"><a href="#L-658"><span class="linenos"> 658</span></a>
+</span><span id="L-659"><a href="#L-659"><span class="linenos"> 659</span></a>        <span class="n">xs</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">fitrange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">fitrange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="L-660"><a href="#L-660"><span class="linenos"> 660</span></a>        <span class="n">ys</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">fitrange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">fitrange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="L-661"><a href="#L-661"><span class="linenos"> 661</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">least_squares</span><span class="p">(</span><span class="n">xs</span><span class="p">,</span> <span class="n">ys</span><span class="p">,</span> <span class="n">function</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-662"><a href="#L-662"><span class="linenos"> 662</span></a>        <span class="k">return</span> <span class="n">result</span>
+</span><span id="L-663"><a href="#L-663"><span class="linenos"> 663</span></a>
+</span><span id="L-664"><a href="#L-664"><span class="linenos"> 664</span></a>    <span class="k">def</span> <span class="nf">plateau</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">plateau_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">method</span><span class="o">=</span><span class="s2">&quot;fit&quot;</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="L-665"><a href="#L-665"><span class="linenos"> 665</span></a>        <span class="sd">&quot;&quot;&quot; Extract a plateau value from a Corr object</span>
+</span><span id="L-666"><a href="#L-666"><span class="linenos"> 666</span></a>
+</span><span id="L-667"><a href="#L-667"><span class="linenos"> 667</span></a><span class="sd">        Parameters</span>
+</span><span id="L-668"><a href="#L-668"><span class="linenos"> 668</span></a><span class="sd">        ----------</span>
+</span><span id="L-669"><a href="#L-669"><span class="linenos"> 669</span></a><span class="sd">        plateau_range : list</span>
+</span><span id="L-670"><a href="#L-670"><span class="linenos"> 670</span></a><span class="sd">            list with two entries, indicating the first and the last timeslice</span>
+</span><span id="L-671"><a href="#L-671"><span class="linenos"> 671</span></a><span class="sd">            of the plateau region.</span>
+</span><span id="L-672"><a href="#L-672"><span class="linenos"> 672</span></a><span class="sd">        method : str</span>
+</span><span id="L-673"><a href="#L-673"><span class="linenos"> 673</span></a><span class="sd">            method to extract the plateau.</span>
+</span><span id="L-674"><a href="#L-674"><span class="linenos"> 674</span></a><span class="sd">                &#39;fit&#39; fits a constant to the plateau region</span>
+</span><span id="L-675"><a href="#L-675"><span class="linenos"> 675</span></a><span class="sd">                &#39;avg&#39;, &#39;average&#39; or &#39;mean&#39; just average over the given timeslices.</span>
+</span><span id="L-676"><a href="#L-676"><span class="linenos"> 676</span></a><span class="sd">        auto_gamma : bool</span>
+</span><span id="L-677"><a href="#L-677"><span class="linenos"> 677</span></a><span class="sd">            apply gamma_method with default parameters to the Corr. Defaults to None</span>
+</span><span id="L-678"><a href="#L-678"><span class="linenos"> 678</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-679"><a href="#L-679"><span class="linenos"> 679</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">plateau_range</span><span class="p">:</span>
+</span><span id="L-680"><a href="#L-680"><span class="linenos"> 680</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
+</span><span id="L-681"><a href="#L-681"><span class="linenos"> 681</span></a>                <span class="n">plateau_range</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span>
+</span><span id="L-682"><a href="#L-682"><span class="linenos"> 682</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-683"><a href="#L-683"><span class="linenos"> 683</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;no plateau range provided&quot;</span><span class="p">)</span>
+</span><span id="L-684"><a href="#L-684"><span class="linenos"> 684</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-685"><a href="#L-685"><span class="linenos"> 685</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before getting a plateau.&quot;</span><span class="p">)</span>
+</span><span id="L-686"><a href="#L-686"><span class="linenos"> 686</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">plateau_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)])):</span>
+</span><span id="L-687"><a href="#L-687"><span class="linenos"> 687</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;plateau is undefined at all timeslices in plateaurange.&quot;</span><span class="p">)</span>
+</span><span id="L-688"><a href="#L-688"><span class="linenos"> 688</span></a>        <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
+</span><span id="L-689"><a href="#L-689"><span class="linenos"> 689</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="L-690"><a href="#L-690"><span class="linenos"> 690</span></a>        <span class="k">if</span> <span class="n">method</span> <span class="o">==</span> <span class="s2">&quot;fit&quot;</span><span class="p">:</span>
+</span><span id="L-691"><a href="#L-691"><span class="linenos"> 691</span></a>            <span class="k">def</span> <span class="nf">const_func</span><span class="p">(</span><span class="n">a</span><span class="p">,</span> <span class="n">t</span><span class="p">):</span>
+</span><span id="L-692"><a href="#L-692"><span class="linenos"> 692</span></a>                <span class="k">return</span> <span class="n">a</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-693"><a href="#L-693"><span class="linenos"> 693</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit</span><span class="p">(</span><span class="n">const_func</span><span class="p">,</span> <span class="n">plateau_range</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-694"><a href="#L-694"><span class="linenos"> 694</span></a>        <span class="k">elif</span> <span class="n">method</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;avg&quot;</span><span class="p">,</span> <span class="s2">&quot;average&quot;</span><span class="p">,</span> <span class="s2">&quot;mean&quot;</span><span class="p">]:</span>
+</span><span id="L-695"><a href="#L-695"><span class="linenos"> 695</span></a>            <span class="n">returnvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">([</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="n">item</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span>
+</span><span id="L-696"><a href="#L-696"><span class="linenos"> 696</span></a>            <span class="k">return</span> <span class="n">returnvalue</span>
+</span><span id="L-697"><a href="#L-697"><span class="linenos"> 697</span></a>
+</span><span id="L-698"><a href="#L-698"><span class="linenos"> 698</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-699"><a href="#L-699"><span class="linenos"> 699</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsupported plateau method: &quot;</span> <span class="o">+</span> <span class="n">method</span><span class="p">)</span>
+</span><span id="L-700"><a href="#L-700"><span class="linenos"> 700</span></a>
+</span><span id="L-701"><a href="#L-701"><span class="linenos"> 701</span></a>    <span class="k">def</span> <span class="nf">set_prange</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">prange</span><span class="p">):</span>
+</span><span id="L-702"><a href="#L-702"><span class="linenos"> 702</span></a>        <span class="sd">&quot;&quot;&quot;Sets the attribute prange of the Corr object.&quot;&quot;&quot;</span>
+</span><span id="L-703"><a href="#L-703"><span class="linenos"> 703</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">prange</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="L-704"><a href="#L-704"><span class="linenos"> 704</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;prange must be a list or array with two values&quot;</span><span class="p">)</span>
+</span><span id="L-705"><a href="#L-705"><span class="linenos"> 705</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">((</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">int</span><span class="p">))</span> <span class="ow">and</span> <span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="nb">int</span><span class="p">))):</span>
+</span><span id="L-706"><a href="#L-706"><span class="linenos"> 706</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Start and end point must be integers&quot;</span><span class="p">)</span>
+</span><span id="L-707"><a href="#L-707"><span class="linenos"> 707</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="mi">0</span> <span class="o">&lt;=</span> <span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="ow">and</span> <span class="mi">0</span> <span class="o">&lt;=</span> <span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="ow">and</span> <span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&lt;</span> <span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="L-708"><a href="#L-708"><span class="linenos"> 708</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Start and end point must define a range in the interval 0,T&quot;</span><span class="p">)</span>
+</span><span id="L-709"><a href="#L-709"><span class="linenos"> 709</span></a>
+</span><span id="L-710"><a href="#L-710"><span class="linenos"> 710</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">prange</span>
+</span><span id="L-711"><a href="#L-711"><span class="linenos"> 711</span></a>        <span class="k">return</span>
+</span><span id="L-712"><a href="#L-712"><span class="linenos"> 712</span></a>
+</span><span id="L-713"><a href="#L-713"><span class="linenos"> 713</span></a>    <span class="k">def</span> <span class="nf">show</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">comp</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">y_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">logscale</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">plateau</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">fit_res</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">ylabel</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">hide_sigma</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">references</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-714"><a href="#L-714"><span class="linenos"> 714</span></a>        <span class="sd">&quot;&quot;&quot;Plots the correlator using the tag of the correlator as label if available.</span>
+</span><span id="L-715"><a href="#L-715"><span class="linenos"> 715</span></a>
+</span><span id="L-716"><a href="#L-716"><span class="linenos"> 716</span></a><span class="sd">        Parameters</span>
+</span><span id="L-717"><a href="#L-717"><span class="linenos"> 717</span></a><span class="sd">        ----------</span>
+</span><span id="L-718"><a href="#L-718"><span class="linenos"> 718</span></a><span class="sd">        x_range : list</span>
+</span><span id="L-719"><a href="#L-719"><span class="linenos"> 719</span></a><span class="sd">            list of two values, determining the range of the x-axis e.g. [4, 8]</span>
+</span><span id="L-720"><a href="#L-720"><span class="linenos"> 720</span></a><span class="sd">        comp : Corr or list of Corr</span>
+</span><span id="L-721"><a href="#L-721"><span class="linenos"> 721</span></a><span class="sd">            Correlator or list of correlators which are plotted for comparison.</span>
+</span><span id="L-722"><a href="#L-722"><span class="linenos"> 722</span></a><span class="sd">            The tags of these correlators are used as labels if available.</span>
+</span><span id="L-723"><a href="#L-723"><span class="linenos"> 723</span></a><span class="sd">        logscale : bool</span>
+</span><span id="L-724"><a href="#L-724"><span class="linenos"> 724</span></a><span class="sd">            Sets y-axis to logscale</span>
+</span><span id="L-725"><a href="#L-725"><span class="linenos"> 725</span></a><span class="sd">        plateau : Obs</span>
+</span><span id="L-726"><a href="#L-726"><span class="linenos"> 726</span></a><span class="sd">            Plateau value to be visualized in the figure</span>
+</span><span id="L-727"><a href="#L-727"><span class="linenos"> 727</span></a><span class="sd">        fit_res : Fit_result</span>
+</span><span id="L-728"><a href="#L-728"><span class="linenos"> 728</span></a><span class="sd">            Fit_result object to be visualized</span>
+</span><span id="L-729"><a href="#L-729"><span class="linenos"> 729</span></a><span class="sd">        ylabel : str</span>
+</span><span id="L-730"><a href="#L-730"><span class="linenos"> 730</span></a><span class="sd">            Label for the y-axis</span>
+</span><span id="L-731"><a href="#L-731"><span class="linenos"> 731</span></a><span class="sd">        save : str</span>
+</span><span id="L-732"><a href="#L-732"><span class="linenos"> 732</span></a><span class="sd">            path to file in which the figure should be saved</span>
+</span><span id="L-733"><a href="#L-733"><span class="linenos"> 733</span></a><span class="sd">        auto_gamma : bool</span>
+</span><span id="L-734"><a href="#L-734"><span class="linenos"> 734</span></a><span class="sd">            Apply the gamma method with standard parameters to all correlators and plateau values before plotting.</span>
+</span><span id="L-735"><a href="#L-735"><span class="linenos"> 735</span></a><span class="sd">        hide_sigma : float</span>
+</span><span id="L-736"><a href="#L-736"><span class="linenos"> 736</span></a><span class="sd">            Hides data points from the first value on which is consistent with zero within &#39;hide_sigma&#39; standard errors.</span>
+</span><span id="L-737"><a href="#L-737"><span class="linenos"> 737</span></a><span class="sd">        references : list</span>
+</span><span id="L-738"><a href="#L-738"><span class="linenos"> 738</span></a><span class="sd">            List of floating point values that are displayed as horizontal lines for reference.</span>
+</span><span id="L-739"><a href="#L-739"><span class="linenos"> 739</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-740"><a href="#L-740"><span class="linenos"> 740</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-741"><a href="#L-741"><span class="linenos"> 741</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before plotting&quot;</span><span class="p">)</span>
+</span><span id="L-742"><a href="#L-742"><span class="linenos"> 742</span></a>
+</span><span id="L-743"><a href="#L-743"><span class="linenos"> 743</span></a>        <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
+</span><span id="L-744"><a href="#L-744"><span class="linenos"> 744</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="L-745"><a href="#L-745"><span class="linenos"> 745</span></a>
+</span><span id="L-746"><a href="#L-746"><span class="linenos"> 746</span></a>        <span class="k">if</span> <span class="n">x_range</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-747"><a href="#L-747"><span class="linenos"> 747</span></a>            <span class="n">x_range</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
+</span><span id="L-748"><a href="#L-748"><span class="linenos"> 748</span></a>
+</span><span id="L-749"><a href="#L-749"><span class="linenos"> 749</span></a>        <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="L-750"><a href="#L-750"><span class="linenos"> 750</span></a>        <span class="n">ax1</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">111</span><span class="p">)</span>
+</span><span id="L-751"><a href="#L-751"><span class="linenos"> 751</span></a>
+</span><span id="L-752"><a href="#L-752"><span class="linenos"> 752</span></a>        <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">y_err</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">plottable</span><span class="p">()</span>
+</span><span id="L-753"><a href="#L-753"><span class="linenos"> 753</span></a>        <span class="k">if</span> <span class="n">hide_sigma</span><span class="p">:</span>
+</span><span id="L-754"><a href="#L-754"><span class="linenos"> 754</span></a>            <span class="n">hide_from</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">((</span><span class="n">hide_sigma</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">y_err</span><span class="p">))</span> <span class="o">&gt;</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="L-755"><a href="#L-755"><span class="linenos"> 755</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-756"><a href="#L-756"><span class="linenos"> 756</span></a>            <span class="n">hide_from</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-757"><a href="#L-757"><span class="linenos"> 757</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y_err</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">label</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
+</span><span id="L-758"><a href="#L-758"><span class="linenos"> 758</span></a>        <span class="k">if</span> <span class="n">logscale</span><span class="p">:</span>
+</span><span id="L-759"><a href="#L-759"><span class="linenos"> 759</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">set_yscale</span><span class="p">(</span><span class="s1">&#39;log&#39;</span><span class="p">)</span>
+</span><span id="L-760"><a href="#L-760"><span class="linenos"> 760</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-761"><a href="#L-761"><span class="linenos"> 761</span></a>            <span class="k">if</span> <span class="n">y_range</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-762"><a href="#L-762"><span class="linenos"> 762</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="L-763"><a href="#L-763"><span class="linenos"> 763</span></a>                    <span class="n">y_min</span> <span class="o">=</span> <span class="nb">min</span><span class="p">([(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="p">(</span><span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">and</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">&lt;</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="L-764"><a href="#L-764"><span class="linenos"> 764</span></a>                    <span class="n">y_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="p">(</span><span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">and</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">&lt;</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="L-765"><a href="#L-765"><span class="linenos"> 765</span></a>                    <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">([</span><span class="n">y_min</span> <span class="o">-</span> <span class="mf">0.1</span> <span class="o">*</span> <span class="p">(</span><span class="n">y_max</span> <span class="o">-</span> <span class="n">y_min</span><span class="p">),</span> <span class="n">y_max</span> <span class="o">+</span> <span class="mf">0.1</span> <span class="o">*</span> <span class="p">(</span><span class="n">y_max</span> <span class="o">-</span> <span class="n">y_min</span><span class="p">)])</span>
+</span><span id="L-766"><a href="#L-766"><span class="linenos"> 766</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="L-767"><a href="#L-767"><span class="linenos"> 767</span></a>                    <span class="k">pass</span>
+</span><span id="L-768"><a href="#L-768"><span class="linenos"> 768</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-769"><a href="#L-769"><span class="linenos"> 769</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">(</span><span class="n">y_range</span><span class="p">)</span>
+</span><span id="L-770"><a href="#L-770"><span class="linenos"> 770</span></a>        <span class="k">if</span> <span class="n">comp</span><span class="p">:</span>
+</span><span id="L-771"><a href="#L-771"><span class="linenos"> 771</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">comp</span><span class="p">,</span> <span class="p">(</span><span class="n">Corr</span><span class="p">,</span> <span class="nb">list</span><span class="p">)):</span>
+</span><span id="L-772"><a href="#L-772"><span class="linenos"> 772</span></a>                <span class="k">for</span> <span class="n">corr</span> <span class="ow">in</span> <span class="n">comp</span> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">comp</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="k">else</span> <span class="p">[</span><span class="n">comp</span><span class="p">]:</span>
+</span><span id="L-773"><a href="#L-773"><span class="linenos"> 773</span></a>                    <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
+</span><span id="L-774"><a href="#L-774"><span class="linenos"> 774</span></a>                        <span class="n">corr</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="L-775"><a href="#L-775"><span class="linenos"> 775</span></a>                    <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">y_err</span> <span class="o">=</span> <span class="n">corr</span><span class="o">.</span><span class="n">plottable</span><span class="p">()</span>
+</span><span id="L-776"><a href="#L-776"><span class="linenos"> 776</span></a>                    <span class="k">if</span> <span class="n">hide_sigma</span><span class="p">:</span>
+</span><span id="L-777"><a href="#L-777"><span class="linenos"> 777</span></a>                        <span class="n">hide_from</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">((</span><span class="n">hide_sigma</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">y_err</span><span class="p">))</span> <span class="o">&gt;</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="L-778"><a href="#L-778"><span class="linenos"> 778</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-779"><a href="#L-779"><span class="linenos"> 779</span></a>                        <span class="n">hide_from</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-780"><a href="#L-780"><span class="linenos"> 780</span></a>                    <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y_err</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">label</span><span class="o">=</span><span class="n">corr</span><span class="o">.</span><span class="n">tag</span><span class="p">,</span> <span class="n">mfc</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;axes.facecolor&#39;</span><span class="p">])</span>
+</span><span id="L-781"><a href="#L-781"><span class="linenos"> 781</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-782"><a href="#L-782"><span class="linenos"> 782</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;comp&#39; must be a correlator or a list of correlators.&quot;</span><span class="p">)</span>
+</span><span id="L-783"><a href="#L-783"><span class="linenos"> 783</span></a>
+</span><span id="L-784"><a href="#L-784"><span class="linenos"> 784</span></a>        <span class="k">if</span> <span class="n">plateau</span><span class="p">:</span>
+</span><span id="L-785"><a href="#L-785"><span class="linenos"> 785</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">plateau</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-786"><a href="#L-786"><span class="linenos"> 786</span></a>                <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
+</span><span id="L-787"><a href="#L-787"><span class="linenos"> 787</span></a>                    <span class="n">plateau</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="L-788"><a href="#L-788"><span class="linenos"> 788</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="n">plateau</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="nb">str</span><span class="p">(</span><span class="n">plateau</span><span class="p">))</span>
+</span><span id="L-789"><a href="#L-789"><span class="linenos"> 789</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">axhspan</span><span class="p">(</span><span class="n">plateau</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">plateau</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">plateau</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">plateau</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.25</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">)</span>
+</span><span id="L-790"><a href="#L-790"><span class="linenos"> 790</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-791"><a href="#L-791"><span class="linenos"> 791</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;plateau&#39; must be an Obs&quot;</span><span class="p">)</span>
+</span><span id="L-792"><a href="#L-792"><span class="linenos"> 792</span></a>
+</span><span id="L-793"><a href="#L-793"><span class="linenos"> 793</span></a>        <span class="k">if</span> <span class="n">references</span><span class="p">:</span>
+</span><span id="L-794"><a href="#L-794"><span class="linenos"> 794</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">references</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-795"><a href="#L-795"><span class="linenos"> 795</span></a>                <span class="k">for</span> <span class="n">ref</span> <span class="ow">in</span> <span class="n">references</span><span class="p">:</span>
+</span><span id="L-796"><a href="#L-796"><span class="linenos"> 796</span></a>                    <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="n">ref</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">)</span>
+</span><span id="L-797"><a href="#L-797"><span class="linenos"> 797</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-798"><a href="#L-798"><span class="linenos"> 798</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;references&#39; must be a list of floating pint values.&quot;</span><span class="p">)</span>
+</span><span id="L-799"><a href="#L-799"><span class="linenos"> 799</span></a>
+</span><span id="L-800"><a href="#L-800"><span class="linenos"> 800</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
+</span><span id="L-801"><a href="#L-801"><span class="linenos"> 801</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="L-802"><a href="#L-802"><span class="linenos"> 802</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="L-803"><a href="#L-803"><span class="linenos"> 803</span></a>
+</span><span id="L-804"><a href="#L-804"><span class="linenos"> 804</span></a>        <span class="k">if</span> <span class="n">fit_res</span><span class="p">:</span>
+</span><span id="L-805"><a href="#L-805"><span class="linenos"> 805</span></a>            <span class="n">x_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mf">0.05</span><span class="p">)</span>
+</span><span id="L-806"><a href="#L-806"><span class="linenos"> 806</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span>
+</span><span id="L-807"><a href="#L-807"><span class="linenos"> 807</span></a>                     <span class="n">fit_res</span><span class="o">.</span><span class="n">fit_function</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">],</span> <span class="n">x_samples</span><span class="p">),</span>
+</span><span id="L-808"><a href="#L-808"><span class="linenos"> 808</span></a>                     <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
+</span><span id="L-809"><a href="#L-809"><span class="linenos"> 809</span></a>
+</span><span id="L-810"><a href="#L-810"><span class="linenos"> 810</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$x_0 / a$&#39;</span><span class="p">)</span>
+</span><span id="L-811"><a href="#L-811"><span class="linenos"> 811</span></a>        <span class="k">if</span> <span class="n">ylabel</span><span class="p">:</span>
+</span><span id="L-812"><a href="#L-812"><span class="linenos"> 812</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="n">ylabel</span><span class="p">)</span>
+</span><span id="L-813"><a href="#L-813"><span class="linenos"> 813</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">,</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">])</span>
+</span><span id="L-814"><a href="#L-814"><span class="linenos"> 814</span></a>
+</span><span id="L-815"><a href="#L-815"><span class="linenos"> 815</span></a>        <span class="n">handles</span><span class="p">,</span> <span class="n">labels</span> <span class="o">=</span> <span class="n">ax1</span><span class="o">.</span><span class="n">get_legend_handles_labels</span><span class="p">()</span>
+</span><span id="L-816"><a href="#L-816"><span class="linenos"> 816</span></a>        <span class="k">if</span> <span class="n">labels</span><span class="p">:</span>
+</span><span id="L-817"><a href="#L-817"><span class="linenos"> 817</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
+</span><span id="L-818"><a href="#L-818"><span class="linenos"> 818</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="L-819"><a href="#L-819"><span class="linenos"> 819</span></a>
+</span><span id="L-820"><a href="#L-820"><span class="linenos"> 820</span></a>        <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
+</span><span id="L-821"><a href="#L-821"><span class="linenos"> 821</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">save</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="L-822"><a href="#L-822"><span class="linenos"> 822</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span><span class="p">)</span>
+</span><span id="L-823"><a href="#L-823"><span class="linenos"> 823</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-824"><a href="#L-824"><span class="linenos"> 824</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;save&#39; has to be a string.&quot;</span><span class="p">)</span>
+</span><span id="L-825"><a href="#L-825"><span class="linenos"> 825</span></a>
+</span><span id="L-826"><a href="#L-826"><span class="linenos"> 826</span></a>    <span class="k">def</span> <span class="nf">spaghetti_plot</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">logscale</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="L-827"><a href="#L-827"><span class="linenos"> 827</span></a>        <span class="sd">&quot;&quot;&quot;Produces a spaghetti plot of the correlator suited to monitor exceptional configurations.</span>
+</span><span id="L-828"><a href="#L-828"><span class="linenos"> 828</span></a>
+</span><span id="L-829"><a href="#L-829"><span class="linenos"> 829</span></a><span class="sd">        Parameters</span>
+</span><span id="L-830"><a href="#L-830"><span class="linenos"> 830</span></a><span class="sd">        ----------</span>
+</span><span id="L-831"><a href="#L-831"><span class="linenos"> 831</span></a><span class="sd">        logscale : bool</span>
+</span><span id="L-832"><a href="#L-832"><span class="linenos"> 832</span></a><span class="sd">            Determines whether the scale of the y-axis is logarithmic or standard.</span>
+</span><span id="L-833"><a href="#L-833"><span class="linenos"> 833</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-834"><a href="#L-834"><span class="linenos"> 834</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-835"><a href="#L-835"><span class="linenos"> 835</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator needs to be projected first.&quot;</span><span class="p">)</span>
+</span><span id="L-836"><a href="#L-836"><span class="linenos"> 836</span></a>
+</span><span id="L-837"><a href="#L-837"><span class="linenos"> 837</span></a>        <span class="n">mc_names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">mc_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]))</span>
+</span><span id="L-838"><a href="#L-838"><span class="linenos"> 838</span></a>        <span class="n">x0_vals</span> <span class="o">=</span> <span class="p">[</span><span class="n">n</span> <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">o</span><span class="p">)</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="L-839"><a href="#L-839"><span class="linenos"> 839</span></a>
+</span><span id="L-840"><a href="#L-840"><span class="linenos"> 840</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
+</span><span id="L-841"><a href="#L-841"><span class="linenos"> 841</span></a>            <span class="n">data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span><span class="o">.</span><span class="n">T</span>
+</span><span id="L-842"><a href="#L-842"><span class="linenos"> 842</span></a>
+</span><span id="L-843"><a href="#L-843"><span class="linenos"> 843</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="L-844"><a href="#L-844"><span class="linenos"> 844</span></a>            <span class="n">ax</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">111</span><span class="p">)</span>
+</span><span id="L-845"><a href="#L-845"><span class="linenos"> 845</span></a>            <span class="k">for</span> <span class="n">dat</span> <span class="ow">in</span> <span class="n">data</span><span class="p">:</span>
+</span><span id="L-846"><a href="#L-846"><span class="linenos"> 846</span></a>                <span class="n">ax</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x0_vals</span><span class="p">,</span> <span class="n">dat</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="L-847"><a href="#L-847"><span class="linenos"> 847</span></a>
+</span><span id="L-848"><a href="#L-848"><span class="linenos"> 848</span></a>            <span class="k">if</span> <span class="n">logscale</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-849"><a href="#L-849"><span class="linenos"> 849</span></a>                <span class="n">ax</span><span class="o">.</span><span class="n">set_yscale</span><span class="p">(</span><span class="s1">&#39;log&#39;</span><span class="p">)</span>
+</span><span id="L-850"><a href="#L-850"><span class="linenos"> 850</span></a>
+</span><span id="L-851"><a href="#L-851"><span class="linenos"> 851</span></a>            <span class="n">ax</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$x_0 / a$&#39;</span><span class="p">)</span>
+</span><span id="L-852"><a href="#L-852"><span class="linenos"> 852</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="L-853"><a href="#L-853"><span class="linenos"> 853</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="L-854"><a href="#L-854"><span class="linenos"> 854</span></a>
+</span><span id="L-855"><a href="#L-855"><span class="linenos"> 855</span></a>    <span class="k">def</span> <span class="nf">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="n">datatype</span><span class="o">=</span><span class="s2">&quot;json.gz&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-856"><a href="#L-856"><span class="linenos"> 856</span></a>        <span class="sd">&quot;&quot;&quot;Dumps the Corr into a file of chosen type</span>
+</span><span id="L-857"><a href="#L-857"><span class="linenos"> 857</span></a><span class="sd">        Parameters</span>
+</span><span id="L-858"><a href="#L-858"><span class="linenos"> 858</span></a><span class="sd">        ----------</span>
+</span><span id="L-859"><a href="#L-859"><span class="linenos"> 859</span></a><span class="sd">        filename : str</span>
+</span><span id="L-860"><a href="#L-860"><span class="linenos"> 860</span></a><span class="sd">            Name of the file to be saved.</span>
+</span><span id="L-861"><a href="#L-861"><span class="linenos"> 861</span></a><span class="sd">        datatype : str</span>
+</span><span id="L-862"><a href="#L-862"><span class="linenos"> 862</span></a><span class="sd">            Format of the exported file. Supported formats include</span>
+</span><span id="L-863"><a href="#L-863"><span class="linenos"> 863</span></a><span class="sd">            &quot;json.gz&quot; and &quot;pickle&quot;</span>
+</span><span id="L-864"><a href="#L-864"><span class="linenos"> 864</span></a><span class="sd">        path : str</span>
+</span><span id="L-865"><a href="#L-865"><span class="linenos"> 865</span></a><span class="sd">            specifies a custom path for the file (default &#39;.&#39;)</span>
+</span><span id="L-866"><a href="#L-866"><span class="linenos"> 866</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-867"><a href="#L-867"><span class="linenos"> 867</span></a>        <span class="k">if</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;json.gz&quot;</span><span class="p">:</span>
+</span><span id="L-868"><a href="#L-868"><span class="linenos"> 868</span></a>            <span class="kn">from</span> <span class="nn">.input.json</span> <span class="kn">import</span> <span class="n">dump_to_json</span>
+</span><span id="L-869"><a href="#L-869"><span class="linenos"> 869</span></a>            <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-870"><a href="#L-870"><span class="linenos"> 870</span></a>                <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">filename</span>
+</span><span id="L-871"><a href="#L-871"><span class="linenos"> 871</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-872"><a href="#L-872"><span class="linenos"> 872</span></a>                <span class="n">file_name</span> <span class="o">=</span> <span class="n">filename</span>
+</span><span id="L-873"><a href="#L-873"><span class="linenos"> 873</span></a>            <span class="n">dump_to_json</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">file_name</span><span class="p">)</span>
+</span><span id="L-874"><a href="#L-874"><span class="linenos"> 874</span></a>        <span class="k">elif</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;pickle&quot;</span><span class="p">:</span>
+</span><span id="L-875"><a href="#L-875"><span class="linenos"> 875</span></a>            <span class="n">dump_object</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-876"><a href="#L-876"><span class="linenos"> 876</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-877"><a href="#L-877"><span class="linenos"> 877</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown datatype &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">datatype</span><span class="p">))</span>
+</span><span id="L-878"><a href="#L-878"><span class="linenos"> 878</span></a>
+</span><span id="L-879"><a href="#L-879"><span class="linenos"> 879</span></a>    <span class="k">def</span> <span class="nf">print</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="nb">range</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="kc">None</span><span class="p">]):</span>
+</span><span id="L-880"><a href="#L-880"><span class="linenos"> 880</span></a>        <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="fm">__repr__</span><span class="p">(</span><span class="nb">range</span><span class="p">))</span>
+</span><span id="L-881"><a href="#L-881"><span class="linenos"> 881</span></a>
+</span><span id="L-882"><a href="#L-882"><span class="linenos"> 882</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="nb">range</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="kc">None</span><span class="p">]):</span>
+</span><span id="L-883"><a href="#L-883"><span class="linenos"> 883</span></a>        <span class="n">content_string</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
+</span><span id="L-884"><a href="#L-884"><span class="linenos"> 884</span></a>
+</span><span id="L-885"><a href="#L-885"><span class="linenos"> 885</span></a>        <span class="n">content_string</span> <span class="o">+=</span> <span class="s2">&quot;Corr T=&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot; N=&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\n</span><span class="s2">&quot;</span>  <span class="c1"># +&quot; filled with&quot;+ str(type(self.content[0][0])) there should be a good solution here</span>
+</span><span id="L-886"><a href="#L-886"><span class="linenos"> 886</span></a>
+</span><span id="L-887"><a href="#L-887"><span class="linenos"> 887</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-888"><a href="#L-888"><span class="linenos"> 888</span></a>            <span class="n">content_string</span> <span class="o">+=</span> <span class="s2">&quot;Description: &quot;</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\n</span><span class="s2">&quot;</span>
+</span><span id="L-889"><a href="#L-889"><span class="linenos"> 889</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-890"><a href="#L-890"><span class="linenos"> 890</span></a>            <span class="k">return</span> <span class="n">content_string</span>
+</span><span id="L-891"><a href="#L-891"><span class="linenos"> 891</span></a>
+</span><span id="L-892"><a href="#L-892"><span class="linenos"> 892</span></a>        <span class="k">if</span> <span class="nb">range</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
+</span><span id="L-893"><a href="#L-893"><span class="linenos"> 893</span></a>            <span class="nb">range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-894"><a href="#L-894"><span class="linenos"> 894</span></a>        <span class="n">content_string</span> <span class="o">+=</span> <span class="s1">&#39;x0/a</span><span class="se">\t</span><span class="s1">Corr(x0/a)</span><span class="se">\n</span><span class="s1">------------------</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-895"><a href="#L-895"><span class="linenos"> 895</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">sub_corr</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="nb">range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span><span class="nb">range</span><span class="p">[</span><span class="mi">1</span><span class="p">]]):</span>
+</span><span id="L-896"><a href="#L-896"><span class="linenos"> 896</span></a>            <span class="k">if</span> <span class="n">sub_corr</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-897"><a href="#L-897"><span class="linenos"> 897</span></a>                <span class="n">content_string</span> <span class="o">+=</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="nb">range</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-898"><a href="#L-898"><span class="linenos"> 898</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-899"><a href="#L-899"><span class="linenos"> 899</span></a>                <span class="n">content_string</span> <span class="o">+=</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="nb">range</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-900"><a href="#L-900"><span class="linenos"> 900</span></a>                <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">sub_corr</span><span class="p">:</span>
+</span><span id="L-901"><a href="#L-901"><span class="linenos"> 901</span></a>                    <span class="n">content_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">*</span> <span class="nb">int</span><span class="p">(</span><span class="n">element</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="L-902"><a href="#L-902"><span class="linenos"> 902</span></a>                <span class="n">content_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-903"><a href="#L-903"><span class="linenos"> 903</span></a>        <span class="k">return</span> <span class="n">content_string</span>
+</span><span id="L-904"><a href="#L-904"><span class="linenos"> 904</span></a>
+</span><span id="L-905"><a href="#L-905"><span class="linenos"> 905</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-906"><a href="#L-906"><span class="linenos"> 906</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="fm">__repr__</span><span class="p">()</span>
+</span><span id="L-907"><a href="#L-907"><span class="linenos"> 907</span></a>
+</span><span id="L-908"><a href="#L-908"><span class="linenos"> 908</span></a>    <span class="c1"># We define the basic operations, that can be performed with correlators.</span>
+</span><span id="L-909"><a href="#L-909"><span class="linenos"> 909</span></a>    <span class="c1"># While */+- get defined here, they only work for Corr*Obs and not Obs*Corr.</span>
+</span><span id="L-910"><a href="#L-910"><span class="linenos"> 910</span></a>    <span class="c1"># This is because Obs*Corr checks Obs.__mul__ first and does not catch an exception.</span>
+</span><span id="L-911"><a href="#L-911"><span class="linenos"> 911</span></a>    <span class="c1"># One could try and tell Obs to check if the y in __mul__ is a Corr and</span>
+</span><span id="L-912"><a href="#L-912"><span class="linenos"> 912</span></a>
+</span><span id="L-913"><a href="#L-913"><span class="linenos"> 913</span></a>    <span class="k">def</span> <span class="fm">__add__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-914"><a href="#L-914"><span class="linenos"> 914</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="L-915"><a href="#L-915"><span class="linenos"> 915</span></a>            <span class="k">if</span> <span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">!=</span> <span class="n">y</span><span class="o">.</span><span class="n">T</span><span class="p">)):</span>
+</span><span id="L-916"><a href="#L-916"><span class="linenos"> 916</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Addition of Corrs with different shape&quot;</span><span class="p">)</span>
+</span><span id="L-917"><a href="#L-917"><span class="linenos"> 917</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-918"><a href="#L-918"><span class="linenos"> 918</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-919"><a href="#L-919"><span class="linenos"> 919</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-920"><a href="#L-920"><span class="linenos"> 920</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-921"><a href="#L-921"><span class="linenos"> 921</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-922"><a href="#L-922"><span class="linenos"> 922</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="L-923"><a href="#L-923"><span class="linenos"> 923</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+</span><span id="L-924"><a href="#L-924"><span class="linenos"> 924</span></a>
+</span><span id="L-925"><a href="#L-925"><span class="linenos"> 925</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
+</span><span id="L-926"><a href="#L-926"><span class="linenos"> 926</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-927"><a href="#L-927"><span class="linenos"> 927</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-928"><a href="#L-928"><span class="linenos"> 928</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-929"><a href="#L-929"><span class="linenos"> 929</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-930"><a href="#L-930"><span class="linenos"> 930</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-931"><a href="#L-931"><span class="linenos"> 931</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="n">y</span><span class="p">)</span>
+</span><span id="L-932"><a href="#L-932"><span class="linenos"> 932</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="L-933"><a href="#L-933"><span class="linenos"> 933</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-934"><a href="#L-934"><span class="linenos"> 934</span></a>            <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">,):</span>
+</span><span id="L-935"><a href="#L-935"><span class="linenos"> 935</span></a>                <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span><span class="o">.</span><span class="n">T</span> <span class="o">+</span> <span class="n">y</span><span class="p">)</span><span class="o">.</span><span class="n">T</span><span class="p">))</span>
+</span><span id="L-936"><a href="#L-936"><span class="linenos"> 936</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-937"><a href="#L-937"><span class="linenos"> 937</span></a>                <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;operands could not be broadcast together&quot;</span><span class="p">)</span>
+</span><span id="L-938"><a href="#L-938"><span class="linenos"> 938</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-939"><a href="#L-939"><span class="linenos"> 939</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s2">&quot;Corr + wrong type&quot;</span><span class="p">)</span>
+</span><span id="L-940"><a href="#L-940"><span class="linenos"> 940</span></a>
+</span><span id="L-941"><a href="#L-941"><span class="linenos"> 941</span></a>    <span class="k">def</span> <span class="fm">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-942"><a href="#L-942"><span class="linenos"> 942</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="L-943"><a href="#L-943"><span class="linenos"> 943</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-944"><a href="#L-944"><span class="linenos"> 944</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multiplication of Corr object requires N=N or N=1 and T=T&quot;</span><span class="p">)</span>
+</span><span id="L-945"><a href="#L-945"><span class="linenos"> 945</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-946"><a href="#L-946"><span class="linenos"> 946</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-947"><a href="#L-947"><span class="linenos"> 947</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-948"><a href="#L-948"><span class="linenos"> 948</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-949"><a href="#L-949"><span class="linenos"> 949</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-950"><a href="#L-950"><span class="linenos"> 950</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">*</span> <span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="L-951"><a href="#L-951"><span class="linenos"> 951</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+</span><span id="L-952"><a href="#L-952"><span class="linenos"> 952</span></a>
+</span><span id="L-953"><a href="#L-953"><span class="linenos"> 953</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
+</span><span id="L-954"><a href="#L-954"><span class="linenos"> 954</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-955"><a href="#L-955"><span class="linenos"> 955</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-956"><a href="#L-956"><span class="linenos"> 956</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-957"><a href="#L-957"><span class="linenos"> 957</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-958"><a href="#L-958"><span class="linenos"> 958</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-959"><a href="#L-959"><span class="linenos"> 959</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">*</span> <span class="n">y</span><span class="p">)</span>
+</span><span id="L-960"><a href="#L-960"><span class="linenos"> 960</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="L-961"><a href="#L-961"><span class="linenos"> 961</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-962"><a href="#L-962"><span class="linenos"> 962</span></a>            <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">,):</span>
+</span><span id="L-963"><a href="#L-963"><span class="linenos"> 963</span></a>                <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span><span class="o">.</span><span class="n">T</span> <span class="o">*</span> <span class="n">y</span><span class="p">)</span><span class="o">.</span><span class="n">T</span><span class="p">))</span>
+</span><span id="L-964"><a href="#L-964"><span class="linenos"> 964</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-965"><a href="#L-965"><span class="linenos"> 965</span></a>                <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;operands could not be broadcast together&quot;</span><span class="p">)</span>
+</span><span id="L-966"><a href="#L-966"><span class="linenos"> 966</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-967"><a href="#L-967"><span class="linenos"> 967</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s2">&quot;Corr * wrong type&quot;</span><span class="p">)</span>
+</span><span id="L-968"><a href="#L-968"><span class="linenos"> 968</span></a>
+</span><span id="L-969"><a href="#L-969"><span class="linenos"> 969</span></a>    <span class="k">def</span> <span class="fm">__truediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-970"><a href="#L-970"><span class="linenos"> 970</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="L-971"><a href="#L-971"><span class="linenos"> 971</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-972"><a href="#L-972"><span class="linenos"> 972</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multiplication of Corr object requires N=N or N=1 and T=T&quot;</span><span class="p">)</span>
+</span><span id="L-973"><a href="#L-973"><span class="linenos"> 973</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-974"><a href="#L-974"><span class="linenos"> 974</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-975"><a href="#L-975"><span class="linenos"> 975</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-976"><a href="#L-976"><span class="linenos"> 976</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-977"><a href="#L-977"><span class="linenos"> 977</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-978"><a href="#L-978"><span class="linenos"> 978</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="L-979"><a href="#L-979"><span class="linenos"> 979</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-980"><a href="#L-980"><span class="linenos"> 980</span></a>                <span class="k">if</span> <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-981"><a href="#L-981"><span class="linenos"> 981</span></a>                    <span class="k">continue</span>
+</span><span id="L-982"><a href="#L-982"><span class="linenos"> 982</span></a>                <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">])</span><span class="o">.</span><span class="n">value</span><span class="p">):</span>
+</span><span id="L-983"><a href="#L-983"><span class="linenos"> 983</span></a>                    <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-984"><a href="#L-984"><span class="linenos"> 984</span></a>
+</span><span id="L-985"><a href="#L-985"><span class="linenos"> 985</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">]):</span>
+</span><span id="L-986"><a href="#L-986"><span class="linenos"> 986</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Division returns completely undefined correlator&quot;</span><span class="p">)</span>
+</span><span id="L-987"><a href="#L-987"><span class="linenos"> 987</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+</span><span id="L-988"><a href="#L-988"><span class="linenos"> 988</span></a>
+</span><span id="L-989"><a href="#L-989"><span class="linenos"> 989</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
+</span><span id="L-990"><a href="#L-990"><span class="linenos"> 990</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-991"><a href="#L-991"><span class="linenos"> 991</span></a>                <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-992"><a href="#L-992"><span class="linenos"> 992</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Division by zero will return undefined correlator&#39;</span><span class="p">)</span>
+</span><span id="L-993"><a href="#L-993"><span class="linenos"> 993</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">CObs</span><span class="p">):</span>
+</span><span id="L-994"><a href="#L-994"><span class="linenos"> 994</span></a>                <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">is_zero</span><span class="p">():</span>
+</span><span id="L-995"><a href="#L-995"><span class="linenos"> 995</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Division by zero will return undefined correlator&#39;</span><span class="p">)</span>
+</span><span id="L-996"><a href="#L-996"><span class="linenos"> 996</span></a>
+</span><span id="L-997"><a href="#L-997"><span class="linenos"> 997</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-998"><a href="#L-998"><span class="linenos"> 998</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-999"><a href="#L-999"><span class="linenos"> 999</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-1000"><a href="#L-1000"><span class="linenos">1000</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-1001"><a href="#L-1001"><span class="linenos">1001</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1002"><a href="#L-1002"><span class="linenos">1002</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span>
+</span><span id="L-1003"><a href="#L-1003"><span class="linenos">1003</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="L-1004"><a href="#L-1004"><span class="linenos">1004</span></a>
+</span><span id="L-1005"><a href="#L-1005"><span class="linenos">1005</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
+</span><span id="L-1006"><a href="#L-1006"><span class="linenos">1006</span></a>            <span class="k">if</span> <span class="n">y</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-1007"><a href="#L-1007"><span class="linenos">1007</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Division by zero will return undefined correlator&#39;</span><span class="p">)</span>
+</span><span id="L-1008"><a href="#L-1008"><span class="linenos">1008</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1009"><a href="#L-1009"><span class="linenos">1009</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-1010"><a href="#L-1010"><span class="linenos">1010</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="L-1011"><a href="#L-1011"><span class="linenos">1011</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-1012"><a href="#L-1012"><span class="linenos">1012</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1013"><a href="#L-1013"><span class="linenos">1013</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span>
+</span><span id="L-1014"><a href="#L-1014"><span class="linenos">1014</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="L-1015"><a href="#L-1015"><span class="linenos">1015</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-1016"><a href="#L-1016"><span class="linenos">1016</span></a>            <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">,):</span>
+</span><span id="L-1017"><a href="#L-1017"><span class="linenos">1017</span></a>                <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span><span class="o">.</span><span class="n">T</span><span class="p">))</span>
+</span><span id="L-1018"><a href="#L-1018"><span class="linenos">1018</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1019"><a href="#L-1019"><span class="linenos">1019</span></a>                <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;operands could not be broadcast together&quot;</span><span class="p">)</span>
+</span><span id="L-1020"><a href="#L-1020"><span class="linenos">1020</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1021"><a href="#L-1021"><span class="linenos">1021</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;Corr / wrong type&#39;</span><span class="p">)</span>
+</span><span id="L-1022"><a href="#L-1022"><span class="linenos">1022</span></a>
+</span><span id="L-1023"><a href="#L-1023"><span class="linenos">1023</span></a>    <span class="k">def</span> <span class="fm">__neg__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1024"><a href="#L-1024"><span class="linenos">1024</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="o">-</span><span class="mf">1.</span> <span class="o">*</span> <span class="n">item</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="L-1025"><a href="#L-1025"><span class="linenos">1025</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="L-1026"><a href="#L-1026"><span class="linenos">1026</span></a>
+</span><span id="L-1027"><a href="#L-1027"><span class="linenos">1027</span></a>    <span class="k">def</span> <span class="fm">__sub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-1028"><a href="#L-1028"><span class="linenos">1028</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="p">(</span><span class="o">-</span><span class="n">y</span><span class="p">)</span>
+</span><span id="L-1029"><a href="#L-1029"><span class="linenos">1029</span></a>
+</span><span id="L-1030"><a href="#L-1030"><span class="linenos">1030</span></a>    <span class="k">def</span> <span class="fm">__pow__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-1031"><a href="#L-1031"><span class="linenos">1031</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
+</span><span id="L-1032"><a href="#L-1032"><span class="linenos">1032</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">item</span><span class="o">**</span><span class="n">y</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="L-1033"><a href="#L-1033"><span class="linenos">1033</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="L-1034"><a href="#L-1034"><span class="linenos">1034</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1035"><a href="#L-1035"><span class="linenos">1035</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;Type of exponent not supported&#39;</span><span class="p">)</span>
+</span><span id="L-1036"><a href="#L-1036"><span class="linenos">1036</span></a>
+</span><span id="L-1037"><a href="#L-1037"><span class="linenos">1037</span></a>    <span class="k">def</span> <span class="fm">__abs__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1038"><a href="#L-1038"><span class="linenos">1038</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="L-1039"><a href="#L-1039"><span class="linenos">1039</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="L-1040"><a href="#L-1040"><span class="linenos">1040</span></a>
+</span><span id="L-1041"><a href="#L-1041"><span class="linenos">1041</span></a>    <span class="c1"># The numpy functions:</span>
+</span><span id="L-1042"><a href="#L-1042"><span class="linenos">1042</span></a>    <span class="k">def</span> <span class="nf">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1043"><a href="#L-1043"><span class="linenos">1043</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">**</span><span class="mf">0.5</span>
+</span><span id="L-1044"><a href="#L-1044"><span class="linenos">1044</span></a>
+</span><span id="L-1045"><a href="#L-1045"><span class="linenos">1045</span></a>    <span class="k">def</span> <span class="nf">log</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1046"><a href="#L-1046"><span class="linenos">1046</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="L-1047"><a href="#L-1047"><span class="linenos">1047</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="L-1048"><a href="#L-1048"><span class="linenos">1048</span></a>
+</span><span id="L-1049"><a href="#L-1049"><span class="linenos">1049</span></a>    <span class="k">def</span> <span class="nf">exp</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1050"><a href="#L-1050"><span class="linenos">1050</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="L-1051"><a href="#L-1051"><span class="linenos">1051</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="L-1052"><a href="#L-1052"><span class="linenos">1052</span></a>
+</span><span id="L-1053"><a href="#L-1053"><span class="linenos">1053</span></a>    <span class="k">def</span> <span class="nf">_apply_func_to_corr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">func</span><span class="p">):</span>
+</span><span id="L-1054"><a href="#L-1054"><span class="linenos">1054</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">func</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="L-1055"><a href="#L-1055"><span class="linenos">1055</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-1056"><a href="#L-1056"><span class="linenos">1056</span></a>            <span class="k">if</span> <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-1057"><a href="#L-1057"><span class="linenos">1057</span></a>                <span class="k">continue</span>
+</span><span id="L-1058"><a href="#L-1058"><span class="linenos">1058</span></a>            <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">])</span><span class="o">.</span><span class="n">value</span><span class="p">):</span>
+</span><span id="L-1059"><a href="#L-1059"><span class="linenos">1059</span></a>                <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-1060"><a href="#L-1060"><span class="linenos">1060</span></a>        <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">]):</span>
+</span><span id="L-1061"><a href="#L-1061"><span class="linenos">1061</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Operation returns undefined correlator&#39;</span><span class="p">)</span>
+</span><span id="L-1062"><a href="#L-1062"><span class="linenos">1062</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+</span><span id="L-1063"><a href="#L-1063"><span class="linenos">1063</span></a>
+</span><span id="L-1064"><a href="#L-1064"><span class="linenos">1064</span></a>    <span class="k">def</span> <span class="nf">sin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1065"><a href="#L-1065"><span class="linenos">1065</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">)</span>
+</span><span id="L-1066"><a href="#L-1066"><span class="linenos">1066</span></a>
+</span><span id="L-1067"><a href="#L-1067"><span class="linenos">1067</span></a>    <span class="k">def</span> <span class="nf">cos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1068"><a href="#L-1068"><span class="linenos">1068</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">)</span>
+</span><span id="L-1069"><a href="#L-1069"><span class="linenos">1069</span></a>
+</span><span id="L-1070"><a href="#L-1070"><span class="linenos">1070</span></a>    <span class="k">def</span> <span class="nf">tan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1071"><a href="#L-1071"><span class="linenos">1071</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">tan</span><span class="p">)</span>
+</span><span id="L-1072"><a href="#L-1072"><span class="linenos">1072</span></a>
+</span><span id="L-1073"><a href="#L-1073"><span class="linenos">1073</span></a>    <span class="k">def</span> <span class="nf">sinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1074"><a href="#L-1074"><span class="linenos">1074</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">)</span>
+</span><span id="L-1075"><a href="#L-1075"><span class="linenos">1075</span></a>
+</span><span id="L-1076"><a href="#L-1076"><span class="linenos">1076</span></a>    <span class="k">def</span> <span class="nf">cosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1077"><a href="#L-1077"><span class="linenos">1077</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">)</span>
+</span><span id="L-1078"><a href="#L-1078"><span class="linenos">1078</span></a>
+</span><span id="L-1079"><a href="#L-1079"><span class="linenos">1079</span></a>    <span class="k">def</span> <span class="nf">tanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1080"><a href="#L-1080"><span class="linenos">1080</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">tanh</span><span class="p">)</span>
+</span><span id="L-1081"><a href="#L-1081"><span class="linenos">1081</span></a>
+</span><span id="L-1082"><a href="#L-1082"><span class="linenos">1082</span></a>    <span class="k">def</span> <span class="nf">arcsin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1083"><a href="#L-1083"><span class="linenos">1083</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arcsin</span><span class="p">)</span>
+</span><span id="L-1084"><a href="#L-1084"><span class="linenos">1084</span></a>
+</span><span id="L-1085"><a href="#L-1085"><span class="linenos">1085</span></a>    <span class="k">def</span> <span class="nf">arccos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1086"><a href="#L-1086"><span class="linenos">1086</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arccos</span><span class="p">)</span>
+</span><span id="L-1087"><a href="#L-1087"><span class="linenos">1087</span></a>
+</span><span id="L-1088"><a href="#L-1088"><span class="linenos">1088</span></a>    <span class="k">def</span> <span class="nf">arctan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1089"><a href="#L-1089"><span class="linenos">1089</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arctan</span><span class="p">)</span>
+</span><span id="L-1090"><a href="#L-1090"><span class="linenos">1090</span></a>
+</span><span id="L-1091"><a href="#L-1091"><span class="linenos">1091</span></a>    <span class="k">def</span> <span class="nf">arcsinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1092"><a href="#L-1092"><span class="linenos">1092</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arcsinh</span><span class="p">)</span>
+</span><span id="L-1093"><a href="#L-1093"><span class="linenos">1093</span></a>
+</span><span id="L-1094"><a href="#L-1094"><span class="linenos">1094</span></a>    <span class="k">def</span> <span class="nf">arccosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1095"><a href="#L-1095"><span class="linenos">1095</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arccosh</span><span class="p">)</span>
+</span><span id="L-1096"><a href="#L-1096"><span class="linenos">1096</span></a>
+</span><span id="L-1097"><a href="#L-1097"><span class="linenos">1097</span></a>    <span class="k">def</span> <span class="nf">arctanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1098"><a href="#L-1098"><span class="linenos">1098</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arctanh</span><span class="p">)</span>
+</span><span id="L-1099"><a href="#L-1099"><span class="linenos">1099</span></a>
+</span><span id="L-1100"><a href="#L-1100"><span class="linenos">1100</span></a>    <span class="c1"># Right hand side operations (require tweak in main module to work)</span>
+</span><span id="L-1101"><a href="#L-1101"><span class="linenos">1101</span></a>    <span class="k">def</span> <span class="fm">__radd__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-1102"><a href="#L-1102"><span class="linenos">1102</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
+</span><span id="L-1103"><a href="#L-1103"><span class="linenos">1103</span></a>
+</span><span id="L-1104"><a href="#L-1104"><span class="linenos">1104</span></a>    <span class="k">def</span> <span class="fm">__rsub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-1105"><a href="#L-1105"><span class="linenos">1105</span></a>        <span class="k">return</span> <span class="o">-</span><span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
+</span><span id="L-1106"><a href="#L-1106"><span class="linenos">1106</span></a>
+</span><span id="L-1107"><a href="#L-1107"><span class="linenos">1107</span></a>    <span class="k">def</span> <span class="fm">__rmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-1108"><a href="#L-1108"><span class="linenos">1108</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">y</span>
+</span><span id="L-1109"><a href="#L-1109"><span class="linenos">1109</span></a>
+</span><span id="L-1110"><a href="#L-1110"><span class="linenos">1110</span></a>    <span class="k">def</span> <span class="fm">__rtruediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-1111"><a href="#L-1111"><span class="linenos">1111</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span> <span class="o">**</span> <span class="p">(</span><span class="o">-</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="L-1112"><a href="#L-1112"><span class="linenos">1112</span></a>
+</span><span id="L-1113"><a href="#L-1113"><span class="linenos">1113</span></a>    <span class="nd">@property</span>
+</span><span id="L-1114"><a href="#L-1114"><span class="linenos">1114</span></a>    <span class="k">def</span> <span class="nf">real</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1115"><a href="#L-1115"><span class="linenos">1115</span></a>        <span class="k">def</span> <span class="nf">return_real</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">):</span>
+</span><span id="L-1116"><a href="#L-1116"><span class="linenos">1116</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">):</span>
+</span><span id="L-1117"><a href="#L-1117"><span class="linenos">1117</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span><span class="o">.</span><span class="n">real</span>
+</span><span id="L-1118"><a href="#L-1118"><span class="linenos">1118</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1119"><a href="#L-1119"><span class="linenos">1119</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span>
+</span><span id="L-1120"><a href="#L-1120"><span class="linenos">1120</span></a>
+</span><span id="L-1121"><a href="#L-1121"><span class="linenos">1121</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">return_real</span><span class="p">)</span>
+</span><span id="L-1122"><a href="#L-1122"><span class="linenos">1122</span></a>
+</span><span id="L-1123"><a href="#L-1123"><span class="linenos">1123</span></a>    <span class="nd">@property</span>
+</span><span id="L-1124"><a href="#L-1124"><span class="linenos">1124</span></a>    <span class="k">def</span> <span class="nf">imag</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-1125"><a href="#L-1125"><span class="linenos">1125</span></a>        <span class="k">def</span> <span class="nf">return_imag</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">):</span>
+</span><span id="L-1126"><a href="#L-1126"><span class="linenos">1126</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">):</span>
+</span><span id="L-1127"><a href="#L-1127"><span class="linenos">1127</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span><span class="o">.</span><span class="n">imag</span>
+</span><span id="L-1128"><a href="#L-1128"><span class="linenos">1128</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1129"><a href="#L-1129"><span class="linenos">1129</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span> <span class="o">*</span> <span class="mi">0</span>  <span class="c1"># So it stays the right type</span>
+</span><span id="L-1130"><a href="#L-1130"><span class="linenos">1130</span></a>
+</span><span id="L-1131"><a href="#L-1131"><span class="linenos">1131</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">return_imag</span><span class="p">)</span>
+</span><span id="L-1132"><a href="#L-1132"><span class="linenos">1132</span></a>
+</span><span id="L-1133"><a href="#L-1133"><span class="linenos">1133</span></a>    <span class="k">def</span> <span class="nf">prune</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">Ntrunc</span><span class="p">,</span> <span class="n">tproj</span><span class="o">=</span><span class="mi">3</span><span class="p">,</span> <span class="n">t0proj</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">basematrix</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-1134"><a href="#L-1134"><span class="linenos">1134</span></a>        <span class="sa">r</span><span class="sd">&#39;&#39;&#39; Project large correlation matrix to lowest states</span>
+</span><span id="L-1135"><a href="#L-1135"><span class="linenos">1135</span></a>
+</span><span id="L-1136"><a href="#L-1136"><span class="linenos">1136</span></a><span class="sd">        This method can be used to reduce the size of an (N x N) correlation matrix</span>
+</span><span id="L-1137"><a href="#L-1137"><span class="linenos">1137</span></a><span class="sd">        to (Ntrunc x Ntrunc) by solving a GEVP at very early times where the noise</span>
+</span><span id="L-1138"><a href="#L-1138"><span class="linenos">1138</span></a><span class="sd">        is still small.</span>
+</span><span id="L-1139"><a href="#L-1139"><span class="linenos">1139</span></a>
+</span><span id="L-1140"><a href="#L-1140"><span class="linenos">1140</span></a><span class="sd">        Parameters</span>
+</span><span id="L-1141"><a href="#L-1141"><span class="linenos">1141</span></a><span class="sd">        ----------</span>
+</span><span id="L-1142"><a href="#L-1142"><span class="linenos">1142</span></a><span class="sd">        Ntrunc: int</span>
+</span><span id="L-1143"><a href="#L-1143"><span class="linenos">1143</span></a><span class="sd">            Rank of the target matrix.</span>
+</span><span id="L-1144"><a href="#L-1144"><span class="linenos">1144</span></a><span class="sd">        tproj: int</span>
+</span><span id="L-1145"><a href="#L-1145"><span class="linenos">1145</span></a><span class="sd">            Time where the eigenvectors are evaluated, corresponds to ts in the GEVP method.</span>
+</span><span id="L-1146"><a href="#L-1146"><span class="linenos">1146</span></a><span class="sd">            The default value is 3.</span>
+</span><span id="L-1147"><a href="#L-1147"><span class="linenos">1147</span></a><span class="sd">        t0proj: int</span>
+</span><span id="L-1148"><a href="#L-1148"><span class="linenos">1148</span></a><span class="sd">            Time where the correlation matrix is inverted. Choosing t0proj=1 is strongly</span>
+</span><span id="L-1149"><a href="#L-1149"><span class="linenos">1149</span></a><span class="sd">            discouraged for O(a) improved theories, since the correctness of the procedure</span>
+</span><span id="L-1150"><a href="#L-1150"><span class="linenos">1150</span></a><span class="sd">            cannot be granted in this case. The default value is 2.</span>
+</span><span id="L-1151"><a href="#L-1151"><span class="linenos">1151</span></a><span class="sd">        basematrix : Corr</span>
+</span><span id="L-1152"><a href="#L-1152"><span class="linenos">1152</span></a><span class="sd">            Correlation matrix that is used to determine the eigenvectors of the</span>
+</span><span id="L-1153"><a href="#L-1153"><span class="linenos">1153</span></a><span class="sd">            lowest states based on a GEVP. basematrix is taken to be the Corr itself if</span>
+</span><span id="L-1154"><a href="#L-1154"><span class="linenos">1154</span></a><span class="sd">            is is not specified.</span>
+</span><span id="L-1155"><a href="#L-1155"><span class="linenos">1155</span></a>
+</span><span id="L-1156"><a href="#L-1156"><span class="linenos">1156</span></a><span class="sd">        Notes</span>
+</span><span id="L-1157"><a href="#L-1157"><span class="linenos">1157</span></a><span class="sd">        -----</span>
+</span><span id="L-1158"><a href="#L-1158"><span class="linenos">1158</span></a><span class="sd">        We have the basematrix $C(t)$ and the target matrix $G(t)$. We start by solving</span>
+</span><span id="L-1159"><a href="#L-1159"><span class="linenos">1159</span></a><span class="sd">        the GEVP $$C(t) v_n(t, t_0) = \lambda_n(t, t_0) C(t_0) v_n(t, t_0)$$ where $t \equiv t_\mathrm{proj}$</span>
+</span><span id="L-1160"><a href="#L-1160"><span class="linenos">1160</span></a><span class="sd">        and $t_0 \equiv t_{0, \mathrm{proj}}$. The target matrix is projected onto the subspace of the</span>
+</span><span id="L-1161"><a href="#L-1161"><span class="linenos">1161</span></a><span class="sd">        resulting eigenvectors $v_n, n=1,\dots,N_\mathrm{trunc}$ via</span>
+</span><span id="L-1162"><a href="#L-1162"><span class="linenos">1162</span></a><span class="sd">        $$G^\prime_{i, j}(t) = (v_i, G(t) v_j)$$. This allows to reduce the size of a large</span>
+</span><span id="L-1163"><a href="#L-1163"><span class="linenos">1163</span></a><span class="sd">        correlation matrix and to remove some noise that is added by irrelevant operators.</span>
+</span><span id="L-1164"><a href="#L-1164"><span class="linenos">1164</span></a><span class="sd">        This may allow to use the GEVP on $G(t)$ at late times such that the theoretically motivated</span>
+</span><span id="L-1165"><a href="#L-1165"><span class="linenos">1165</span></a><span class="sd">        bound $t_0 \leq t/2$ holds, since the condition number of $G(t)$ is decreased, compared to $C(t)$.</span>
+</span><span id="L-1166"><a href="#L-1166"><span class="linenos">1166</span></a><span class="sd">        &#39;&#39;&#39;</span>
+</span><span id="L-1167"><a href="#L-1167"><span class="linenos">1167</span></a>
+</span><span id="L-1168"><a href="#L-1168"><span class="linenos">1168</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-1169"><a href="#L-1169"><span class="linenos">1169</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Method cannot be applied to one-dimensional correlators.&#39;</span><span class="p">)</span>
+</span><span id="L-1170"><a href="#L-1170"><span class="linenos">1170</span></a>        <span class="k">if</span> <span class="n">basematrix</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-1171"><a href="#L-1171"><span class="linenos">1171</span></a>            <span class="n">basematrix</span> <span class="o">=</span> <span class="bp">self</span>
+</span><span id="L-1172"><a href="#L-1172"><span class="linenos">1172</span></a>        <span class="k">if</span> <span class="n">Ntrunc</span> <span class="o">&gt;=</span> <span class="n">basematrix</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
+</span><span id="L-1173"><a href="#L-1173"><span class="linenos">1173</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Cannot truncate using Ntrunc &lt;= </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
+</span><span id="L-1174"><a href="#L-1174"><span class="linenos">1174</span></a>        <span class="k">if</span> <span class="n">basematrix</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
+</span><span id="L-1175"><a href="#L-1175"><span class="linenos">1175</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;basematrix and targetmatrix have to be of the same size.&#39;</span><span class="p">)</span>
+</span><span id="L-1176"><a href="#L-1176"><span class="linenos">1176</span></a>
+</span><span id="L-1177"><a href="#L-1177"><span class="linenos">1177</span></a>        <span class="n">evecs</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1178"><a href="#L-1178"><span class="linenos">1178</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
+</span><span id="L-1179"><a href="#L-1179"><span class="linenos">1179</span></a>            <span class="n">evecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">GEVP</span><span class="p">(</span><span class="n">t0proj</span><span class="p">,</span> <span class="n">tproj</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="n">i</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span><span class="p">))</span>
+</span><span id="L-1180"><a href="#L-1180"><span class="linenos">1180</span></a>
+</span><span id="L-1181"><a href="#L-1181"><span class="linenos">1181</span></a>        <span class="n">tmpmat</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">Ntrunc</span><span class="p">,</span> <span class="n">Ntrunc</span><span class="p">),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="L-1182"><a href="#L-1182"><span class="linenos">1182</span></a>        <span class="n">rmat</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1183"><a href="#L-1183"><span class="linenos">1183</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-1184"><a href="#L-1184"><span class="linenos">1184</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
+</span><span id="L-1185"><a href="#L-1185"><span class="linenos">1185</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
+</span><span id="L-1186"><a href="#L-1186"><span class="linenos">1186</span></a>                    <span class="n">tmpmat</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">evecs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="bp">self</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">evecs</span><span class="p">[</span><span class="n">j</span><span class="p">]</span>
+</span><span id="L-1187"><a href="#L-1187"><span class="linenos">1187</span></a>            <span class="n">rmat</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">copy</span><span class="p">(</span><span class="n">tmpmat</span><span class="p">))</span>
+</span><span id="L-1188"><a href="#L-1188"><span class="linenos">1188</span></a>
+</span><span id="L-1189"><a href="#L-1189"><span class="linenos">1189</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">rmat</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)]</span>
+</span><span id="L-1190"><a href="#L-1190"><span class="linenos">1190</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
 </span><span id="L-1191"><a href="#L-1191"><span class="linenos">1191</span></a>
-</span><span id="L-1192"><a href="#L-1192"><span class="linenos">1192</span></a><span class="k">def</span> <span class="nf">_sort_vectors</span><span class="p">(</span><span class="n">vec_set</span><span class="p">,</span> <span class="n">ts</span><span class="p">):</span>
-</span><span id="L-1193"><a href="#L-1193"><span class="linenos">1193</span></a>    <span class="sd">&quot;&quot;&quot;Helper function used to find a set of Eigenvectors consistent over all timeslices&quot;&quot;&quot;</span>
-</span><span id="L-1194"><a href="#L-1194"><span class="linenos">1194</span></a>    <span class="n">reference_sorting</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">vec_set</span><span class="p">[</span><span class="n">ts</span><span class="p">])</span>
-</span><span id="L-1195"><a href="#L-1195"><span class="linenos">1195</span></a>    <span class="n">N</span> <span class="o">=</span> <span class="n">reference_sorting</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-1196"><a href="#L-1196"><span class="linenos">1196</span></a>    <span class="n">sorted_vec_set</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1197"><a href="#L-1197"><span class="linenos">1197</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">vec_set</span><span class="p">)):</span>
-</span><span id="L-1198"><a href="#L-1198"><span class="linenos">1198</span></a>        <span class="k">if</span> <span class="n">vec_set</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-1199"><a href="#L-1199"><span class="linenos">1199</span></a>            <span class="n">sorted_vec_set</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-1200"><a href="#L-1200"><span class="linenos">1200</span></a>        <span class="k">elif</span> <span class="ow">not</span> <span class="n">t</span> <span class="o">==</span> <span class="n">ts</span><span class="p">:</span>
-</span><span id="L-1201"><a href="#L-1201"><span class="linenos">1201</span></a>            <span class="n">perms</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">permutations</span><span class="p">([</span><span class="n">i</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">)],</span> <span class="n">N</span><span class="p">)]</span>
-</span><span id="L-1202"><a href="#L-1202"><span class="linenos">1202</span></a>            <span class="n">best_score</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-1203"><a href="#L-1203"><span class="linenos">1203</span></a>            <span class="k">for</span> <span class="n">perm</span> <span class="ow">in</span> <span class="n">perms</span><span class="p">:</span>
-</span><span id="L-1204"><a href="#L-1204"><span class="linenos">1204</span></a>                <span class="n">current_score</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-1205"><a href="#L-1205"><span class="linenos">1205</span></a>                <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-1206"><a href="#L-1206"><span class="linenos">1206</span></a>                    <span class="n">new_sorting</span> <span class="o">=</span> <span class="n">reference_sorting</span><span class="o">.</span><span class="n">copy</span><span class="p">()</span>
-</span><span id="L-1207"><a href="#L-1207"><span class="linenos">1207</span></a>                    <span class="n">new_sorting</span><span class="p">[</span><span class="n">perm</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="p">:]</span> <span class="o">=</span> <span class="n">vec_set</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">k</span><span class="p">]</span>
-</span><span id="L-1208"><a href="#L-1208"><span class="linenos">1208</span></a>                    <span class="n">current_score</span> <span class="o">*=</span> <span class="nb">abs</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">det</span><span class="p">(</span><span class="n">new_sorting</span><span class="p">))</span>
-</span><span id="L-1209"><a href="#L-1209"><span class="linenos">1209</span></a>                <span class="k">if</span> <span class="n">current_score</span> <span class="o">&gt;</span> <span class="n">best_score</span><span class="p">:</span>
-</span><span id="L-1210"><a href="#L-1210"><span class="linenos">1210</span></a>                    <span class="n">best_score</span> <span class="o">=</span> <span class="n">current_score</span>
-</span><span id="L-1211"><a href="#L-1211"><span class="linenos">1211</span></a>                    <span class="n">best_perm</span> <span class="o">=</span> <span class="n">perm</span>
-</span><span id="L-1212"><a href="#L-1212"><span class="linenos">1212</span></a>            <span class="n">sorted_vec_set</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">vec_set</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">k</span><span class="p">]</span> <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="n">best_perm</span><span class="p">])</span>
-</span><span id="L-1213"><a href="#L-1213"><span class="linenos">1213</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1214"><a href="#L-1214"><span class="linenos">1214</span></a>            <span class="n">sorted_vec_set</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">vec_set</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="L-1215"><a href="#L-1215"><span class="linenos">1215</span></a>
-</span><span id="L-1216"><a href="#L-1216"><span class="linenos">1216</span></a>    <span class="k">return</span> <span class="n">sorted_vec_set</span>
-</span><span id="L-1217"><a href="#L-1217"><span class="linenos">1217</span></a>
+</span><span id="L-1192"><a href="#L-1192"><span class="linenos">1192</span></a>
+</span><span id="L-1193"><a href="#L-1193"><span class="linenos">1193</span></a><span class="k">def</span> <span class="nf">_sort_vectors</span><span class="p">(</span><span class="n">vec_set</span><span class="p">,</span> <span class="n">ts</span><span class="p">):</span>
+</span><span id="L-1194"><a href="#L-1194"><span class="linenos">1194</span></a>    <span class="sd">&quot;&quot;&quot;Helper function used to find a set of Eigenvectors consistent over all timeslices&quot;&quot;&quot;</span>
+</span><span id="L-1195"><a href="#L-1195"><span class="linenos">1195</span></a>    <span class="n">reference_sorting</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">vec_set</span><span class="p">[</span><span class="n">ts</span><span class="p">])</span>
+</span><span id="L-1196"><a href="#L-1196"><span class="linenos">1196</span></a>    <span class="n">N</span> <span class="o">=</span> <span class="n">reference_sorting</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-1197"><a href="#L-1197"><span class="linenos">1197</span></a>    <span class="n">sorted_vec_set</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1198"><a href="#L-1198"><span class="linenos">1198</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">vec_set</span><span class="p">)):</span>
+</span><span id="L-1199"><a href="#L-1199"><span class="linenos">1199</span></a>        <span class="k">if</span> <span class="n">vec_set</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-1200"><a href="#L-1200"><span class="linenos">1200</span></a>            <span class="n">sorted_vec_set</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-1201"><a href="#L-1201"><span class="linenos">1201</span></a>        <span class="k">elif</span> <span class="ow">not</span> <span class="n">t</span> <span class="o">==</span> <span class="n">ts</span><span class="p">:</span>
+</span><span id="L-1202"><a href="#L-1202"><span class="linenos">1202</span></a>            <span class="n">perms</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">permutations</span><span class="p">([</span><span class="n">i</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">)],</span> <span class="n">N</span><span class="p">)]</span>
+</span><span id="L-1203"><a href="#L-1203"><span class="linenos">1203</span></a>            <span class="n">best_score</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-1204"><a href="#L-1204"><span class="linenos">1204</span></a>            <span class="k">for</span> <span class="n">perm</span> <span class="ow">in</span> <span class="n">perms</span><span class="p">:</span>
+</span><span id="L-1205"><a href="#L-1205"><span class="linenos">1205</span></a>                <span class="n">current_score</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-1206"><a href="#L-1206"><span class="linenos">1206</span></a>                <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-1207"><a href="#L-1207"><span class="linenos">1207</span></a>                    <span class="n">new_sorting</span> <span class="o">=</span> <span class="n">reference_sorting</span><span class="o">.</span><span class="n">copy</span><span class="p">()</span>
+</span><span id="L-1208"><a href="#L-1208"><span class="linenos">1208</span></a>                    <span class="n">new_sorting</span><span class="p">[</span><span class="n">perm</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="p">:]</span> <span class="o">=</span> <span class="n">vec_set</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">k</span><span class="p">]</span>
+</span><span id="L-1209"><a href="#L-1209"><span class="linenos">1209</span></a>                    <span class="n">current_score</span> <span class="o">*=</span> <span class="nb">abs</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">det</span><span class="p">(</span><span class="n">new_sorting</span><span class="p">))</span>
+</span><span id="L-1210"><a href="#L-1210"><span class="linenos">1210</span></a>                <span class="k">if</span> <span class="n">current_score</span> <span class="o">&gt;</span> <span class="n">best_score</span><span class="p">:</span>
+</span><span id="L-1211"><a href="#L-1211"><span class="linenos">1211</span></a>                    <span class="n">best_score</span> <span class="o">=</span> <span class="n">current_score</span>
+</span><span id="L-1212"><a href="#L-1212"><span class="linenos">1212</span></a>                    <span class="n">best_perm</span> <span class="o">=</span> <span class="n">perm</span>
+</span><span id="L-1213"><a href="#L-1213"><span class="linenos">1213</span></a>            <span class="n">sorted_vec_set</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">vec_set</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">k</span><span class="p">]</span> <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="n">best_perm</span><span class="p">])</span>
+</span><span id="L-1214"><a href="#L-1214"><span class="linenos">1214</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1215"><a href="#L-1215"><span class="linenos">1215</span></a>            <span class="n">sorted_vec_set</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">vec_set</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="L-1216"><a href="#L-1216"><span class="linenos">1216</span></a>
+</span><span id="L-1217"><a href="#L-1217"><span class="linenos">1217</span></a>    <span class="k">return</span> <span class="n">sorted_vec_set</span>
 </span><span id="L-1218"><a href="#L-1218"><span class="linenos">1218</span></a>
-</span><span id="L-1219"><a href="#L-1219"><span class="linenos">1219</span></a><span class="k">def</span> <span class="nf">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">):</span>  <span class="c1"># Just so normalization an sorting does not need to be repeated. Here we could later put in some checks</span>
-</span><span id="L-1220"><a href="#L-1220"><span class="linenos">1220</span></a>    <span class="n">sp_val</span><span class="p">,</span> <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
-</span><span id="L-1221"><a href="#L-1221"><span class="linenos">1221</span></a>    <span class="n">sp_vecs</span> <span class="o">=</span> <span class="p">[</span><span class="n">sp_vecs</span><span class="p">[:,</span> <span class="n">np</span><span class="o">.</span><span class="n">argsort</span><span class="p">(</span><span class="n">sp_val</span><span class="p">)[</span><span class="o">-</span><span class="n">i</span><span class="p">]]</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">sp_vecs</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)]</span>
-</span><span id="L-1222"><a href="#L-1222"><span class="linenos">1222</span></a>    <span class="n">sp_vecs</span> <span class="o">=</span> <span class="p">[</span><span class="n">v</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">v</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">G0</span> <span class="o">@</span> <span class="n">v</span><span class="p">))</span> <span class="k">for</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">sp_vecs</span><span class="p">]</span>
-</span><span id="L-1223"><a href="#L-1223"><span class="linenos">1223</span></a>    <span class="k">return</span> <span class="n">sp_vecs</span>
+</span><span id="L-1219"><a href="#L-1219"><span class="linenos">1219</span></a>
+</span><span id="L-1220"><a href="#L-1220"><span class="linenos">1220</span></a><span class="k">def</span> <span class="nf">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">):</span>  <span class="c1"># Just so normalization an sorting does not need to be repeated. Here we could later put in some checks</span>
+</span><span id="L-1221"><a href="#L-1221"><span class="linenos">1221</span></a>    <span class="n">sp_val</span><span class="p">,</span> <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
+</span><span id="L-1222"><a href="#L-1222"><span class="linenos">1222</span></a>    <span class="n">sp_vecs</span> <span class="o">=</span> <span class="p">[</span><span class="n">sp_vecs</span><span class="p">[:,</span> <span class="n">np</span><span class="o">.</span><span class="n">argsort</span><span class="p">(</span><span class="n">sp_val</span><span class="p">)[</span><span class="o">-</span><span class="n">i</span><span class="p">]]</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">sp_vecs</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)]</span>
+</span><span id="L-1223"><a href="#L-1223"><span class="linenos">1223</span></a>    <span class="n">sp_vecs</span> <span class="o">=</span> <span class="p">[</span><span class="n">v</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">v</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">G0</span> <span class="o">@</span> <span class="n">v</span><span class="p">))</span> <span class="k">for</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">sp_vecs</span><span class="p">]</span>
+</span><span id="L-1224"><a href="#L-1224"><span class="linenos">1224</span></a>    <span class="k">return</span> <span class="n">sp_vecs</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="Corr">
-                                <div class="attr class">
-        <a class="headerlink" href="#Corr">#&nbsp;&nbsp</a>
+                            <input id="Corr-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr class">
+            
+    <span class="def">class</span>
+    <span class="name">Corr</span>:
+
+                <label class="view-source-button" for="Corr-view-source"><span>View Source</span></label>
 
-        
-        <span class="def">class</span>
-        <span class="name">Corr</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr-13"><a href="#Corr-13"><span class="linenos">  13</span></a><span class="k">class</span> <span class="nc">Corr</span><span class="p">:</span>
-</span><span id="Corr-14"><a href="#Corr-14"><span class="linenos">  14</span></a>    <span class="sd">&quot;&quot;&quot;The class for a correlator (time dependent sequence of pe.Obs).</span>
-</span><span id="Corr-15"><a href="#Corr-15"><span class="linenos">  15</span></a>
-</span><span id="Corr-16"><a href="#Corr-16"><span class="linenos">  16</span></a><span class="sd">    Everything, this class does, can be achieved using lists or arrays of Obs.</span>
-</span><span id="Corr-17"><a href="#Corr-17"><span class="linenos">  17</span></a><span class="sd">    But it is simply more convenient to have a dedicated object for correlators.</span>
-</span><span id="Corr-18"><a href="#Corr-18"><span class="linenos">  18</span></a><span class="sd">    One often wants to add or multiply correlators of the same length at every timeslice and it is inconvenient</span>
-</span><span id="Corr-19"><a href="#Corr-19"><span class="linenos">  19</span></a><span class="sd">    to iterate over all timeslices for every operation. This is especially true, when dealing with matrices.</span>
-</span><span id="Corr-20"><a href="#Corr-20"><span class="linenos">  20</span></a>
-</span><span id="Corr-21"><a href="#Corr-21"><span class="linenos">  21</span></a><span class="sd">    The correlator can have two types of content: An Obs at every timeslice OR a GEVP</span>
-</span><span id="Corr-22"><a href="#Corr-22"><span class="linenos">  22</span></a><span class="sd">    matrix at every timeslice. Other dependency (eg. spatial) are not supported.</span>
-</span><span id="Corr-23"><a href="#Corr-23"><span class="linenos">  23</span></a>
-</span><span id="Corr-24"><a href="#Corr-24"><span class="linenos">  24</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="Corr-25"><a href="#Corr-25"><span class="linenos">  25</span></a>
-</span><span id="Corr-26"><a href="#Corr-26"><span class="linenos">  26</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data_input</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="n">prange</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-27"><a href="#Corr-27"><span class="linenos">  27</span></a>        <span class="sd">&quot;&quot;&quot; Initialize a Corr object.</span>
-</span><span id="Corr-28"><a href="#Corr-28"><span class="linenos">  28</span></a>
-</span><span id="Corr-29"><a href="#Corr-29"><span class="linenos">  29</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-30"><a href="#Corr-30"><span class="linenos">  30</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-31"><a href="#Corr-31"><span class="linenos">  31</span></a><span class="sd">        data_input : list or array</span>
-</span><span id="Corr-32"><a href="#Corr-32"><span class="linenos">  32</span></a><span class="sd">            list of Obs or list of arrays of Obs or array of Corrs</span>
-</span><span id="Corr-33"><a href="#Corr-33"><span class="linenos">  33</span></a><span class="sd">        padding : list, optional</span>
-</span><span id="Corr-34"><a href="#Corr-34"><span class="linenos">  34</span></a><span class="sd">            List with two entries where the first labels the padding</span>
-</span><span id="Corr-35"><a href="#Corr-35"><span class="linenos">  35</span></a><span class="sd">            at the front of the correlator and the second the padding</span>
-</span><span id="Corr-36"><a href="#Corr-36"><span class="linenos">  36</span></a><span class="sd">            at the back.</span>
-</span><span id="Corr-37"><a href="#Corr-37"><span class="linenos">  37</span></a><span class="sd">        prange : list, optional</span>
-</span><span id="Corr-38"><a href="#Corr-38"><span class="linenos">  38</span></a><span class="sd">            List containing the first and last timeslice of the plateau</span>
-</span><span id="Corr-39"><a href="#Corr-39"><span class="linenos">  39</span></a><span class="sd">            region indentified for this correlator.</span>
-</span><span id="Corr-40"><a href="#Corr-40"><span class="linenos">  40</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-41"><a href="#Corr-41"><span class="linenos">  41</span></a>
-</span><span id="Corr-42"><a href="#Corr-42"><span class="linenos">  42</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data_input</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="Corr-43"><a href="#Corr-43"><span class="linenos">  43</span></a>
-</span><span id="Corr-44"><a href="#Corr-44"><span class="linenos">  44</span></a>            <span class="c1"># This only works, if the array fulfills the conditions below</span>
-</span><span id="Corr-45"><a href="#Corr-45"><span class="linenos">  45</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span> <span class="ow">and</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
-</span><span id="Corr-46"><a href="#Corr-46"><span class="linenos">  46</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Incompatible array shape&quot;</span><span class="p">)</span>
-</span><span id="Corr-47"><a href="#Corr-47"><span class="linenos">  47</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">Corr</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
-</span><span id="Corr-48"><a href="#Corr-48"><span class="linenos">  48</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;If the input is an array, its elements must be of type pe.Corr&quot;</span><span class="p">)</span>
-</span><span id="Corr-49"><a href="#Corr-49"><span class="linenos">  49</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
-</span><span id="Corr-50"><a href="#Corr-50"><span class="linenos">  50</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only construct matrix correlator from single valued correlators&quot;</span><span class="p">)</span>
-</span><span id="Corr-51"><a href="#Corr-51"><span class="linenos">  51</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">T</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]))</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-52"><a href="#Corr-52"><span class="linenos">  52</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All input Correlators must be defined over the same timeslices.&quot;</span><span class="p">)</span>
-</span><span id="Corr-53"><a href="#Corr-53"><span class="linenos">  53</span></a>
-</span><span id="Corr-54"><a href="#Corr-54"><span class="linenos">  54</span></a>            <span class="n">T</span> <span class="o">=</span> <span class="n">data_input</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">T</span>
-</span><span id="Corr-55"><a href="#Corr-55"><span class="linenos">  55</span></a>            <span class="n">N</span> <span class="o">=</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr-56"><a href="#Corr-56"><span class="linenos">  56</span></a>            <span class="n">input_as_list</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-57"><a href="#Corr-57"><span class="linenos">  57</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-58"><a href="#Corr-58"><span class="linenos">  58</span></a>                <span class="k">if</span> <span class="nb">any</span><span class="p">([(</span><span class="n">item</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
-</span><span id="Corr-59"><a href="#Corr-59"><span class="linenos">  59</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([(</span><span class="n">item</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
-</span><span id="Corr-60"><a href="#Corr-60"><span class="linenos">  60</span></a>                        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Input ill-defined at different timeslices. Conversion leads to data loss!&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="Corr-61"><a href="#Corr-61"><span class="linenos">  61</span></a>                    <span class="n">input_as_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-62"><a href="#Corr-62"><span class="linenos">  62</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-63"><a href="#Corr-63"><span class="linenos">  63</span></a>                    <span class="n">array_at_timeslace</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;object&quot;</span><span class="p">)</span>
-</span><span id="Corr-64"><a href="#Corr-64"><span class="linenos">  64</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr-65"><a href="#Corr-65"><span class="linenos">  65</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr-66"><a href="#Corr-66"><span class="linenos">  66</span></a>                            <span class="n">array_at_timeslace</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">data_input</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">][</span><span class="n">t</span><span class="p">]</span>
-</span><span id="Corr-67"><a href="#Corr-67"><span class="linenos">  67</span></a>                    <span class="n">input_as_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">array_at_timeslace</span><span class="p">)</span>
-</span><span id="Corr-68"><a href="#Corr-68"><span class="linenos">  68</span></a>            <span class="n">data_input</span> <span class="o">=</span> <span class="n">input_as_list</span>
-</span><span id="Corr-69"><a href="#Corr-69"><span class="linenos">  69</span></a>
-</span><span id="Corr-70"><a href="#Corr-70"><span class="linenos">  70</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data_input</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="Corr-71"><a href="#Corr-71"><span class="linenos">  71</span></a>
-</span><span id="Corr-72"><a href="#Corr-72"><span class="linenos">  72</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">))</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
-</span><span id="Corr-73"><a href="#Corr-73"><span class="linenos">  73</span></a>                <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">data_input</span><span class="p">)</span>
-</span><span id="Corr-74"><a href="#Corr-74"><span class="linenos">  74</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">item</span><span class="p">])</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]</span>
-</span><span id="Corr-75"><a href="#Corr-75"><span class="linenos">  75</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">))</span> <span class="ow">or</span> <span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
-</span><span id="Corr-76"><a href="#Corr-76"><span class="linenos">  76</span></a>                <span class="n">_assert_equal_properties</span><span class="p">([</span><span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">data_input</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span>
-</span><span id="Corr-77"><a href="#Corr-77"><span class="linenos">  77</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">item</span><span class="p">])</span> <span class="k">if</span> <span class="n">item</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]</span>
-</span><span id="Corr-78"><a href="#Corr-78"><span class="linenos">  78</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="Corr-79"><a href="#Corr-79"><span class="linenos">  79</span></a>
-</span><span id="Corr-80"><a href="#Corr-80"><span class="linenos">  80</span></a>            <span class="k">elif</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span> <span class="ow">or</span> <span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">])</span> <span class="ow">and</span> <span class="nb">any</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
-</span><span id="Corr-81"><a href="#Corr-81"><span class="linenos">  81</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="n">data_input</span>
-</span><span id="Corr-82"><a href="#Corr-82"><span class="linenos">  82</span></a>                <span class="n">noNull</span> <span class="o">=</span> <span class="p">[</span><span class="n">a</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">a</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)]</span>  <span class="c1"># To check if the matrices are correct for all undefined elements</span>
-</span><span id="Corr-83"><a href="#Corr-83"><span class="linenos">  83</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr-84"><a href="#Corr-84"><span class="linenos">  84</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">!=</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
-</span><span id="Corr-85"><a href="#Corr-85"><span class="linenos">  85</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Smearing matrices are not NxN&quot;</span><span class="p">)</span>
-</span><span id="Corr-86"><a href="#Corr-86"><span class="linenos">  86</span></a>                <span class="k">if</span> <span class="p">(</span><span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">noNull</span><span class="p">])):</span>
-</span><span id="Corr-87"><a href="#Corr-87"><span class="linenos">  87</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Items in data_input are not of identical shape.&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noNull</span><span class="p">))</span>
-</span><span id="Corr-88"><a href="#Corr-88"><span class="linenos">  88</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-89"><a href="#Corr-89"><span class="linenos">  89</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;data_input contains item of wrong type&quot;</span><span class="p">)</span>
-</span><span id="Corr-90"><a href="#Corr-90"><span class="linenos">  90</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-91"><a href="#Corr-91"><span class="linenos">  91</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Data input was not given as list or correct array&quot;</span><span class="p">)</span>
-</span><span id="Corr-92"><a href="#Corr-92"><span class="linenos">  92</span></a>
-</span><span id="Corr-93"><a href="#Corr-93"><span class="linenos">  93</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="Corr-94"><a href="#Corr-94"><span class="linenos">  94</span></a>
-</span><span id="Corr-95"><a href="#Corr-95"><span class="linenos">  95</span></a>        <span class="c1"># An undefined timeslice is represented by the None object</span>
-</span><span id="Corr-96"><a href="#Corr-96"><span class="linenos">  96</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">padding</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">+</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">padding</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="Corr-97"><a href="#Corr-97"><span class="linenos">  97</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span>
-</span><span id="Corr-98"><a href="#Corr-98"><span class="linenos">  98</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">prange</span>
-</span><span id="Corr-99"><a href="#Corr-99"><span class="linenos">  99</span></a>
-</span><span id="Corr-100"><a href="#Corr-100"><span class="linenos"> 100</span></a>    <span class="k">def</span> <span class="fm">__getitem__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">idx</span><span class="p">):</span>
-</span><span id="Corr-101"><a href="#Corr-101"><span class="linenos"> 101</span></a>        <span class="sd">&quot;&quot;&quot;Return the content of timeslice idx&quot;&quot;&quot;</span>
-</span><span id="Corr-102"><a href="#Corr-102"><span class="linenos"> 102</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-103"><a href="#Corr-103"><span class="linenos"> 103</span></a>            <span class="k">return</span> <span class="kc">None</span>
-</span><span id="Corr-104"><a href="#Corr-104"><span class="linenos"> 104</span></a>        <span class="k">elif</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-105"><a href="#Corr-105"><span class="linenos"> 105</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr-106"><a href="#Corr-106"><span class="linenos"> 106</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-107"><a href="#Corr-107"><span class="linenos"> 107</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span>
-</span><span id="Corr-108"><a href="#Corr-108"><span class="linenos"> 108</span></a>
-</span><span id="Corr-109"><a href="#Corr-109"><span class="linenos"> 109</span></a>    <span class="nd">@property</span>
-</span><span id="Corr-110"><a href="#Corr-110"><span class="linenos"> 110</span></a>    <span class="k">def</span> <span class="nf">reweighted</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-111"><a href="#Corr-111"><span class="linenos"> 111</span></a>        <span class="n">bool_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">reweighted</span><span class="p">,</span> <span class="n">o</span><span class="p">))</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]])</span>
-</span><span id="Corr-112"><a href="#Corr-112"><span class="linenos"> 112</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">bool_array</span> <span class="o">==</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr-113"><a href="#Corr-113"><span class="linenos"> 113</span></a>            <span class="k">return</span> <span class="kc">True</span>
-</span><span id="Corr-114"><a href="#Corr-114"><span class="linenos"> 114</span></a>        <span class="k">elif</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">bool_array</span> <span class="o">==</span> <span class="mi">0</span><span class="p">):</span>
-</span><span id="Corr-115"><a href="#Corr-115"><span class="linenos"> 115</span></a>            <span class="k">return</span> <span class="kc">False</span>
-</span><span id="Corr-116"><a href="#Corr-116"><span class="linenos"> 116</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-117"><a href="#Corr-117"><span class="linenos"> 117</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Reweighting status of correlator corrupted.&quot;</span><span class="p">)</span>
-</span><span id="Corr-118"><a href="#Corr-118"><span class="linenos"> 118</span></a>
-</span><span id="Corr-119"><a href="#Corr-119"><span class="linenos"> 119</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Corr-120"><a href="#Corr-120"><span class="linenos"> 120</span></a>        <span class="sd">&quot;&quot;&quot;Apply the gamma method to the content of the Corr.&quot;&quot;&quot;</span>
-</span><span id="Corr-121"><a href="#Corr-121"><span class="linenos"> 121</span></a>        <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">:</span>
-</span><span id="Corr-122"><a href="#Corr-122"><span class="linenos"> 122</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-123"><a href="#Corr-123"><span class="linenos"> 123</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-124"><a href="#Corr-124"><span class="linenos"> 124</span></a>                    <span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="Corr-125"><a href="#Corr-125"><span class="linenos"> 125</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-126"><a href="#Corr-126"><span class="linenos"> 126</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr-127"><a href="#Corr-127"><span class="linenos"> 127</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr-128"><a href="#Corr-128"><span class="linenos"> 128</span></a>                            <span class="n">item</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="Corr-129"><a href="#Corr-129"><span class="linenos"> 129</span></a>
-</span><span id="Corr-130"><a href="#Corr-130"><span class="linenos"> 130</span></a>    <span class="k">def</span> <span class="nf">projected</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">vector_l</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">vector_r</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="Corr-131"><a href="#Corr-131"><span class="linenos"> 131</span></a>        <span class="sd">&quot;&quot;&quot;We need to project the Correlator with a Vector to get a single value at each timeslice.</span>
-</span><span id="Corr-132"><a href="#Corr-132"><span class="linenos"> 132</span></a>
-</span><span id="Corr-133"><a href="#Corr-133"><span class="linenos"> 133</span></a><span class="sd">        The method can use one or two vectors.</span>
-</span><span id="Corr-134"><a href="#Corr-134"><span class="linenos"> 134</span></a><span class="sd">        If two are specified it returns v1@G@v2 (the order might be very important.)</span>
-</span><span id="Corr-135"><a href="#Corr-135"><span class="linenos"> 135</span></a><span class="sd">        By default it will return the lowest source, which usually means unsmeared-unsmeared (0,0), but it does not have to</span>
-</span><span id="Corr-136"><a href="#Corr-136"><span class="linenos"> 136</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-137"><a href="#Corr-137"><span class="linenos"> 137</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-138"><a href="#Corr-138"><span class="linenos"> 138</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to project a Corr, that already has N=1.&quot;</span><span class="p">)</span>
-</span><span id="Corr-139"><a href="#Corr-139"><span class="linenos"> 139</span></a>
-</span><span id="Corr-140"><a href="#Corr-140"><span class="linenos"> 140</span></a>        <span class="k">if</span> <span class="n">vector_l</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-141"><a href="#Corr-141"><span class="linenos"> 141</span></a>            <span class="n">vector_l</span><span class="p">,</span> <span class="n">vector_r</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="mf">1.</span><span class="p">]</span> <span class="o">+</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.</span><span class="p">]),</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="mf">1.</span><span class="p">]</span> <span class="o">+</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.</span><span class="p">])</span>
-</span><span id="Corr-142"><a href="#Corr-142"><span class="linenos"> 142</span></a>        <span class="k">elif</span><span class="p">(</span><span class="n">vector_r</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-143"><a href="#Corr-143"><span class="linenos"> 143</span></a>            <span class="n">vector_r</span> <span class="o">=</span> <span class="n">vector_l</span>
-</span><span id="Corr-144"><a href="#Corr-144"><span class="linenos"> 144</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_r</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="Corr-145"><a href="#Corr-145"><span class="linenos"> 145</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vector_l</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="Corr-146"><a href="#Corr-146"><span class="linenos"> 146</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Length of vector list must be equal to T&quot;</span><span class="p">)</span>
-</span><span id="Corr-147"><a href="#Corr-147"><span class="linenos"> 147</span></a>            <span class="n">vector_r</span> <span class="o">=</span> <span class="p">[</span><span class="n">vector_r</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
-</span><span id="Corr-148"><a href="#Corr-148"><span class="linenos"> 148</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_r</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="Corr-149"><a href="#Corr-149"><span class="linenos"> 149</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vector_r</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="Corr-150"><a href="#Corr-150"><span class="linenos"> 150</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Length of vector list must be equal to T&quot;</span><span class="p">)</span>
-</span><span id="Corr-151"><a href="#Corr-151"><span class="linenos"> 151</span></a>            <span class="n">vector_l</span> <span class="o">=</span> <span class="p">[</span><span class="n">vector_l</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
-</span><span id="Corr-152"><a href="#Corr-152"><span class="linenos"> 152</span></a>
-</span><span id="Corr-153"><a href="#Corr-153"><span class="linenos"> 153</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="Corr-154"><a href="#Corr-154"><span class="linenos"> 154</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">vector_l</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="n">vector_r</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,):</span>
-</span><span id="Corr-155"><a href="#Corr-155"><span class="linenos"> 155</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Vectors are of wrong shape!&quot;</span><span class="p">)</span>
-</span><span id="Corr-156"><a href="#Corr-156"><span class="linenos"> 156</span></a>            <span class="k">if</span> <span class="n">normalize</span><span class="p">:</span>
-</span><span id="Corr-157"><a href="#Corr-157"><span class="linenos"> 157</span></a>                <span class="n">vector_l</span><span class="p">,</span> <span class="n">vector_r</span> <span class="o">=</span> <span class="n">vector_l</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">vector_l</span> <span class="o">@</span> <span class="n">vector_l</span><span class="p">)),</span> <span class="n">vector_r</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">vector_r</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">)</span>
-</span><span id="Corr-158"><a href="#Corr-158"><span class="linenos"> 158</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">vector_l</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">item</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">])</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr-159"><a href="#Corr-159"><span class="linenos"> 159</span></a>
-</span><span id="Corr-160"><a href="#Corr-160"><span class="linenos"> 160</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-161"><a href="#Corr-161"><span class="linenos"> 161</span></a>            <span class="c1"># There are no checks here yet. There are so many possible scenarios, where this can go wrong.</span>
-</span><span id="Corr-162"><a href="#Corr-162"><span class="linenos"> 162</span></a>            <span class="k">if</span> <span class="n">normalize</span><span class="p">:</span>
-</span><span id="Corr-163"><a href="#Corr-163"><span class="linenos"> 163</span></a>                <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-164"><a href="#Corr-164"><span class="linenos"> 164</span></a>                    <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">])),</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="Corr-165"><a href="#Corr-165"><span class="linenos"> 165</span></a>
-</span><span id="Corr-166"><a href="#Corr-166"><span class="linenos"> 166</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]])</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)]</span>
-</span><span id="Corr-167"><a href="#Corr-167"><span class="linenos"> 167</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="Corr-168"><a href="#Corr-168"><span class="linenos"> 168</span></a>
-</span><span id="Corr-169"><a href="#Corr-169"><span class="linenos"> 169</span></a>    <span class="k">def</span> <span class="nf">item</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">):</span>
-</span><span id="Corr-170"><a href="#Corr-170"><span class="linenos"> 170</span></a>        <span class="sd">&quot;&quot;&quot;Picks the element [i,j] from every matrix and returns a correlator containing one Obs per timeslice.</span>
-</span><span id="Corr-171"><a href="#Corr-171"><span class="linenos"> 171</span></a>
-</span><span id="Corr-172"><a href="#Corr-172"><span class="linenos"> 172</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-173"><a href="#Corr-173"><span class="linenos"> 173</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-174"><a href="#Corr-174"><span class="linenos"> 174</span></a><span class="sd">        i : int</span>
-</span><span id="Corr-175"><a href="#Corr-175"><span class="linenos"> 175</span></a><span class="sd">            First index to be picked.</span>
-</span><span id="Corr-176"><a href="#Corr-176"><span class="linenos"> 176</span></a><span class="sd">        j : int</span>
-</span><span id="Corr-177"><a href="#Corr-177"><span class="linenos"> 177</span></a><span class="sd">            Second index to be picked.</span>
-</span><span id="Corr-178"><a href="#Corr-178"><span class="linenos"> 178</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-179"><a href="#Corr-179"><span class="linenos"> 179</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-180"><a href="#Corr-180"><span class="linenos"> 180</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to pick item from projected Corr&quot;</span><span class="p">)</span>
-</span><span id="Corr-181"><a href="#Corr-181"><span class="linenos"> 181</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span><span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">item</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr-182"><a href="#Corr-182"><span class="linenos"> 182</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="Corr-183"><a href="#Corr-183"><span class="linenos"> 183</span></a>
-</span><span id="Corr-184"><a href="#Corr-184"><span class="linenos"> 184</span></a>    <span class="k">def</span> <span class="nf">plottable</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-185"><a href="#Corr-185"><span class="linenos"> 185</span></a>        <span class="sd">&quot;&quot;&quot;Outputs the correlator in a plotable format.</span>
-</span><span id="Corr-186"><a href="#Corr-186"><span class="linenos"> 186</span></a>
-</span><span id="Corr-187"><a href="#Corr-187"><span class="linenos"> 187</span></a><span class="sd">        Outputs three lists containing the timeslice index, the value on each</span>
-</span><span id="Corr-188"><a href="#Corr-188"><span class="linenos"> 188</span></a><span class="sd">        timeslice and the error on each timeslice.</span>
-</span><span id="Corr-189"><a href="#Corr-189"><span class="linenos"> 189</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-190"><a href="#Corr-190"><span class="linenos"> 190</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-191"><a href="#Corr-191"><span class="linenos"> 191</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only make Corr[N=1] plottable&quot;</span><span class="p">)</span>
-</span><span id="Corr-192"><a href="#Corr-192"><span class="linenos"> 192</span></a>        <span class="n">x_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="Corr-193"><a href="#Corr-193"><span class="linenos"> 193</span></a>        <span class="n">y_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="Corr-194"><a href="#Corr-194"><span class="linenos"> 194</span></a>        <span class="n">y_err_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="Corr-195"><a href="#Corr-195"><span class="linenos"> 195</span></a>
-</span><span id="Corr-196"><a href="#Corr-196"><span class="linenos"> 196</span></a>        <span class="k">return</span> <span class="n">x_list</span><span class="p">,</span> <span class="n">y_list</span><span class="p">,</span> <span class="n">y_err_list</span>
-</span><span id="Corr-197"><a href="#Corr-197"><span class="linenos"> 197</span></a>
-</span><span id="Corr-198"><a href="#Corr-198"><span class="linenos"> 198</span></a>    <span class="k">def</span> <span class="nf">symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-199"><a href="#Corr-199"><span class="linenos"> 199</span></a>        <span class="sd">&quot;&quot;&quot; Symmetrize the correlator around x0=0.&quot;&quot;&quot;</span>
-</span><span id="Corr-200"><a href="#Corr-200"><span class="linenos"> 200</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">%</span> <span class="mi">2</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Corr-201"><a href="#Corr-201"><span class="linenos"> 201</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can not symmetrize odd T&quot;</span><span class="p">)</span>
-</span><span id="Corr-202"><a href="#Corr-202"><span class="linenos"> 202</span></a>
-</span><span id="Corr-203"><a href="#Corr-203"><span class="linenos"> 203</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">))</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Corr-204"><a href="#Corr-204"><span class="linenos"> 204</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlator does not seem to be symmetric around x0=0.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="Corr-205"><a href="#Corr-205"><span class="linenos"> 205</span></a>
-</span><span id="Corr-206"><a href="#Corr-206"><span class="linenos"> 206</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
-</span><span id="Corr-207"><a href="#Corr-207"><span class="linenos"> 207</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-208"><a href="#Corr-208"><span class="linenos"> 208</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-209"><a href="#Corr-209"><span class="linenos"> 209</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-210"><a href="#Corr-210"><span class="linenos"> 210</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-211"><a href="#Corr-211"><span class="linenos"> 211</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]))</span>
-</span><span id="Corr-212"><a href="#Corr-212"><span class="linenos"> 212</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr-213"><a href="#Corr-213"><span class="linenos"> 213</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr could not be symmetrized: No redundant values&quot;</span><span class="p">)</span>
-</span><span id="Corr-214"><a href="#Corr-214"><span class="linenos"> 214</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="Corr-215"><a href="#Corr-215"><span class="linenos"> 215</span></a>
-</span><span id="Corr-216"><a href="#Corr-216"><span class="linenos"> 216</span></a>    <span class="k">def</span> <span class="nf">anti_symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-217"><a href="#Corr-217"><span class="linenos"> 217</span></a>        <span class="sd">&quot;&quot;&quot;Anti-symmetrize the correlator around x0=0.&quot;&quot;&quot;</span>
-</span><span id="Corr-218"><a href="#Corr-218"><span class="linenos"> 218</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">%</span> <span class="mi">2</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Corr-219"><a href="#Corr-219"><span class="linenos"> 219</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can not symmetrize odd T&quot;</span><span class="p">)</span>
-</span><span id="Corr-220"><a href="#Corr-220"><span class="linenos"> 220</span></a>
-</span><span id="Corr-221"><a href="#Corr-221"><span class="linenos"> 221</span></a>        <span class="n">test</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
-</span><span id="Corr-222"><a href="#Corr-222"><span class="linenos"> 222</span></a>        <span class="n">test</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="Corr-223"><a href="#Corr-223"><span class="linenos"> 223</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">is_zero_within_error</span><span class="p">(</span><span class="mi">3</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">test</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]):</span>
-</span><span id="Corr-224"><a href="#Corr-224"><span class="linenos"> 224</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlator does not seem to be anti-symmetric around x0=0.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="Corr-225"><a href="#Corr-225"><span class="linenos"> 225</span></a>
-</span><span id="Corr-226"><a href="#Corr-226"><span class="linenos"> 226</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
-</span><span id="Corr-227"><a href="#Corr-227"><span class="linenos"> 227</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-228"><a href="#Corr-228"><span class="linenos"> 228</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-229"><a href="#Corr-229"><span class="linenos"> 229</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-230"><a href="#Corr-230"><span class="linenos"> 230</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-231"><a href="#Corr-231"><span class="linenos"> 231</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]))</span>
-</span><span id="Corr-232"><a href="#Corr-232"><span class="linenos"> 232</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr-233"><a href="#Corr-233"><span class="linenos"> 233</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr could not be symmetrized: No redundant values&quot;</span><span class="p">)</span>
-</span><span id="Corr-234"><a href="#Corr-234"><span class="linenos"> 234</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="Corr-235"><a href="#Corr-235"><span class="linenos"> 235</span></a>
-</span><span id="Corr-236"><a href="#Corr-236"><span class="linenos"> 236</span></a>    <span class="k">def</span> <span class="nf">matrix_symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-237"><a href="#Corr-237"><span class="linenos"> 237</span></a>        <span class="sd">&quot;&quot;&quot;Symmetrizes the correlator matrices on every timeslice.&quot;&quot;&quot;</span>
-</span><span id="Corr-238"><a href="#Corr-238"><span class="linenos"> 238</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-239"><a href="#Corr-239"><span class="linenos"> 239</span></a>            <span class="n">transposed</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">G</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">G</span><span class="o">.</span><span class="n">T</span> <span class="k">for</span> <span class="n">G</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr-240"><a href="#Corr-240"><span class="linenos"> 240</span></a>            <span class="k">return</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">transposed</span><span class="p">)</span> <span class="o">+</span> <span class="bp">self</span><span class="p">)</span>
-</span><span id="Corr-241"><a href="#Corr-241"><span class="linenos"> 241</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-242"><a href="#Corr-242"><span class="linenos"> 242</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to symmetrize a correlator matrix, that already has N=1.&quot;</span><span class="p">)</span>
-</span><span id="Corr-243"><a href="#Corr-243"><span class="linenos"> 243</span></a>
-</span><span id="Corr-244"><a href="#Corr-244"><span class="linenos"> 244</span></a>    <span class="k">def</span> <span class="nf">GEVP</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="s2">&quot;Eigenvalue&quot;</span><span class="p">):</span>
-</span><span id="Corr-245"><a href="#Corr-245"><span class="linenos"> 245</span></a>        <span class="sd">&quot;&quot;&quot;Solve the general eigenvalue problem on the current correlator</span>
-</span><span id="Corr-246"><a href="#Corr-246"><span class="linenos"> 246</span></a>
-</span><span id="Corr-247"><a href="#Corr-247"><span class="linenos"> 247</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-248"><a href="#Corr-248"><span class="linenos"> 248</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-249"><a href="#Corr-249"><span class="linenos"> 249</span></a><span class="sd">        t0 : int</span>
-</span><span id="Corr-250"><a href="#Corr-250"><span class="linenos"> 250</span></a><span class="sd">            The time t0 for G(t)v= lambda G(t_0)v</span>
-</span><span id="Corr-251"><a href="#Corr-251"><span class="linenos"> 251</span></a><span class="sd">        ts : int</span>
-</span><span id="Corr-252"><a href="#Corr-252"><span class="linenos"> 252</span></a><span class="sd">            fixed time G(t_s)v= lambda G(t_0)v  if return_list=False</span>
-</span><span id="Corr-253"><a href="#Corr-253"><span class="linenos"> 253</span></a><span class="sd">            If return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</span>
-</span><span id="Corr-254"><a href="#Corr-254"><span class="linenos"> 254</span></a><span class="sd">        state : int</span>
-</span><span id="Corr-255"><a href="#Corr-255"><span class="linenos"> 255</span></a><span class="sd">            The state one is interested in, ordered by energy. The lowest state is zero.</span>
-</span><span id="Corr-256"><a href="#Corr-256"><span class="linenos"> 256</span></a><span class="sd">        sorted_list : string</span>
-</span><span id="Corr-257"><a href="#Corr-257"><span class="linenos"> 257</span></a><span class="sd">            if this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.</span>
-</span><span id="Corr-258"><a href="#Corr-258"><span class="linenos"> 258</span></a><span class="sd">             &quot;Eigenvalue&quot;  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.</span>
-</span><span id="Corr-259"><a href="#Corr-259"><span class="linenos"> 259</span></a><span class="sd">             &quot;Eigenvector&quot; -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.</span>
-</span><span id="Corr-260"><a href="#Corr-260"><span class="linenos"> 260</span></a><span class="sd">                              The reference state is identified by its eigenvalue at t=ts</span>
-</span><span id="Corr-261"><a href="#Corr-261"><span class="linenos"> 261</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-262"><a href="#Corr-262"><span class="linenos"> 262</span></a>
-</span><span id="Corr-263"><a href="#Corr-263"><span class="linenos"> 263</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-264"><a href="#Corr-264"><span class="linenos"> 264</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;GEVP methods only works on correlator matrices and not single correlators.&quot;</span><span class="p">)</span>
-</span><span id="Corr-265"><a href="#Corr-265"><span class="linenos"> 265</span></a>
-</span><span id="Corr-266"><a href="#Corr-266"><span class="linenos"> 266</span></a>        <span class="n">symmetric_corr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">matrix_symmetric</span><span class="p">()</span>
-</span><span id="Corr-267"><a href="#Corr-267"><span class="linenos"> 267</span></a>        <span class="k">if</span> <span class="n">sorted_list</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-268"><a href="#Corr-268"><span class="linenos"> 268</span></a>            <span class="k">if</span> <span class="p">(</span><span class="n">ts</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-269"><a href="#Corr-269"><span class="linenos"> 269</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;ts is required if sorted_list=None&quot;</span><span class="p">)</span>
-</span><span id="Corr-270"><a href="#Corr-270"><span class="linenos"> 270</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t0</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">ts</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-271"><a href="#Corr-271"><span class="linenos"> 271</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr not defined at t0/ts&quot;</span><span class="p">)</span>
-</span><span id="Corr-272"><a href="#Corr-272"><span class="linenos"> 272</span></a>            <span class="n">G0</span><span class="p">,</span> <span class="n">Gt</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">)</span>
-</span><span id="Corr-273"><a href="#Corr-273"><span class="linenos"> 273</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr-274"><a href="#Corr-274"><span class="linenos"> 274</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr-275"><a href="#Corr-275"><span class="linenos"> 275</span></a>                    <span class="n">G0</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t0</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
-</span><span id="Corr-276"><a href="#Corr-276"><span class="linenos"> 276</span></a>                    <span class="n">Gt</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">ts</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
-</span><span id="Corr-277"><a href="#Corr-277"><span class="linenos"> 277</span></a>
-</span><span id="Corr-278"><a href="#Corr-278"><span class="linenos"> 278</span></a>            <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
-</span><span id="Corr-279"><a href="#Corr-279"><span class="linenos"> 279</span></a>            <span class="n">sp_vec</span> <span class="o">=</span> <span class="n">sp_vecs</span><span class="p">[</span><span class="n">state</span><span class="p">]</span>
-</span><span id="Corr-280"><a href="#Corr-280"><span class="linenos"> 280</span></a>            <span class="k">return</span> <span class="n">sp_vec</span>
-</span><span id="Corr-281"><a href="#Corr-281"><span class="linenos"> 281</span></a>        <span class="k">elif</span> <span class="n">sorted_list</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;Eigenvalue&quot;</span><span class="p">,</span> <span class="s2">&quot;Eigenvector&quot;</span><span class="p">]:</span>
-</span><span id="Corr-282"><a href="#Corr-282"><span class="linenos"> 282</span></a>            <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvalue&quot;</span> <span class="ow">and</span> <span class="n">ts</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-283"><a href="#Corr-283"><span class="linenos"> 283</span></a>                <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;ts has no effect when sorting by eigenvalue is chosen.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="Corr-284"><a href="#Corr-284"><span class="linenos"> 284</span></a>            <span class="n">all_vecs</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-285"><a href="#Corr-285"><span class="linenos"> 285</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-286"><a href="#Corr-286"><span class="linenos"> 286</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="Corr-287"><a href="#Corr-287"><span class="linenos"> 287</span></a>                    <span class="n">G0</span><span class="p">,</span> <span class="n">Gt</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">)</span>
-</span><span id="Corr-288"><a href="#Corr-288"><span class="linenos"> 288</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr-289"><a href="#Corr-289"><span class="linenos"> 289</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr-290"><a href="#Corr-290"><span class="linenos"> 290</span></a>                            <span class="n">G0</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t0</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
-</span><span id="Corr-291"><a href="#Corr-291"><span class="linenos"> 291</span></a>                            <span class="n">Gt</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
-</span><span id="Corr-292"><a href="#Corr-292"><span class="linenos"> 292</span></a>
-</span><span id="Corr-293"><a href="#Corr-293"><span class="linenos"> 293</span></a>                    <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
-</span><span id="Corr-294"><a href="#Corr-294"><span class="linenos"> 294</span></a>                    <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvalue&quot;</span><span class="p">:</span>
-</span><span id="Corr-295"><a href="#Corr-295"><span class="linenos"> 295</span></a>                        <span class="n">sp_vec</span> <span class="o">=</span> <span class="n">sp_vecs</span><span class="p">[</span><span class="n">state</span><span class="p">]</span>
-</span><span id="Corr-296"><a href="#Corr-296"><span class="linenos"> 296</span></a>                        <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">sp_vec</span><span class="p">)</span>
-</span><span id="Corr-297"><a href="#Corr-297"><span class="linenos"> 297</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-298"><a href="#Corr-298"><span class="linenos"> 298</span></a>                        <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">sp_vecs</span><span class="p">)</span>
-</span><span id="Corr-299"><a href="#Corr-299"><span class="linenos"> 299</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="Corr-300"><a href="#Corr-300"><span class="linenos"> 300</span></a>                    <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-301"><a href="#Corr-301"><span class="linenos"> 301</span></a>            <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvector&quot;</span><span class="p">:</span>
-</span><span id="Corr-302"><a href="#Corr-302"><span class="linenos"> 302</span></a>                <span class="k">if</span> <span class="p">(</span><span class="n">ts</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-303"><a href="#Corr-303"><span class="linenos"> 303</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;ts is required for the Eigenvector sorting method.&quot;</span><span class="p">)</span>
-</span><span id="Corr-304"><a href="#Corr-304"><span class="linenos"> 304</span></a>                <span class="n">all_vecs</span> <span class="o">=</span> <span class="n">_sort_vectors</span><span class="p">(</span><span class="n">all_vecs</span><span class="p">,</span> <span class="n">ts</span><span class="p">)</span>
-</span><span id="Corr-305"><a href="#Corr-305"><span class="linenos"> 305</span></a>                <span class="n">all_vecs</span> <span class="o">=</span> <span class="p">[</span><span class="n">a</span><span class="p">[</span><span class="n">state</span><span class="p">]</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="n">all_vecs</span><span class="p">]</span>
-</span><span id="Corr-306"><a href="#Corr-306"><span class="linenos"> 306</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-307"><a href="#Corr-307"><span class="linenos"> 307</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unkown value for &#39;sorted_list&#39;.&quot;</span><span class="p">)</span>
-</span><span id="Corr-308"><a href="#Corr-308"><span class="linenos"> 308</span></a>
-</span><span id="Corr-309"><a href="#Corr-309"><span class="linenos"> 309</span></a>        <span class="k">return</span> <span class="n">all_vecs</span>
-</span><span id="Corr-310"><a href="#Corr-310"><span class="linenos"> 310</span></a>
-</span><span id="Corr-311"><a href="#Corr-311"><span class="linenos"> 311</span></a>    <span class="k">def</span> <span class="nf">Eigenvalue</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-312"><a href="#Corr-312"><span class="linenos"> 312</span></a>        <span class="sd">&quot;&quot;&quot;Determines the eigenvalue of the GEVP by solving and projecting the correlator</span>
-</span><span id="Corr-313"><a href="#Corr-313"><span class="linenos"> 313</span></a>
-</span><span id="Corr-314"><a href="#Corr-314"><span class="linenos"> 314</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-315"><a href="#Corr-315"><span class="linenos"> 315</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-316"><a href="#Corr-316"><span class="linenos"> 316</span></a><span class="sd">        t0 : int</span>
-</span><span id="Corr-317"><a href="#Corr-317"><span class="linenos"> 317</span></a><span class="sd">            The time t0 for G(t)v= lambda G(t_0)v</span>
-</span><span id="Corr-318"><a href="#Corr-318"><span class="linenos"> 318</span></a><span class="sd">        ts : int</span>
-</span><span id="Corr-319"><a href="#Corr-319"><span class="linenos"> 319</span></a><span class="sd">            fixed time G(t_s)v= lambda G(t_0)v  if return_list=False</span>
-</span><span id="Corr-320"><a href="#Corr-320"><span class="linenos"> 320</span></a><span class="sd">            If return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</span>
-</span><span id="Corr-321"><a href="#Corr-321"><span class="linenos"> 321</span></a><span class="sd">        state : int</span>
-</span><span id="Corr-322"><a href="#Corr-322"><span class="linenos"> 322</span></a><span class="sd">            The state one is interested in ordered by energy. The lowest state is zero.</span>
-</span><span id="Corr-323"><a href="#Corr-323"><span class="linenos"> 323</span></a><span class="sd">        sorted_list : string</span>
-</span><span id="Corr-324"><a href="#Corr-324"><span class="linenos"> 324</span></a><span class="sd">            if this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.</span>
-</span><span id="Corr-325"><a href="#Corr-325"><span class="linenos"> 325</span></a><span class="sd">             &quot;Eigenvalue&quot;  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.</span>
-</span><span id="Corr-326"><a href="#Corr-326"><span class="linenos"> 326</span></a><span class="sd">             &quot;Eigenvector&quot; -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.</span>
-</span><span id="Corr-327"><a href="#Corr-327"><span class="linenos"> 327</span></a><span class="sd">                              The reference state is identified by its eigenvalue at t=ts</span>
-</span><span id="Corr-328"><a href="#Corr-328"><span class="linenos"> 328</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-329"><a href="#Corr-329"><span class="linenos"> 329</span></a>        <span class="n">vec</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">GEVP</span><span class="p">(</span><span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="n">ts</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="n">state</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="n">sorted_list</span><span class="p">)</span>
-</span><span id="Corr-330"><a href="#Corr-330"><span class="linenos"> 330</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">projected</span><span class="p">(</span><span class="n">vec</span><span class="p">)</span>
-</span><span id="Corr-331"><a href="#Corr-331"><span class="linenos"> 331</span></a>
-</span><span id="Corr-332"><a href="#Corr-332"><span class="linenos"> 332</span></a>    <span class="k">def</span> <span class="nf">Hankel</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">N</span><span class="p">,</span> <span class="n">periodic</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="Corr-333"><a href="#Corr-333"><span class="linenos"> 333</span></a>        <span class="sd">&quot;&quot;&quot;Constructs an NxN Hankel matrix</span>
-</span><span id="Corr-334"><a href="#Corr-334"><span class="linenos"> 334</span></a>
-</span><span id="Corr-335"><a href="#Corr-335"><span class="linenos"> 335</span></a><span class="sd">        C(t) c(t+1) ... c(t+n-1)</span>
-</span><span id="Corr-336"><a href="#Corr-336"><span class="linenos"> 336</span></a><span class="sd">        C(t+1) c(t+2) ... c(t+n)</span>
-</span><span id="Corr-337"><a href="#Corr-337"><span class="linenos"> 337</span></a><span class="sd">        .................</span>
-</span><span id="Corr-338"><a href="#Corr-338"><span class="linenos"> 338</span></a><span class="sd">        C(t+(n-1)) c(t+n) ... c(t+2(n-1))</span>
-</span><span id="Corr-339"><a href="#Corr-339"><span class="linenos"> 339</span></a>
-</span><span id="Corr-340"><a href="#Corr-340"><span class="linenos"> 340</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-341"><a href="#Corr-341"><span class="linenos"> 341</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-342"><a href="#Corr-342"><span class="linenos"> 342</span></a><span class="sd">        N : int</span>
-</span><span id="Corr-343"><a href="#Corr-343"><span class="linenos"> 343</span></a><span class="sd">            Dimension of the Hankel matrix</span>
-</span><span id="Corr-344"><a href="#Corr-344"><span class="linenos"> 344</span></a><span class="sd">        periodic : bool, optional</span>
-</span><span id="Corr-345"><a href="#Corr-345"><span class="linenos"> 345</span></a><span class="sd">            determines whether the matrix is extended periodically</span>
-</span><span id="Corr-346"><a href="#Corr-346"><span class="linenos"> 346</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-347"><a href="#Corr-347"><span class="linenos"> 347</span></a>
-</span><span id="Corr-348"><a href="#Corr-348"><span class="linenos"> 348</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-349"><a href="#Corr-349"><span class="linenos"> 349</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multi-operator Prony not implemented!&quot;</span><span class="p">)</span>
-</span><span id="Corr-350"><a href="#Corr-350"><span class="linenos"> 350</span></a>
-</span><span id="Corr-351"><a href="#Corr-351"><span class="linenos"> 351</span></a>        <span class="n">array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;object&quot;</span><span class="p">)</span>
-</span><span id="Corr-352"><a href="#Corr-352"><span class="linenos"> 352</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-353"><a href="#Corr-353"><span class="linenos"> 353</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-354"><a href="#Corr-354"><span class="linenos"> 354</span></a>            <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">array</span><span class="o">.</span><span class="n">copy</span><span class="p">())</span>
-</span><span id="Corr-355"><a href="#Corr-355"><span class="linenos"> 355</span></a>
-</span><span id="Corr-356"><a href="#Corr-356"><span class="linenos"> 356</span></a>        <span class="k">def</span> <span class="nf">wrap</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
-</span><span id="Corr-357"><a href="#Corr-357"><span class="linenos"> 357</span></a>            <span class="k">while</span> <span class="n">i</span> <span class="o">&gt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="Corr-358"><a href="#Corr-358"><span class="linenos"> 358</span></a>                <span class="n">i</span> <span class="o">-=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
-</span><span id="Corr-359"><a href="#Corr-359"><span class="linenos"> 359</span></a>            <span class="k">return</span> <span class="n">i</span>
-</span><span id="Corr-360"><a href="#Corr-360"><span class="linenos"> 360</span></a>
-</span><span id="Corr-361"><a href="#Corr-361"><span class="linenos"> 361</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-362"><a href="#Corr-362"><span class="linenos"> 362</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr-363"><a href="#Corr-363"><span class="linenos"> 363</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr-364"><a href="#Corr-364"><span class="linenos"> 364</span></a>                    <span class="k">if</span> <span class="n">periodic</span><span class="p">:</span>
-</span><span id="Corr-365"><a href="#Corr-365"><span class="linenos"> 365</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">wrap</span><span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">)][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr-366"><a href="#Corr-366"><span class="linenos"> 366</span></a>                    <span class="k">elif</span> <span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">)</span> <span class="o">&gt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="Corr-367"><a href="#Corr-367"><span class="linenos"> 367</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="Corr-368"><a href="#Corr-368"><span class="linenos"> 368</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-369"><a href="#Corr-369"><span class="linenos"> 369</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr-370"><a href="#Corr-370"><span class="linenos"> 370</span></a>
-</span><span id="Corr-371"><a href="#Corr-371"><span class="linenos"> 371</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
-</span><span id="Corr-372"><a href="#Corr-372"><span class="linenos"> 372</span></a>
-</span><span id="Corr-373"><a href="#Corr-373"><span class="linenos"> 373</span></a>    <span class="k">def</span> <span class="nf">roll</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">dt</span><span class="p">):</span>
-</span><span id="Corr-374"><a href="#Corr-374"><span class="linenos"> 374</span></a>        <span class="sd">&quot;&quot;&quot;Periodically shift the correlator by dt timeslices</span>
-</span><span id="Corr-375"><a href="#Corr-375"><span class="linenos"> 375</span></a>
-</span><span id="Corr-376"><a href="#Corr-376"><span class="linenos"> 376</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-377"><a href="#Corr-377"><span class="linenos"> 377</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-378"><a href="#Corr-378"><span class="linenos"> 378</span></a><span class="sd">        dt : int</span>
-</span><span id="Corr-379"><a href="#Corr-379"><span class="linenos"> 379</span></a><span class="sd">            number of timeslices</span>
-</span><span id="Corr-380"><a href="#Corr-380"><span class="linenos"> 380</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-381"><a href="#Corr-381"><span class="linenos"> 381</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">roll</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">),</span> <span class="n">dt</span><span class="p">)))</span>
-</span><span id="Corr-382"><a href="#Corr-382"><span class="linenos"> 382</span></a>
-</span><span id="Corr-383"><a href="#Corr-383"><span class="linenos"> 383</span></a>    <span class="k">def</span> <span class="nf">reverse</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-384"><a href="#Corr-384"><span class="linenos"> 384</span></a>        <span class="sd">&quot;&quot;&quot;Reverse the time ordering of the Corr&quot;&quot;&quot;</span>
-</span><span id="Corr-385"><a href="#Corr-385"><span class="linenos"> 385</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[::</span> <span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr-386"><a href="#Corr-386"><span class="linenos"> 386</span></a>
-</span><span id="Corr-387"><a href="#Corr-387"><span class="linenos"> 387</span></a>    <span class="k">def</span> <span class="nf">thin</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">spacing</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">offset</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span>
-</span><span id="Corr-388"><a href="#Corr-388"><span class="linenos"> 388</span></a>        <span class="sd">&quot;&quot;&quot;Thin out a correlator to suppress correlations</span>
-</span><span id="Corr-389"><a href="#Corr-389"><span class="linenos"> 389</span></a>
-</span><span id="Corr-390"><a href="#Corr-390"><span class="linenos"> 390</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-391"><a href="#Corr-391"><span class="linenos"> 391</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-392"><a href="#Corr-392"><span class="linenos"> 392</span></a><span class="sd">        spacing : int</span>
-</span><span id="Corr-393"><a href="#Corr-393"><span class="linenos"> 393</span></a><span class="sd">            Keep only every &#39;spacing&#39;th entry of the correlator</span>
-</span><span id="Corr-394"><a href="#Corr-394"><span class="linenos"> 394</span></a><span class="sd">        offset : int</span>
-</span><span id="Corr-395"><a href="#Corr-395"><span class="linenos"> 395</span></a><span class="sd">            Offset the equal spacing</span>
-</span><span id="Corr-396"><a href="#Corr-396"><span class="linenos"> 396</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-397"><a href="#Corr-397"><span class="linenos"> 397</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-398"><a href="#Corr-398"><span class="linenos"> 398</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-399"><a href="#Corr-399"><span class="linenos"> 399</span></a>            <span class="k">if</span> <span class="p">(</span><span class="n">offset</span> <span class="o">+</span> <span class="n">t</span><span class="p">)</span> <span class="o">%</span> <span class="n">spacing</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Corr-400"><a href="#Corr-400"><span class="linenos"> 400</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-401"><a href="#Corr-401"><span class="linenos"> 401</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-402"><a href="#Corr-402"><span class="linenos"> 402</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="Corr-403"><a href="#Corr-403"><span class="linenos"> 403</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
-</span><span id="Corr-404"><a href="#Corr-404"><span class="linenos"> 404</span></a>
-</span><span id="Corr-405"><a href="#Corr-405"><span class="linenos"> 405</span></a>    <span class="k">def</span> <span class="nf">correlate</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">partner</span><span class="p">):</span>
-</span><span id="Corr-406"><a href="#Corr-406"><span class="linenos"> 406</span></a>        <span class="sd">&quot;&quot;&quot;Correlate the correlator with another correlator or Obs</span>
-</span><span id="Corr-407"><a href="#Corr-407"><span class="linenos"> 407</span></a>
-</span><span id="Corr-408"><a href="#Corr-408"><span class="linenos"> 408</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-409"><a href="#Corr-409"><span class="linenos"> 409</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-410"><a href="#Corr-410"><span class="linenos"> 410</span></a><span class="sd">        partner : Obs or Corr</span>
-</span><span id="Corr-411"><a href="#Corr-411"><span class="linenos"> 411</span></a><span class="sd">            partner to correlate the correlator with.</span>
-</span><span id="Corr-412"><a href="#Corr-412"><span class="linenos"> 412</span></a><span class="sd">            Can either be an Obs which is correlated with all entries of the</span>
-</span><span id="Corr-413"><a href="#Corr-413"><span class="linenos"> 413</span></a><span class="sd">            correlator or a Corr of same length.</span>
-</span><span id="Corr-414"><a href="#Corr-414"><span class="linenos"> 414</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-415"><a href="#Corr-415"><span class="linenos"> 415</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-416"><a href="#Corr-416"><span class="linenos"> 416</span></a>        <span class="k">for</span> <span class="n">x0</span><span class="p">,</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">):</span>
-</span><span id="Corr-417"><a href="#Corr-417"><span class="linenos"> 417</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-418"><a href="#Corr-418"><span class="linenos"> 418</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-419"><a href="#Corr-419"><span class="linenos"> 419</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-420"><a href="#Corr-420"><span class="linenos"> 420</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="Corr-421"><a href="#Corr-421"><span class="linenos"> 421</span></a>                    <span class="k">if</span> <span class="n">partner</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x0</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-422"><a href="#Corr-422"><span class="linenos"> 422</span></a>                        <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-423"><a href="#Corr-423"><span class="linenos"> 423</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-424"><a href="#Corr-424"><span class="linenos"> 424</span></a>                        <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">correlate</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">partner</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x0</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t_slice</span><span class="p">]))</span>
-</span><span id="Corr-425"><a href="#Corr-425"><span class="linenos"> 425</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>  <span class="c1"># Should this include CObs?</span>
-</span><span id="Corr-426"><a href="#Corr-426"><span class="linenos"> 426</span></a>                    <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">correlate</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">partner</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t_slice</span><span class="p">]))</span>
-</span><span id="Corr-427"><a href="#Corr-427"><span class="linenos"> 427</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-428"><a href="#Corr-428"><span class="linenos"> 428</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only correlate with an Obs or a Corr.&quot;</span><span class="p">)</span>
-</span><span id="Corr-429"><a href="#Corr-429"><span class="linenos"> 429</span></a>
-</span><span id="Corr-430"><a href="#Corr-430"><span class="linenos"> 430</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
-</span><span id="Corr-431"><a href="#Corr-431"><span class="linenos"> 431</span></a>
-</span><span id="Corr-432"><a href="#Corr-432"><span class="linenos"> 432</span></a>    <span class="k">def</span> <span class="nf">reweight</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">weight</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Corr-433"><a href="#Corr-433"><span class="linenos"> 433</span></a>        <span class="sd">&quot;&quot;&quot;Reweight the correlator.</span>
-</span><span id="Corr-434"><a href="#Corr-434"><span class="linenos"> 434</span></a>
-</span><span id="Corr-435"><a href="#Corr-435"><span class="linenos"> 435</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-436"><a href="#Corr-436"><span class="linenos"> 436</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-437"><a href="#Corr-437"><span class="linenos"> 437</span></a><span class="sd">        weight : Obs</span>
-</span><span id="Corr-438"><a href="#Corr-438"><span class="linenos"> 438</span></a><span class="sd">            Reweighting factor. An Observable that has to be defined on a superset of the</span>
-</span><span id="Corr-439"><a href="#Corr-439"><span class="linenos"> 439</span></a><span class="sd">            configurations in obs[i].idl for all i.</span>
-</span><span id="Corr-440"><a href="#Corr-440"><span class="linenos"> 440</span></a><span class="sd">        all_configs : bool</span>
-</span><span id="Corr-441"><a href="#Corr-441"><span class="linenos"> 441</span></a><span class="sd">            if True, the reweighted observables are normalized by the average of</span>
-</span><span id="Corr-442"><a href="#Corr-442"><span class="linenos"> 442</span></a><span class="sd">            the reweighting factor on all configurations in weight.idl and not</span>
-</span><span id="Corr-443"><a href="#Corr-443"><span class="linenos"> 443</span></a><span class="sd">            on the configurations in obs[i].idl.</span>
-</span><span id="Corr-444"><a href="#Corr-444"><span class="linenos"> 444</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-445"><a href="#Corr-445"><span class="linenos"> 445</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-446"><a href="#Corr-446"><span class="linenos"> 446</span></a>        <span class="k">for</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">:</span>
-</span><span id="Corr-447"><a href="#Corr-447"><span class="linenos"> 447</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-448"><a href="#Corr-448"><span class="linenos"> 448</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-449"><a href="#Corr-449"><span class="linenos"> 449</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-450"><a href="#Corr-450"><span class="linenos"> 450</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">reweight</span><span class="p">(</span><span class="n">weight</span><span class="p">,</span> <span class="n">t_slice</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)))</span>
-</span><span id="Corr-451"><a href="#Corr-451"><span class="linenos"> 451</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
-</span><span id="Corr-452"><a href="#Corr-452"><span class="linenos"> 452</span></a>
-</span><span id="Corr-453"><a href="#Corr-453"><span class="linenos"> 453</span></a>    <span class="k">def</span> <span class="nf">T_symmetry</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">partner</span><span class="p">,</span> <span class="n">parity</span><span class="o">=+</span><span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr-454"><a href="#Corr-454"><span class="linenos"> 454</span></a>        <span class="sd">&quot;&quot;&quot;Return the time symmetry average of the correlator and its partner</span>
-</span><span id="Corr-455"><a href="#Corr-455"><span class="linenos"> 455</span></a>
-</span><span id="Corr-456"><a href="#Corr-456"><span class="linenos"> 456</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-457"><a href="#Corr-457"><span class="linenos"> 457</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-458"><a href="#Corr-458"><span class="linenos"> 458</span></a><span class="sd">        partner : Corr</span>
-</span><span id="Corr-459"><a href="#Corr-459"><span class="linenos"> 459</span></a><span class="sd">            Time symmetry partner of the Corr</span>
-</span><span id="Corr-460"><a href="#Corr-460"><span class="linenos"> 460</span></a><span class="sd">        partity : int</span>
-</span><span id="Corr-461"><a href="#Corr-461"><span class="linenos"> 461</span></a><span class="sd">            Parity quantum number of the correlator, can be +1 or -1</span>
-</span><span id="Corr-462"><a href="#Corr-462"><span class="linenos"> 462</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-463"><a href="#Corr-463"><span class="linenos"> 463</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="Corr-464"><a href="#Corr-464"><span class="linenos"> 464</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;T partner has to be a Corr object.&quot;</span><span class="p">)</span>
-</span><span id="Corr-465"><a href="#Corr-465"><span class="linenos"> 465</span></a>        <span class="k">if</span> <span class="n">parity</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="o">+</span><span class="mi">1</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">]:</span>
-</span><span id="Corr-466"><a href="#Corr-466"><span class="linenos"> 466</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Parity has to be +1 or -1.&quot;</span><span class="p">)</span>
-</span><span id="Corr-467"><a href="#Corr-467"><span class="linenos"> 467</span></a>        <span class="n">T_partner</span> <span class="o">=</span> <span class="n">parity</span> <span class="o">*</span> <span class="n">partner</span><span class="o">.</span><span class="n">reverse</span><span class="p">()</span>
-</span><span id="Corr-468"><a href="#Corr-468"><span class="linenos"> 468</span></a>
-</span><span id="Corr-469"><a href="#Corr-469"><span class="linenos"> 469</span></a>        <span class="n">t_slices</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-470"><a href="#Corr-470"><span class="linenos"> 470</span></a>        <span class="n">test</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">T_partner</span><span class="p">)</span>
-</span><span id="Corr-471"><a href="#Corr-471"><span class="linenos"> 471</span></a>        <span class="n">test</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="Corr-472"><a href="#Corr-472"><span class="linenos"> 472</span></a>        <span class="k">for</span> <span class="n">x0</span><span class="p">,</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">test</span><span class="o">.</span><span class="n">content</span><span class="p">):</span>
-</span><span id="Corr-473"><a href="#Corr-473"><span class="linenos"> 473</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-474"><a href="#Corr-474"><span class="linenos"> 474</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">t_slice</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">is_zero_within_error</span><span class="p">(</span><span class="mi">5</span><span class="p">):</span>
-</span><span id="Corr-475"><a href="#Corr-475"><span class="linenos"> 475</span></a>                    <span class="n">t_slices</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span>
-</span><span id="Corr-476"><a href="#Corr-476"><span class="linenos"> 476</span></a>        <span class="k">if</span> <span class="n">t_slices</span><span class="p">:</span>
-</span><span id="Corr-477"><a href="#Corr-477"><span class="linenos"> 477</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;T symmetry partners do not agree within 5 sigma on time slices &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">t_slices</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="Corr-478"><a href="#Corr-478"><span class="linenos"> 478</span></a>
-</span><span id="Corr-479"><a href="#Corr-479"><span class="linenos"> 479</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">+</span> <span class="n">T_partner</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span>
-</span><span id="Corr-480"><a href="#Corr-480"><span class="linenos"> 480</span></a>
-</span><span id="Corr-481"><a href="#Corr-481"><span class="linenos"> 481</span></a>    <span class="k">def</span> <span class="nf">deriv</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s2">&quot;symmetric&quot;</span><span class="p">):</span>
-</span><span id="Corr-482"><a href="#Corr-482"><span class="linenos"> 482</span></a>        <span class="sd">&quot;&quot;&quot;Return the first derivative of the correlator with respect to x0.</span>
-</span><span id="Corr-483"><a href="#Corr-483"><span class="linenos"> 483</span></a>
-</span><span id="Corr-484"><a href="#Corr-484"><span class="linenos"> 484</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-485"><a href="#Corr-485"><span class="linenos"> 485</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-486"><a href="#Corr-486"><span class="linenos"> 486</span></a><span class="sd">        variant : str</span>
-</span><span id="Corr-487"><a href="#Corr-487"><span class="linenos"> 487</span></a><span class="sd">            decides which definition of the finite differences derivative is used.</span>
-</span><span id="Corr-488"><a href="#Corr-488"><span class="linenos"> 488</span></a><span class="sd">            Available choice: symmetric, forward, backward, improved, default: symmetric</span>
-</span><span id="Corr-489"><a href="#Corr-489"><span class="linenos"> 489</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-490"><a href="#Corr-490"><span class="linenos"> 490</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;symmetric&quot;</span><span class="p">:</span>
-</span><span id="Corr-491"><a href="#Corr-491"><span class="linenos"> 491</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-492"><a href="#Corr-492"><span class="linenos"> 492</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr-493"><a href="#Corr-493"><span class="linenos"> 493</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-494"><a href="#Corr-494"><span class="linenos"> 494</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-495"><a href="#Corr-495"><span class="linenos"> 495</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-496"><a href="#Corr-496"><span class="linenos"> 496</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]))</span>
-</span><span id="Corr-497"><a href="#Corr-497"><span class="linenos"> 497</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr-498"><a href="#Corr-498"><span class="linenos"> 498</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Derivative is undefined at all timeslices&#39;</span><span class="p">)</span>
-</span><span id="Corr-499"><a href="#Corr-499"><span class="linenos"> 499</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr-500"><a href="#Corr-500"><span class="linenos"> 500</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;forward&quot;</span><span class="p">:</span>
-</span><span id="Corr-501"><a href="#Corr-501"><span class="linenos"> 501</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-502"><a href="#Corr-502"><span class="linenos"> 502</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr-503"><a href="#Corr-503"><span class="linenos"> 503</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-504"><a href="#Corr-504"><span class="linenos"> 504</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-505"><a href="#Corr-505"><span class="linenos"> 505</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-506"><a href="#Corr-506"><span class="linenos"> 506</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="Corr-507"><a href="#Corr-507"><span class="linenos"> 507</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr-508"><a href="#Corr-508"><span class="linenos"> 508</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="Corr-509"><a href="#Corr-509"><span class="linenos"> 509</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr-510"><a href="#Corr-510"><span class="linenos"> 510</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;backward&quot;</span><span class="p">:</span>
-</span><span id="Corr-511"><a href="#Corr-511"><span class="linenos"> 511</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-512"><a href="#Corr-512"><span class="linenos"> 512</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-513"><a href="#Corr-513"><span class="linenos"> 513</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-514"><a href="#Corr-514"><span class="linenos"> 514</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-515"><a href="#Corr-515"><span class="linenos"> 515</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-516"><a href="#Corr-516"><span class="linenos"> 516</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr-517"><a href="#Corr-517"><span class="linenos"> 517</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr-518"><a href="#Corr-518"><span class="linenos"> 518</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="Corr-519"><a href="#Corr-519"><span class="linenos"> 519</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">])</span>
-</span><span id="Corr-520"><a href="#Corr-520"><span class="linenos"> 520</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;improved&quot;</span><span class="p">:</span>
-</span><span id="Corr-521"><a href="#Corr-521"><span class="linenos"> 521</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-522"><a href="#Corr-522"><span class="linenos"> 522</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="Corr-523"><a href="#Corr-523"><span class="linenos"> 523</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-524"><a href="#Corr-524"><span class="linenos"> 524</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-525"><a href="#Corr-525"><span class="linenos"> 525</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-526"><a href="#Corr-526"><span class="linenos"> 526</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="mi">8</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">8</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]))</span>
-</span><span id="Corr-527"><a href="#Corr-527"><span class="linenos"> 527</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr-528"><a href="#Corr-528"><span class="linenos"> 528</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Derivative is undefined at all timeslices&#39;</span><span class="p">)</span>
-</span><span id="Corr-529"><a href="#Corr-529"><span class="linenos"> 529</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="Corr-530"><a href="#Corr-530"><span class="linenos"> 530</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-531"><a href="#Corr-531"><span class="linenos"> 531</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown variant.&quot;</span><span class="p">)</span>
-</span><span id="Corr-532"><a href="#Corr-532"><span class="linenos"> 532</span></a>
-</span><span id="Corr-533"><a href="#Corr-533"><span class="linenos"> 533</span></a>    <span class="k">def</span> <span class="nf">second_deriv</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s2">&quot;symmetric&quot;</span><span class="p">):</span>
-</span><span id="Corr-534"><a href="#Corr-534"><span class="linenos"> 534</span></a>        <span class="sd">&quot;&quot;&quot;Return the second derivative of the correlator with respect to x0.</span>
-</span><span id="Corr-535"><a href="#Corr-535"><span class="linenos"> 535</span></a>
-</span><span id="Corr-536"><a href="#Corr-536"><span class="linenos"> 536</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-537"><a href="#Corr-537"><span class="linenos"> 537</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-538"><a href="#Corr-538"><span class="linenos"> 538</span></a><span class="sd">        variant : str</span>
-</span><span id="Corr-539"><a href="#Corr-539"><span class="linenos"> 539</span></a><span class="sd">            decides which definition of the finite differences derivative is used.</span>
-</span><span id="Corr-540"><a href="#Corr-540"><span class="linenos"> 540</span></a><span class="sd">            Available choice: symmetric, improved, default: symmetric</span>
-</span><span id="Corr-541"><a href="#Corr-541"><span class="linenos"> 541</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-542"><a href="#Corr-542"><span class="linenos"> 542</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;symmetric&quot;</span><span class="p">:</span>
-</span><span id="Corr-543"><a href="#Corr-543"><span class="linenos"> 543</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-544"><a href="#Corr-544"><span class="linenos"> 544</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr-545"><a href="#Corr-545"><span class="linenos"> 545</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-546"><a href="#Corr-546"><span class="linenos"> 546</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-547"><a href="#Corr-547"><span class="linenos"> 547</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-548"><a href="#Corr-548"><span class="linenos"> 548</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]))</span>
-</span><span id="Corr-549"><a href="#Corr-549"><span class="linenos"> 549</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr-550"><a href="#Corr-550"><span class="linenos"> 550</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="Corr-551"><a href="#Corr-551"><span class="linenos"> 551</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr-552"><a href="#Corr-552"><span class="linenos"> 552</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;improved&quot;</span><span class="p">:</span>
-</span><span id="Corr-553"><a href="#Corr-553"><span class="linenos"> 553</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-554"><a href="#Corr-554"><span class="linenos"> 554</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="Corr-555"><a href="#Corr-555"><span class="linenos"> 555</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-556"><a href="#Corr-556"><span class="linenos"> 556</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-557"><a href="#Corr-557"><span class="linenos"> 557</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-558"><a href="#Corr-558"><span class="linenos"> 558</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="o">+</span> <span class="mi">16</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="mi">30</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="mi">16</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]))</span>
-</span><span id="Corr-559"><a href="#Corr-559"><span class="linenos"> 559</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr-560"><a href="#Corr-560"><span class="linenos"> 560</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="Corr-561"><a href="#Corr-561"><span class="linenos"> 561</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="Corr-562"><a href="#Corr-562"><span class="linenos"> 562</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-563"><a href="#Corr-563"><span class="linenos"> 563</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown variant.&quot;</span><span class="p">)</span>
-</span><span id="Corr-564"><a href="#Corr-564"><span class="linenos"> 564</span></a>
-</span><span id="Corr-565"><a href="#Corr-565"><span class="linenos"> 565</span></a>    <span class="k">def</span> <span class="nf">m_eff</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s1">&#39;log&#39;</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="mf">1.0</span><span class="p">):</span>
-</span><span id="Corr-566"><a href="#Corr-566"><span class="linenos"> 566</span></a>        <span class="sd">&quot;&quot;&quot;Returns the effective mass of the correlator as correlator object</span>
-</span><span id="Corr-567"><a href="#Corr-567"><span class="linenos"> 567</span></a>
-</span><span id="Corr-568"><a href="#Corr-568"><span class="linenos"> 568</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-569"><a href="#Corr-569"><span class="linenos"> 569</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-570"><a href="#Corr-570"><span class="linenos"> 570</span></a><span class="sd">        variant : str</span>
-</span><span id="Corr-571"><a href="#Corr-571"><span class="linenos"> 571</span></a><span class="sd">            log : uses the standard effective mass log(C(t) / C(t+1))</span>
-</span><span id="Corr-572"><a href="#Corr-572"><span class="linenos"> 572</span></a><span class="sd">            cosh, periodic : Use periodicitiy of the correlator by solving C(t) / C(t+1) = cosh(m * (t - T/2)) / cosh(m * (t + 1 - T/2)) for m.</span>
-</span><span id="Corr-573"><a href="#Corr-573"><span class="linenos"> 573</span></a><span class="sd">            sinh : Use anti-periodicitiy of the correlator by solving C(t) / C(t+1) = sinh(m * (t - T/2)) / sinh(m * (t + 1 - T/2)) for m.</span>
-</span><span id="Corr-574"><a href="#Corr-574"><span class="linenos"> 574</span></a><span class="sd">            See, e.g., arXiv:1205.5380</span>
-</span><span id="Corr-575"><a href="#Corr-575"><span class="linenos"> 575</span></a><span class="sd">            arccosh : Uses the explicit form of the symmetrized correlator (not recommended)</span>
-</span><span id="Corr-576"><a href="#Corr-576"><span class="linenos"> 576</span></a><span class="sd">        guess : float</span>
-</span><span id="Corr-577"><a href="#Corr-577"><span class="linenos"> 577</span></a><span class="sd">            guess for the root finder, only relevant for the root variant</span>
-</span><span id="Corr-578"><a href="#Corr-578"><span class="linenos"> 578</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-579"><a href="#Corr-579"><span class="linenos"> 579</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-580"><a href="#Corr-580"><span class="linenos"> 580</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Correlator must be projected before getting m_eff&#39;</span><span class="p">)</span>
-</span><span id="Corr-581"><a href="#Corr-581"><span class="linenos"> 581</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;log&#39;</span><span class="p">:</span>
-</span><span id="Corr-582"><a href="#Corr-582"><span class="linenos"> 582</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-583"><a href="#Corr-583"><span class="linenos"> 583</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr-584"><a href="#Corr-584"><span class="linenos"> 584</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-585"><a href="#Corr-585"><span class="linenos"> 585</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-586"><a href="#Corr-586"><span class="linenos"> 586</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-587"><a href="#Corr-587"><span class="linenos"> 587</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr-588"><a href="#Corr-588"><span class="linenos"> 588</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr-589"><a href="#Corr-589"><span class="linenos"> 589</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;m_eff is undefined at all timeslices&#39;</span><span class="p">)</span>
-</span><span id="Corr-590"><a href="#Corr-590"><span class="linenos"> 590</span></a>
-</span><span id="Corr-591"><a href="#Corr-591"><span class="linenos"> 591</span></a>            <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">]))</span>
-</span><span id="Corr-592"><a href="#Corr-592"><span class="linenos"> 592</span></a>
-</span><span id="Corr-593"><a href="#Corr-593"><span class="linenos"> 593</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;periodic&#39;</span><span class="p">,</span> <span class="s1">&#39;cosh&#39;</span><span class="p">,</span> <span class="s1">&#39;sinh&#39;</span><span class="p">]:</span>
-</span><span id="Corr-594"><a href="#Corr-594"><span class="linenos"> 594</span></a>            <span class="k">if</span> <span class="n">variant</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;periodic&#39;</span><span class="p">,</span> <span class="s1">&#39;cosh&#39;</span><span class="p">]:</span>
-</span><span id="Corr-595"><a href="#Corr-595"><span class="linenos"> 595</span></a>                <span class="n">func</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">cosh</span>
-</span><span id="Corr-596"><a href="#Corr-596"><span class="linenos"> 596</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-597"><a href="#Corr-597"><span class="linenos"> 597</span></a>                <span class="n">func</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sinh</span>
-</span><span id="Corr-598"><a href="#Corr-598"><span class="linenos"> 598</span></a>
-</span><span id="Corr-599"><a href="#Corr-599"><span class="linenos"> 599</span></a>            <span class="k">def</span> <span class="nf">root_function</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">d</span><span class="p">):</span>
-</span><span id="Corr-600"><a href="#Corr-600"><span class="linenos"> 600</span></a>                <span class="k">return</span> <span class="n">func</span><span class="p">(</span><span class="n">x</span> <span class="o">*</span> <span class="p">(</span><span class="n">t</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">))</span> <span class="o">/</span> <span class="n">func</span><span class="p">(</span><span class="n">x</span> <span class="o">*</span> <span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">))</span> <span class="o">-</span> <span class="n">d</span>
-</span><span id="Corr-601"><a href="#Corr-601"><span class="linenos"> 601</span></a>
-</span><span id="Corr-602"><a href="#Corr-602"><span class="linenos"> 602</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-603"><a href="#Corr-603"><span class="linenos"> 603</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr-604"><a href="#Corr-604"><span class="linenos"> 604</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-605"><a href="#Corr-605"><span class="linenos"> 605</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-606"><a href="#Corr-606"><span class="linenos"> 606</span></a>                <span class="c1"># Fill the two timeslices in the middle of the lattice with their predecessors</span>
-</span><span id="Corr-607"><a href="#Corr-607"><span class="linenos"> 607</span></a>                <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;sinh&#39;</span> <span class="ow">and</span> <span class="n">t</span> <span class="ow">in</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]:</span>
-</span><span id="Corr-608"><a href="#Corr-608"><span class="linenos"> 608</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr-609"><a href="#Corr-609"><span class="linenos"> 609</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-610"><a href="#Corr-610"><span class="linenos"> 610</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">find_root</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">root_function</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="n">guess</span><span class="p">)))</span>
-</span><span id="Corr-611"><a href="#Corr-611"><span class="linenos"> 611</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr-612"><a href="#Corr-612"><span class="linenos"> 612</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;m_eff is undefined at all timeslices&#39;</span><span class="p">)</span>
-</span><span id="Corr-613"><a href="#Corr-613"><span class="linenos"> 613</span></a>
-</span><span id="Corr-614"><a href="#Corr-614"><span class="linenos"> 614</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr-615"><a href="#Corr-615"><span class="linenos"> 615</span></a>
-</span><span id="Corr-616"><a href="#Corr-616"><span class="linenos"> 616</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;arccosh&#39;</span><span class="p">:</span>
-</span><span id="Corr-617"><a href="#Corr-617"><span class="linenos"> 617</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-618"><a href="#Corr-618"><span class="linenos"> 618</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr-619"><a href="#Corr-619"><span class="linenos"> 619</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-620"><a href="#Corr-620"><span class="linenos"> 620</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-621"><a href="#Corr-621"><span class="linenos"> 621</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-622"><a href="#Corr-622"><span class="linenos"> 622</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]))</span>
-</span><span id="Corr-623"><a href="#Corr-623"><span class="linenos"> 623</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr-624"><a href="#Corr-624"><span class="linenos"> 624</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;m_eff is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="Corr-625"><a href="#Corr-625"><span class="linenos"> 625</span></a>            <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">arccosh</span><span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">]))</span>
-</span><span id="Corr-626"><a href="#Corr-626"><span class="linenos"> 626</span></a>
-</span><span id="Corr-627"><a href="#Corr-627"><span class="linenos"> 627</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-628"><a href="#Corr-628"><span class="linenos"> 628</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown variant.&#39;</span><span class="p">)</span>
-</span><span id="Corr-629"><a href="#Corr-629"><span class="linenos"> 629</span></a>
-</span><span id="Corr-630"><a href="#Corr-630"><span class="linenos"> 630</span></a>    <span class="k">def</span> <span class="nf">fit</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">function</span><span class="p">,</span> <span class="n">fitrange</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Corr-631"><a href="#Corr-631"><span class="linenos"> 631</span></a>        <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Fits function to the data</span>
-</span><span id="Corr-632"><a href="#Corr-632"><span class="linenos"> 632</span></a>
-</span><span id="Corr-633"><a href="#Corr-633"><span class="linenos"> 633</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-634"><a href="#Corr-634"><span class="linenos"> 634</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-635"><a href="#Corr-635"><span class="linenos"> 635</span></a><span class="sd">        function : obj</span>
-</span><span id="Corr-636"><a href="#Corr-636"><span class="linenos"> 636</span></a><span class="sd">            function to fit to the data. See fits.least_squares for details.</span>
-</span><span id="Corr-637"><a href="#Corr-637"><span class="linenos"> 637</span></a><span class="sd">        fitrange : list</span>
-</span><span id="Corr-638"><a href="#Corr-638"><span class="linenos"> 638</span></a><span class="sd">            Two element list containing the timeslices on which the fit is supposed to start and stop.</span>
-</span><span id="Corr-639"><a href="#Corr-639"><span class="linenos"> 639</span></a><span class="sd">            Caution: This range is inclusive as opposed to standard python indexing.</span>
-</span><span id="Corr-640"><a href="#Corr-640"><span class="linenos"> 640</span></a><span class="sd">            `fitrange=[4, 6]` corresponds to the three entries 4, 5 and 6.</span>
-</span><span id="Corr-641"><a href="#Corr-641"><span class="linenos"> 641</span></a><span class="sd">            If not specified, self.prange or all timeslices are used.</span>
-</span><span id="Corr-642"><a href="#Corr-642"><span class="linenos"> 642</span></a><span class="sd">        silent : bool</span>
-</span><span id="Corr-643"><a href="#Corr-643"><span class="linenos"> 643</span></a><span class="sd">            Decides whether output is printed to the standard output.</span>
-</span><span id="Corr-644"><a href="#Corr-644"><span class="linenos"> 644</span></a><span class="sd">        &#39;&#39;&#39;</span>
-</span><span id="Corr-645"><a href="#Corr-645"><span class="linenos"> 645</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-646"><a href="#Corr-646"><span class="linenos"> 646</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before fitting&quot;</span><span class="p">)</span>
-</span><span id="Corr-647"><a href="#Corr-647"><span class="linenos"> 647</span></a>
-</span><span id="Corr-648"><a href="#Corr-648"><span class="linenos"> 648</span></a>        <span class="k">if</span> <span class="n">fitrange</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-649"><a href="#Corr-649"><span class="linenos"> 649</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
-</span><span id="Corr-650"><a href="#Corr-650"><span class="linenos"> 650</span></a>                <span class="n">fitrange</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span>
-</span><span id="Corr-651"><a href="#Corr-651"><span class="linenos"> 651</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-652"><a href="#Corr-652"><span class="linenos"> 652</span></a>                <span class="n">fitrange</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
-</span><span id="Corr-653"><a href="#Corr-653"><span class="linenos"> 653</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-654"><a href="#Corr-654"><span class="linenos"> 654</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">fitrange</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="Corr-655"><a href="#Corr-655"><span class="linenos"> 655</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;fitrange has to be a list with two elements&quot;</span><span class="p">)</span>
-</span><span id="Corr-656"><a href="#Corr-656"><span class="linenos"> 656</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">fitrange</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="Corr-657"><a href="#Corr-657"><span class="linenos"> 657</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;fitrange has to have exactly two elements [fit_start, fit_stop]&quot;</span><span class="p">)</span>
-</span><span id="Corr-658"><a href="#Corr-658"><span class="linenos"> 658</span></a>
-</span><span id="Corr-659"><a href="#Corr-659"><span class="linenos"> 659</span></a>        <span class="n">xs</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">fitrange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">fitrange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="Corr-660"><a href="#Corr-660"><span class="linenos"> 660</span></a>        <span class="n">ys</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">fitrange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">fitrange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="Corr-661"><a href="#Corr-661"><span class="linenos"> 661</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">least_squares</span><span class="p">(</span><span class="n">xs</span><span class="p">,</span> <span class="n">ys</span><span class="p">,</span> <span class="n">function</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="Corr-662"><a href="#Corr-662"><span class="linenos"> 662</span></a>        <span class="k">return</span> <span class="n">result</span>
-</span><span id="Corr-663"><a href="#Corr-663"><span class="linenos"> 663</span></a>
-</span><span id="Corr-664"><a href="#Corr-664"><span class="linenos"> 664</span></a>    <span class="k">def</span> <span class="nf">plateau</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">plateau_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">method</span><span class="o">=</span><span class="s2">&quot;fit&quot;</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="Corr-665"><a href="#Corr-665"><span class="linenos"> 665</span></a>        <span class="sd">&quot;&quot;&quot; Extract a plateau value from a Corr object</span>
-</span><span id="Corr-666"><a href="#Corr-666"><span class="linenos"> 666</span></a>
-</span><span id="Corr-667"><a href="#Corr-667"><span class="linenos"> 667</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-668"><a href="#Corr-668"><span class="linenos"> 668</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-669"><a href="#Corr-669"><span class="linenos"> 669</span></a><span class="sd">        plateau_range : list</span>
-</span><span id="Corr-670"><a href="#Corr-670"><span class="linenos"> 670</span></a><span class="sd">            list with two entries, indicating the first and the last timeslice</span>
-</span><span id="Corr-671"><a href="#Corr-671"><span class="linenos"> 671</span></a><span class="sd">            of the plateau region.</span>
-</span><span id="Corr-672"><a href="#Corr-672"><span class="linenos"> 672</span></a><span class="sd">        method : str</span>
-</span><span id="Corr-673"><a href="#Corr-673"><span class="linenos"> 673</span></a><span class="sd">            method to extract the plateau.</span>
-</span><span id="Corr-674"><a href="#Corr-674"><span class="linenos"> 674</span></a><span class="sd">                &#39;fit&#39; fits a constant to the plateau region</span>
-</span><span id="Corr-675"><a href="#Corr-675"><span class="linenos"> 675</span></a><span class="sd">                &#39;avg&#39;, &#39;average&#39; or &#39;mean&#39; just average over the given timeslices.</span>
-</span><span id="Corr-676"><a href="#Corr-676"><span class="linenos"> 676</span></a><span class="sd">        auto_gamma : bool</span>
-</span><span id="Corr-677"><a href="#Corr-677"><span class="linenos"> 677</span></a><span class="sd">            apply gamma_method with default parameters to the Corr. Defaults to None</span>
-</span><span id="Corr-678"><a href="#Corr-678"><span class="linenos"> 678</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-679"><a href="#Corr-679"><span class="linenos"> 679</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">plateau_range</span><span class="p">:</span>
-</span><span id="Corr-680"><a href="#Corr-680"><span class="linenos"> 680</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
-</span><span id="Corr-681"><a href="#Corr-681"><span class="linenos"> 681</span></a>                <span class="n">plateau_range</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span>
-</span><span id="Corr-682"><a href="#Corr-682"><span class="linenos"> 682</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-683"><a href="#Corr-683"><span class="linenos"> 683</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;no plateau range provided&quot;</span><span class="p">)</span>
-</span><span id="Corr-684"><a href="#Corr-684"><span class="linenos"> 684</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-685"><a href="#Corr-685"><span class="linenos"> 685</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before getting a plateau.&quot;</span><span class="p">)</span>
-</span><span id="Corr-686"><a href="#Corr-686"><span class="linenos"> 686</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">plateau_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)])):</span>
-</span><span id="Corr-687"><a href="#Corr-687"><span class="linenos"> 687</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;plateau is undefined at all timeslices in plateaurange.&quot;</span><span class="p">)</span>
-</span><span id="Corr-688"><a href="#Corr-688"><span class="linenos"> 688</span></a>        <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
-</span><span id="Corr-689"><a href="#Corr-689"><span class="linenos"> 689</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="Corr-690"><a href="#Corr-690"><span class="linenos"> 690</span></a>        <span class="k">if</span> <span class="n">method</span> <span class="o">==</span> <span class="s2">&quot;fit&quot;</span><span class="p">:</span>
-</span><span id="Corr-691"><a href="#Corr-691"><span class="linenos"> 691</span></a>            <span class="k">def</span> <span class="nf">const_func</span><span class="p">(</span><span class="n">a</span><span class="p">,</span> <span class="n">t</span><span class="p">):</span>
-</span><span id="Corr-692"><a href="#Corr-692"><span class="linenos"> 692</span></a>                <span class="k">return</span> <span class="n">a</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr-693"><a href="#Corr-693"><span class="linenos"> 693</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit</span><span class="p">(</span><span class="n">const_func</span><span class="p">,</span> <span class="n">plateau_range</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr-694"><a href="#Corr-694"><span class="linenos"> 694</span></a>        <span class="k">elif</span> <span class="n">method</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;avg&quot;</span><span class="p">,</span> <span class="s2">&quot;average&quot;</span><span class="p">,</span> <span class="s2">&quot;mean&quot;</span><span class="p">]:</span>
-</span><span id="Corr-695"><a href="#Corr-695"><span class="linenos"> 695</span></a>            <span class="n">returnvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">([</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="n">item</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span>
-</span><span id="Corr-696"><a href="#Corr-696"><span class="linenos"> 696</span></a>            <span class="k">return</span> <span class="n">returnvalue</span>
-</span><span id="Corr-697"><a href="#Corr-697"><span class="linenos"> 697</span></a>
-</span><span id="Corr-698"><a href="#Corr-698"><span class="linenos"> 698</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-699"><a href="#Corr-699"><span class="linenos"> 699</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsupported plateau method: &quot;</span> <span class="o">+</span> <span class="n">method</span><span class="p">)</span>
-</span><span id="Corr-700"><a href="#Corr-700"><span class="linenos"> 700</span></a>
-</span><span id="Corr-701"><a href="#Corr-701"><span class="linenos"> 701</span></a>    <span class="k">def</span> <span class="nf">set_prange</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">prange</span><span class="p">):</span>
-</span><span id="Corr-702"><a href="#Corr-702"><span class="linenos"> 702</span></a>        <span class="sd">&quot;&quot;&quot;Sets the attribute prange of the Corr object.&quot;&quot;&quot;</span>
-</span><span id="Corr-703"><a href="#Corr-703"><span class="linenos"> 703</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">prange</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="Corr-704"><a href="#Corr-704"><span class="linenos"> 704</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;prange must be a list or array with two values&quot;</span><span class="p">)</span>
-</span><span id="Corr-705"><a href="#Corr-705"><span class="linenos"> 705</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">((</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">int</span><span class="p">))</span> <span class="ow">and</span> <span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="nb">int</span><span class="p">))):</span>
-</span><span id="Corr-706"><a href="#Corr-706"><span class="linenos"> 706</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Start and end point must be integers&quot;</span><span class="p">)</span>
-</span><span id="Corr-707"><a href="#Corr-707"><span class="linenos"> 707</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="mi">0</span> <span class="o">&lt;=</span> <span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="ow">and</span> <span class="mi">0</span> <span class="o">&lt;=</span> <span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="ow">and</span> <span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&lt;</span> <span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="Corr-708"><a href="#Corr-708"><span class="linenos"> 708</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Start and end point must define a range in the interval 0,T&quot;</span><span class="p">)</span>
-</span><span id="Corr-709"><a href="#Corr-709"><span class="linenos"> 709</span></a>
-</span><span id="Corr-710"><a href="#Corr-710"><span class="linenos"> 710</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">prange</span>
-</span><span id="Corr-711"><a href="#Corr-711"><span class="linenos"> 711</span></a>        <span class="k">return</span>
-</span><span id="Corr-712"><a href="#Corr-712"><span class="linenos"> 712</span></a>
-</span><span id="Corr-713"><a href="#Corr-713"><span class="linenos"> 713</span></a>    <span class="k">def</span> <span class="nf">show</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">comp</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">y_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">logscale</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">plateau</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">fit_res</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">ylabel</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">hide_sigma</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">references</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-714"><a href="#Corr-714"><span class="linenos"> 714</span></a>        <span class="sd">&quot;&quot;&quot;Plots the correlator using the tag of the correlator as label if available.</span>
-</span><span id="Corr-715"><a href="#Corr-715"><span class="linenos"> 715</span></a>
-</span><span id="Corr-716"><a href="#Corr-716"><span class="linenos"> 716</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-717"><a href="#Corr-717"><span class="linenos"> 717</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-718"><a href="#Corr-718"><span class="linenos"> 718</span></a><span class="sd">        x_range : list</span>
-</span><span id="Corr-719"><a href="#Corr-719"><span class="linenos"> 719</span></a><span class="sd">            list of two values, determining the range of the x-axis e.g. [4, 8]</span>
-</span><span id="Corr-720"><a href="#Corr-720"><span class="linenos"> 720</span></a><span class="sd">        comp : Corr or list of Corr</span>
-</span><span id="Corr-721"><a href="#Corr-721"><span class="linenos"> 721</span></a><span class="sd">            Correlator or list of correlators which are plotted for comparison.</span>
-</span><span id="Corr-722"><a href="#Corr-722"><span class="linenos"> 722</span></a><span class="sd">            The tags of these correlators are used as labels if available.</span>
-</span><span id="Corr-723"><a href="#Corr-723"><span class="linenos"> 723</span></a><span class="sd">        logscale : bool</span>
-</span><span id="Corr-724"><a href="#Corr-724"><span class="linenos"> 724</span></a><span class="sd">            Sets y-axis to logscale</span>
-</span><span id="Corr-725"><a href="#Corr-725"><span class="linenos"> 725</span></a><span class="sd">        plateau : Obs</span>
-</span><span id="Corr-726"><a href="#Corr-726"><span class="linenos"> 726</span></a><span class="sd">            Plateau value to be visualized in the figure</span>
-</span><span id="Corr-727"><a href="#Corr-727"><span class="linenos"> 727</span></a><span class="sd">        fit_res : Fit_result</span>
-</span><span id="Corr-728"><a href="#Corr-728"><span class="linenos"> 728</span></a><span class="sd">            Fit_result object to be visualized</span>
-</span><span id="Corr-729"><a href="#Corr-729"><span class="linenos"> 729</span></a><span class="sd">        ylabel : str</span>
-</span><span id="Corr-730"><a href="#Corr-730"><span class="linenos"> 730</span></a><span class="sd">            Label for the y-axis</span>
-</span><span id="Corr-731"><a href="#Corr-731"><span class="linenos"> 731</span></a><span class="sd">        save : str</span>
-</span><span id="Corr-732"><a href="#Corr-732"><span class="linenos"> 732</span></a><span class="sd">            path to file in which the figure should be saved</span>
-</span><span id="Corr-733"><a href="#Corr-733"><span class="linenos"> 733</span></a><span class="sd">        auto_gamma : bool</span>
-</span><span id="Corr-734"><a href="#Corr-734"><span class="linenos"> 734</span></a><span class="sd">            Apply the gamma method with standard parameters to all correlators and plateau values before plotting.</span>
-</span><span id="Corr-735"><a href="#Corr-735"><span class="linenos"> 735</span></a><span class="sd">        hide_sigma : float</span>
-</span><span id="Corr-736"><a href="#Corr-736"><span class="linenos"> 736</span></a><span class="sd">            Hides data points from the first value on which is consistent with zero within &#39;hide_sigma&#39; standard errors.</span>
-</span><span id="Corr-737"><a href="#Corr-737"><span class="linenos"> 737</span></a><span class="sd">        references : list</span>
-</span><span id="Corr-738"><a href="#Corr-738"><span class="linenos"> 738</span></a><span class="sd">            List of floating point values that are displayed as horizontal lines for reference.</span>
-</span><span id="Corr-739"><a href="#Corr-739"><span class="linenos"> 739</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-740"><a href="#Corr-740"><span class="linenos"> 740</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-741"><a href="#Corr-741"><span class="linenos"> 741</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before plotting&quot;</span><span class="p">)</span>
-</span><span id="Corr-742"><a href="#Corr-742"><span class="linenos"> 742</span></a>
-</span><span id="Corr-743"><a href="#Corr-743"><span class="linenos"> 743</span></a>        <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
-</span><span id="Corr-744"><a href="#Corr-744"><span class="linenos"> 744</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="Corr-745"><a href="#Corr-745"><span class="linenos"> 745</span></a>
-</span><span id="Corr-746"><a href="#Corr-746"><span class="linenos"> 746</span></a>        <span class="k">if</span> <span class="n">x_range</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-747"><a href="#Corr-747"><span class="linenos"> 747</span></a>            <span class="n">x_range</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
-</span><span id="Corr-748"><a href="#Corr-748"><span class="linenos"> 748</span></a>
-</span><span id="Corr-749"><a href="#Corr-749"><span class="linenos"> 749</span></a>        <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="Corr-750"><a href="#Corr-750"><span class="linenos"> 750</span></a>        <span class="n">ax1</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">111</span><span class="p">)</span>
-</span><span id="Corr-751"><a href="#Corr-751"><span class="linenos"> 751</span></a>
-</span><span id="Corr-752"><a href="#Corr-752"><span class="linenos"> 752</span></a>        <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">y_err</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">plottable</span><span class="p">()</span>
-</span><span id="Corr-753"><a href="#Corr-753"><span class="linenos"> 753</span></a>        <span class="k">if</span> <span class="n">hide_sigma</span><span class="p">:</span>
-</span><span id="Corr-754"><a href="#Corr-754"><span class="linenos"> 754</span></a>            <span class="n">hide_from</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">((</span><span class="n">hide_sigma</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">y_err</span><span class="p">))</span> <span class="o">&gt;</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="Corr-755"><a href="#Corr-755"><span class="linenos"> 755</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-756"><a href="#Corr-756"><span class="linenos"> 756</span></a>            <span class="n">hide_from</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="Corr-757"><a href="#Corr-757"><span class="linenos"> 757</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y_err</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">label</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
-</span><span id="Corr-758"><a href="#Corr-758"><span class="linenos"> 758</span></a>        <span class="k">if</span> <span class="n">logscale</span><span class="p">:</span>
-</span><span id="Corr-759"><a href="#Corr-759"><span class="linenos"> 759</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">set_yscale</span><span class="p">(</span><span class="s1">&#39;log&#39;</span><span class="p">)</span>
-</span><span id="Corr-760"><a href="#Corr-760"><span class="linenos"> 760</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-761"><a href="#Corr-761"><span class="linenos"> 761</span></a>            <span class="k">if</span> <span class="n">y_range</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-762"><a href="#Corr-762"><span class="linenos"> 762</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="Corr-763"><a href="#Corr-763"><span class="linenos"> 763</span></a>                    <span class="n">y_min</span> <span class="o">=</span> <span class="nb">min</span><span class="p">([(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="p">(</span><span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">and</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">&lt;</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="Corr-764"><a href="#Corr-764"><span class="linenos"> 764</span></a>                    <span class="n">y_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="p">(</span><span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">and</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">&lt;</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="Corr-765"><a href="#Corr-765"><span class="linenos"> 765</span></a>                    <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">([</span><span class="n">y_min</span> <span class="o">-</span> <span class="mf">0.1</span> <span class="o">*</span> <span class="p">(</span><span class="n">y_max</span> <span class="o">-</span> <span class="n">y_min</span><span class="p">),</span> <span class="n">y_max</span> <span class="o">+</span> <span class="mf">0.1</span> <span class="o">*</span> <span class="p">(</span><span class="n">y_max</span> <span class="o">-</span> <span class="n">y_min</span><span class="p">)])</span>
-</span><span id="Corr-766"><a href="#Corr-766"><span class="linenos"> 766</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="Corr-767"><a href="#Corr-767"><span class="linenos"> 767</span></a>                    <span class="k">pass</span>
-</span><span id="Corr-768"><a href="#Corr-768"><span class="linenos"> 768</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-769"><a href="#Corr-769"><span class="linenos"> 769</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">(</span><span class="n">y_range</span><span class="p">)</span>
-</span><span id="Corr-770"><a href="#Corr-770"><span class="linenos"> 770</span></a>        <span class="k">if</span> <span class="n">comp</span><span class="p">:</span>
-</span><span id="Corr-771"><a href="#Corr-771"><span class="linenos"> 771</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">comp</span><span class="p">,</span> <span class="p">(</span><span class="n">Corr</span><span class="p">,</span> <span class="nb">list</span><span class="p">)):</span>
-</span><span id="Corr-772"><a href="#Corr-772"><span class="linenos"> 772</span></a>                <span class="k">for</span> <span class="n">corr</span> <span class="ow">in</span> <span class="n">comp</span> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">comp</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="k">else</span> <span class="p">[</span><span class="n">comp</span><span class="p">]:</span>
-</span><span id="Corr-773"><a href="#Corr-773"><span class="linenos"> 773</span></a>                    <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
-</span><span id="Corr-774"><a href="#Corr-774"><span class="linenos"> 774</span></a>                        <span class="n">corr</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="Corr-775"><a href="#Corr-775"><span class="linenos"> 775</span></a>                    <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">y_err</span> <span class="o">=</span> <span class="n">corr</span><span class="o">.</span><span class="n">plottable</span><span class="p">()</span>
-</span><span id="Corr-776"><a href="#Corr-776"><span class="linenos"> 776</span></a>                    <span class="k">if</span> <span class="n">hide_sigma</span><span class="p">:</span>
-</span><span id="Corr-777"><a href="#Corr-777"><span class="linenos"> 777</span></a>                        <span class="n">hide_from</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">((</span><span class="n">hide_sigma</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">y_err</span><span class="p">))</span> <span class="o">&gt;</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="Corr-778"><a href="#Corr-778"><span class="linenos"> 778</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-779"><a href="#Corr-779"><span class="linenos"> 779</span></a>                        <span class="n">hide_from</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="Corr-780"><a href="#Corr-780"><span class="linenos"> 780</span></a>                    <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y_err</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">label</span><span class="o">=</span><span class="n">corr</span><span class="o">.</span><span class="n">tag</span><span class="p">,</span> <span class="n">mfc</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;axes.facecolor&#39;</span><span class="p">])</span>
-</span><span id="Corr-781"><a href="#Corr-781"><span class="linenos"> 781</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-782"><a href="#Corr-782"><span class="linenos"> 782</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;comp&#39; must be a correlator or a list of correlators.&quot;</span><span class="p">)</span>
-</span><span id="Corr-783"><a href="#Corr-783"><span class="linenos"> 783</span></a>
-</span><span id="Corr-784"><a href="#Corr-784"><span class="linenos"> 784</span></a>        <span class="k">if</span> <span class="n">plateau</span><span class="p">:</span>
-</span><span id="Corr-785"><a href="#Corr-785"><span class="linenos"> 785</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">plateau</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="Corr-786"><a href="#Corr-786"><span class="linenos"> 786</span></a>                <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
-</span><span id="Corr-787"><a href="#Corr-787"><span class="linenos"> 787</span></a>                    <span class="n">plateau</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="Corr-788"><a href="#Corr-788"><span class="linenos"> 788</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="n">plateau</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="nb">str</span><span class="p">(</span><span class="n">plateau</span><span class="p">))</span>
-</span><span id="Corr-789"><a href="#Corr-789"><span class="linenos"> 789</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">axhspan</span><span class="p">(</span><span class="n">plateau</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">plateau</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">plateau</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">plateau</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.25</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">)</span>
-</span><span id="Corr-790"><a href="#Corr-790"><span class="linenos"> 790</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-791"><a href="#Corr-791"><span class="linenos"> 791</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;plateau&#39; must be an Obs&quot;</span><span class="p">)</span>
-</span><span id="Corr-792"><a href="#Corr-792"><span class="linenos"> 792</span></a>
-</span><span id="Corr-793"><a href="#Corr-793"><span class="linenos"> 793</span></a>        <span class="k">if</span> <span class="n">references</span><span class="p">:</span>
-</span><span id="Corr-794"><a href="#Corr-794"><span class="linenos"> 794</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">references</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="Corr-795"><a href="#Corr-795"><span class="linenos"> 795</span></a>                <span class="k">for</span> <span class="n">ref</span> <span class="ow">in</span> <span class="n">references</span><span class="p">:</span>
-</span><span id="Corr-796"><a href="#Corr-796"><span class="linenos"> 796</span></a>                    <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="n">ref</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">)</span>
-</span><span id="Corr-797"><a href="#Corr-797"><span class="linenos"> 797</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-798"><a href="#Corr-798"><span class="linenos"> 798</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;references&#39; must be a list of floating pint values.&quot;</span><span class="p">)</span>
-</span><span id="Corr-799"><a href="#Corr-799"><span class="linenos"> 799</span></a>
-</span><span id="Corr-800"><a href="#Corr-800"><span class="linenos"> 800</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
-</span><span id="Corr-801"><a href="#Corr-801"><span class="linenos"> 801</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="Corr-802"><a href="#Corr-802"><span class="linenos"> 802</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="Corr-803"><a href="#Corr-803"><span class="linenos"> 803</span></a>
-</span><span id="Corr-804"><a href="#Corr-804"><span class="linenos"> 804</span></a>        <span class="k">if</span> <span class="n">fit_res</span><span class="p">:</span>
-</span><span id="Corr-805"><a href="#Corr-805"><span class="linenos"> 805</span></a>            <span class="n">x_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mf">0.05</span><span class="p">)</span>
-</span><span id="Corr-806"><a href="#Corr-806"><span class="linenos"> 806</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span>
-</span><span id="Corr-807"><a href="#Corr-807"><span class="linenos"> 807</span></a>                     <span class="n">fit_res</span><span class="o">.</span><span class="n">fit_function</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">],</span> <span class="n">x_samples</span><span class="p">),</span>
-</span><span id="Corr-808"><a href="#Corr-808"><span class="linenos"> 808</span></a>                     <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
-</span><span id="Corr-809"><a href="#Corr-809"><span class="linenos"> 809</span></a>
-</span><span id="Corr-810"><a href="#Corr-810"><span class="linenos"> 810</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$x_0 / a$&#39;</span><span class="p">)</span>
-</span><span id="Corr-811"><a href="#Corr-811"><span class="linenos"> 811</span></a>        <span class="k">if</span> <span class="n">ylabel</span><span class="p">:</span>
-</span><span id="Corr-812"><a href="#Corr-812"><span class="linenos"> 812</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="n">ylabel</span><span class="p">)</span>
-</span><span id="Corr-813"><a href="#Corr-813"><span class="linenos"> 813</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">,</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">])</span>
-</span><span id="Corr-814"><a href="#Corr-814"><span class="linenos"> 814</span></a>
-</span><span id="Corr-815"><a href="#Corr-815"><span class="linenos"> 815</span></a>        <span class="n">handles</span><span class="p">,</span> <span class="n">labels</span> <span class="o">=</span> <span class="n">ax1</span><span class="o">.</span><span class="n">get_legend_handles_labels</span><span class="p">()</span>
-</span><span id="Corr-816"><a href="#Corr-816"><span class="linenos"> 816</span></a>        <span class="k">if</span> <span class="n">labels</span><span class="p">:</span>
-</span><span id="Corr-817"><a href="#Corr-817"><span class="linenos"> 817</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
-</span><span id="Corr-818"><a href="#Corr-818"><span class="linenos"> 818</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="Corr-819"><a href="#Corr-819"><span class="linenos"> 819</span></a>
-</span><span id="Corr-820"><a href="#Corr-820"><span class="linenos"> 820</span></a>        <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
-</span><span id="Corr-821"><a href="#Corr-821"><span class="linenos"> 821</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">save</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="Corr-822"><a href="#Corr-822"><span class="linenos"> 822</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span><span class="p">)</span>
-</span><span id="Corr-823"><a href="#Corr-823"><span class="linenos"> 823</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-824"><a href="#Corr-824"><span class="linenos"> 824</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;save&#39; has to be a string.&quot;</span><span class="p">)</span>
-</span><span id="Corr-825"><a href="#Corr-825"><span class="linenos"> 825</span></a>
-</span><span id="Corr-826"><a href="#Corr-826"><span class="linenos"> 826</span></a>    <span class="k">def</span> <span class="nf">spaghetti_plot</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">logscale</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="Corr-827"><a href="#Corr-827"><span class="linenos"> 827</span></a>        <span class="sd">&quot;&quot;&quot;Produces a spaghetti plot of the correlator suited to monitor exceptional configurations.</span>
-</span><span id="Corr-828"><a href="#Corr-828"><span class="linenos"> 828</span></a>
-</span><span id="Corr-829"><a href="#Corr-829"><span class="linenos"> 829</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-830"><a href="#Corr-830"><span class="linenos"> 830</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-831"><a href="#Corr-831"><span class="linenos"> 831</span></a><span class="sd">        logscale : bool</span>
-</span><span id="Corr-832"><a href="#Corr-832"><span class="linenos"> 832</span></a><span class="sd">            Determines whether the scale of the y-axis is logarithmic or standard.</span>
-</span><span id="Corr-833"><a href="#Corr-833"><span class="linenos"> 833</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-834"><a href="#Corr-834"><span class="linenos"> 834</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-835"><a href="#Corr-835"><span class="linenos"> 835</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator needs to be projected first.&quot;</span><span class="p">)</span>
-</span><span id="Corr-836"><a href="#Corr-836"><span class="linenos"> 836</span></a>
-</span><span id="Corr-837"><a href="#Corr-837"><span class="linenos"> 837</span></a>        <span class="n">mc_names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">mc_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]))</span>
-</span><span id="Corr-838"><a href="#Corr-838"><span class="linenos"> 838</span></a>        <span class="n">x0_vals</span> <span class="o">=</span> <span class="p">[</span><span class="n">n</span> <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">o</span><span class="p">)</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="Corr-839"><a href="#Corr-839"><span class="linenos"> 839</span></a>
-</span><span id="Corr-840"><a href="#Corr-840"><span class="linenos"> 840</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
-</span><span id="Corr-841"><a href="#Corr-841"><span class="linenos"> 841</span></a>            <span class="n">data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span><span class="o">.</span><span class="n">T</span>
-</span><span id="Corr-842"><a href="#Corr-842"><span class="linenos"> 842</span></a>
-</span><span id="Corr-843"><a href="#Corr-843"><span class="linenos"> 843</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="Corr-844"><a href="#Corr-844"><span class="linenos"> 844</span></a>            <span class="n">ax</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">111</span><span class="p">)</span>
-</span><span id="Corr-845"><a href="#Corr-845"><span class="linenos"> 845</span></a>            <span class="k">for</span> <span class="n">dat</span> <span class="ow">in</span> <span class="n">data</span><span class="p">:</span>
-</span><span id="Corr-846"><a href="#Corr-846"><span class="linenos"> 846</span></a>                <span class="n">ax</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x0_vals</span><span class="p">,</span> <span class="n">dat</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="Corr-847"><a href="#Corr-847"><span class="linenos"> 847</span></a>
-</span><span id="Corr-848"><a href="#Corr-848"><span class="linenos"> 848</span></a>            <span class="k">if</span> <span class="n">logscale</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="Corr-849"><a href="#Corr-849"><span class="linenos"> 849</span></a>                <span class="n">ax</span><span class="o">.</span><span class="n">set_yscale</span><span class="p">(</span><span class="s1">&#39;log&#39;</span><span class="p">)</span>
-</span><span id="Corr-850"><a href="#Corr-850"><span class="linenos"> 850</span></a>
-</span><span id="Corr-851"><a href="#Corr-851"><span class="linenos"> 851</span></a>            <span class="n">ax</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$x_0 / a$&#39;</span><span class="p">)</span>
-</span><span id="Corr-852"><a href="#Corr-852"><span class="linenos"> 852</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="Corr-853"><a href="#Corr-853"><span class="linenos"> 853</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="Corr-854"><a href="#Corr-854"><span class="linenos"> 854</span></a>
-</span><span id="Corr-855"><a href="#Corr-855"><span class="linenos"> 855</span></a>    <span class="k">def</span> <span class="nf">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="n">datatype</span><span class="o">=</span><span class="s2">&quot;json.gz&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Corr-856"><a href="#Corr-856"><span class="linenos"> 856</span></a>        <span class="sd">&quot;&quot;&quot;Dumps the Corr into a file of chosen type</span>
-</span><span id="Corr-857"><a href="#Corr-857"><span class="linenos"> 857</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-858"><a href="#Corr-858"><span class="linenos"> 858</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-859"><a href="#Corr-859"><span class="linenos"> 859</span></a><span class="sd">        filename : str</span>
-</span><span id="Corr-860"><a href="#Corr-860"><span class="linenos"> 860</span></a><span class="sd">            Name of the file to be saved.</span>
-</span><span id="Corr-861"><a href="#Corr-861"><span class="linenos"> 861</span></a><span class="sd">        datatype : str</span>
-</span><span id="Corr-862"><a href="#Corr-862"><span class="linenos"> 862</span></a><span class="sd">            Format of the exported file. Supported formats include</span>
-</span><span id="Corr-863"><a href="#Corr-863"><span class="linenos"> 863</span></a><span class="sd">            &quot;json.gz&quot; and &quot;pickle&quot;</span>
-</span><span id="Corr-864"><a href="#Corr-864"><span class="linenos"> 864</span></a><span class="sd">        path : str</span>
-</span><span id="Corr-865"><a href="#Corr-865"><span class="linenos"> 865</span></a><span class="sd">            specifies a custom path for the file (default &#39;.&#39;)</span>
-</span><span id="Corr-866"><a href="#Corr-866"><span class="linenos"> 866</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr-867"><a href="#Corr-867"><span class="linenos"> 867</span></a>        <span class="k">if</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;json.gz&quot;</span><span class="p">:</span>
-</span><span id="Corr-868"><a href="#Corr-868"><span class="linenos"> 868</span></a>            <span class="kn">from</span> <span class="nn">.input.json</span> <span class="kn">import</span> <span class="n">dump_to_json</span>
-</span><span id="Corr-869"><a href="#Corr-869"><span class="linenos"> 869</span></a>            <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="Corr-870"><a href="#Corr-870"><span class="linenos"> 870</span></a>                <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">filename</span>
-</span><span id="Corr-871"><a href="#Corr-871"><span class="linenos"> 871</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-872"><a href="#Corr-872"><span class="linenos"> 872</span></a>                <span class="n">file_name</span> <span class="o">=</span> <span class="n">filename</span>
-</span><span id="Corr-873"><a href="#Corr-873"><span class="linenos"> 873</span></a>            <span class="n">dump_to_json</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">file_name</span><span class="p">)</span>
-</span><span id="Corr-874"><a href="#Corr-874"><span class="linenos"> 874</span></a>        <span class="k">elif</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;pickle&quot;</span><span class="p">:</span>
-</span><span id="Corr-875"><a href="#Corr-875"><span class="linenos"> 875</span></a>            <span class="n">dump_object</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="Corr-876"><a href="#Corr-876"><span class="linenos"> 876</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-877"><a href="#Corr-877"><span class="linenos"> 877</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown datatype &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">datatype</span><span class="p">))</span>
-</span><span id="Corr-878"><a href="#Corr-878"><span class="linenos"> 878</span></a>
-</span><span id="Corr-879"><a href="#Corr-879"><span class="linenos"> 879</span></a>    <span class="k">def</span> <span class="nf">print</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="nb">range</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="kc">None</span><span class="p">]):</span>
-</span><span id="Corr-880"><a href="#Corr-880"><span class="linenos"> 880</span></a>        <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="fm">__repr__</span><span class="p">(</span><span class="nb">range</span><span class="p">))</span>
-</span><span id="Corr-881"><a href="#Corr-881"><span class="linenos"> 881</span></a>
-</span><span id="Corr-882"><a href="#Corr-882"><span class="linenos"> 882</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="nb">range</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="kc">None</span><span class="p">]):</span>
-</span><span id="Corr-883"><a href="#Corr-883"><span class="linenos"> 883</span></a>        <span class="n">content_string</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
-</span><span id="Corr-884"><a href="#Corr-884"><span class="linenos"> 884</span></a>
-</span><span id="Corr-885"><a href="#Corr-885"><span class="linenos"> 885</span></a>        <span class="n">content_string</span> <span class="o">+=</span> <span class="s2">&quot;Corr T=&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot; N=&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\n</span><span class="s2">&quot;</span>  <span class="c1"># +&quot; filled with&quot;+ str(type(self.content[0][0])) there should be a good solution here</span>
-</span><span id="Corr-886"><a href="#Corr-886"><span class="linenos"> 886</span></a>
-</span><span id="Corr-887"><a href="#Corr-887"><span class="linenos"> 887</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-888"><a href="#Corr-888"><span class="linenos"> 888</span></a>            <span class="n">content_string</span> <span class="o">+=</span> <span class="s2">&quot;Description: &quot;</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\n</span><span class="s2">&quot;</span>
-</span><span id="Corr-889"><a href="#Corr-889"><span class="linenos"> 889</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-890"><a href="#Corr-890"><span class="linenos"> 890</span></a>            <span class="k">return</span> <span class="n">content_string</span>
-</span><span id="Corr-891"><a href="#Corr-891"><span class="linenos"> 891</span></a>
-</span><span id="Corr-892"><a href="#Corr-892"><span class="linenos"> 892</span></a>        <span class="k">if</span> <span class="nb">range</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
-</span><span id="Corr-893"><a href="#Corr-893"><span class="linenos"> 893</span></a>            <span class="nb">range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="Corr-894"><a href="#Corr-894"><span class="linenos"> 894</span></a>        <span class="n">content_string</span> <span class="o">+=</span> <span class="s1">&#39;x0/a</span><span class="se">\t</span><span class="s1">Corr(x0/a)</span><span class="se">\n</span><span class="s1">------------------</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="Corr-895"><a href="#Corr-895"><span class="linenos"> 895</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">sub_corr</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="nb">range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span><span class="nb">range</span><span class="p">[</span><span class="mi">1</span><span class="p">]]):</span>
-</span><span id="Corr-896"><a href="#Corr-896"><span class="linenos"> 896</span></a>            <span class="k">if</span> <span class="n">sub_corr</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-897"><a href="#Corr-897"><span class="linenos"> 897</span></a>                <span class="n">content_string</span> <span class="o">+=</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="nb">range</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="Corr-898"><a href="#Corr-898"><span class="linenos"> 898</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-899"><a href="#Corr-899"><span class="linenos"> 899</span></a>                <span class="n">content_string</span> <span class="o">+=</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="nb">range</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="Corr-900"><a href="#Corr-900"><span class="linenos"> 900</span></a>                <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">sub_corr</span><span class="p">:</span>
-</span><span id="Corr-901"><a href="#Corr-901"><span class="linenos"> 901</span></a>                    <span class="n">content_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">*</span> <span class="nb">int</span><span class="p">(</span><span class="n">element</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="Corr-902"><a href="#Corr-902"><span class="linenos"> 902</span></a>                <span class="n">content_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="Corr-903"><a href="#Corr-903"><span class="linenos"> 903</span></a>        <span class="k">return</span> <span class="n">content_string</span>
-</span><span id="Corr-904"><a href="#Corr-904"><span class="linenos"> 904</span></a>
-</span><span id="Corr-905"><a href="#Corr-905"><span class="linenos"> 905</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-906"><a href="#Corr-906"><span class="linenos"> 906</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="fm">__repr__</span><span class="p">()</span>
-</span><span id="Corr-907"><a href="#Corr-907"><span class="linenos"> 907</span></a>
-</span><span id="Corr-908"><a href="#Corr-908"><span class="linenos"> 908</span></a>    <span class="c1"># We define the basic operations, that can be performed with correlators.</span>
-</span><span id="Corr-909"><a href="#Corr-909"><span class="linenos"> 909</span></a>    <span class="c1"># While */+- get defined here, they only work for Corr*Obs and not Obs*Corr.</span>
-</span><span id="Corr-910"><a href="#Corr-910"><span class="linenos"> 910</span></a>    <span class="c1"># This is because Obs*Corr checks Obs.__mul__ first and does not catch an exception.</span>
-</span><span id="Corr-911"><a href="#Corr-911"><span class="linenos"> 911</span></a>    <span class="c1"># One could try and tell Obs to check if the y in __mul__ is a Corr and</span>
-</span><span id="Corr-912"><a href="#Corr-912"><span class="linenos"> 912</span></a>
-</span><span id="Corr-913"><a href="#Corr-913"><span class="linenos"> 913</span></a>    <span class="k">def</span> <span class="fm">__add__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Corr-914"><a href="#Corr-914"><span class="linenos"> 914</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="Corr-915"><a href="#Corr-915"><span class="linenos"> 915</span></a>            <span class="k">if</span> <span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">!=</span> <span class="n">y</span><span class="o">.</span><span class="n">T</span><span class="p">)):</span>
-</span><span id="Corr-916"><a href="#Corr-916"><span class="linenos"> 916</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Addition of Corrs with different shape&quot;</span><span class="p">)</span>
-</span><span id="Corr-917"><a href="#Corr-917"><span class="linenos"> 917</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-918"><a href="#Corr-918"><span class="linenos"> 918</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-919"><a href="#Corr-919"><span class="linenos"> 919</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-920"><a href="#Corr-920"><span class="linenos"> 920</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-921"><a href="#Corr-921"><span class="linenos"> 921</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-922"><a href="#Corr-922"><span class="linenos"> 922</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="Corr-923"><a href="#Corr-923"><span class="linenos"> 923</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="Corr-924"><a href="#Corr-924"><span class="linenos"> 924</span></a>
-</span><span id="Corr-925"><a href="#Corr-925"><span class="linenos"> 925</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
-</span><span id="Corr-926"><a href="#Corr-926"><span class="linenos"> 926</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-927"><a href="#Corr-927"><span class="linenos"> 927</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-928"><a href="#Corr-928"><span class="linenos"> 928</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-929"><a href="#Corr-929"><span class="linenos"> 929</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-930"><a href="#Corr-930"><span class="linenos"> 930</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-931"><a href="#Corr-931"><span class="linenos"> 931</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="n">y</span><span class="p">)</span>
-</span><span id="Corr-932"><a href="#Corr-932"><span class="linenos"> 932</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="Corr-933"><a href="#Corr-933"><span class="linenos"> 933</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="Corr-934"><a href="#Corr-934"><span class="linenos"> 934</span></a>            <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">,):</span>
-</span><span id="Corr-935"><a href="#Corr-935"><span class="linenos"> 935</span></a>                <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span><span class="o">.</span><span class="n">T</span> <span class="o">+</span> <span class="n">y</span><span class="p">)</span><span class="o">.</span><span class="n">T</span><span class="p">))</span>
-</span><span id="Corr-936"><a href="#Corr-936"><span class="linenos"> 936</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-937"><a href="#Corr-937"><span class="linenos"> 937</span></a>                <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;operands could not be broadcast together&quot;</span><span class="p">)</span>
-</span><span id="Corr-938"><a href="#Corr-938"><span class="linenos"> 938</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-939"><a href="#Corr-939"><span class="linenos"> 939</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s2">&quot;Corr + wrong type&quot;</span><span class="p">)</span>
-</span><span id="Corr-940"><a href="#Corr-940"><span class="linenos"> 940</span></a>
-</span><span id="Corr-941"><a href="#Corr-941"><span class="linenos"> 941</span></a>    <span class="k">def</span> <span class="fm">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Corr-942"><a href="#Corr-942"><span class="linenos"> 942</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="Corr-943"><a href="#Corr-943"><span class="linenos"> 943</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-944"><a href="#Corr-944"><span class="linenos"> 944</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multiplication of Corr object requires N=N or N=1 and T=T&quot;</span><span class="p">)</span>
-</span><span id="Corr-945"><a href="#Corr-945"><span class="linenos"> 945</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-946"><a href="#Corr-946"><span class="linenos"> 946</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-947"><a href="#Corr-947"><span class="linenos"> 947</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-948"><a href="#Corr-948"><span class="linenos"> 948</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-949"><a href="#Corr-949"><span class="linenos"> 949</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-950"><a href="#Corr-950"><span class="linenos"> 950</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">*</span> <span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="Corr-951"><a href="#Corr-951"><span class="linenos"> 951</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="Corr-952"><a href="#Corr-952"><span class="linenos"> 952</span></a>
-</span><span id="Corr-953"><a href="#Corr-953"><span class="linenos"> 953</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
-</span><span id="Corr-954"><a href="#Corr-954"><span class="linenos"> 954</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-955"><a href="#Corr-955"><span class="linenos"> 955</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-956"><a href="#Corr-956"><span class="linenos"> 956</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-957"><a href="#Corr-957"><span class="linenos"> 957</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-958"><a href="#Corr-958"><span class="linenos"> 958</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-959"><a href="#Corr-959"><span class="linenos"> 959</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">*</span> <span class="n">y</span><span class="p">)</span>
-</span><span id="Corr-960"><a href="#Corr-960"><span class="linenos"> 960</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="Corr-961"><a href="#Corr-961"><span class="linenos"> 961</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="Corr-962"><a href="#Corr-962"><span class="linenos"> 962</span></a>            <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">,):</span>
-</span><span id="Corr-963"><a href="#Corr-963"><span class="linenos"> 963</span></a>                <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span><span class="o">.</span><span class="n">T</span> <span class="o">*</span> <span class="n">y</span><span class="p">)</span><span class="o">.</span><span class="n">T</span><span class="p">))</span>
-</span><span id="Corr-964"><a href="#Corr-964"><span class="linenos"> 964</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-965"><a href="#Corr-965"><span class="linenos"> 965</span></a>                <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;operands could not be broadcast together&quot;</span><span class="p">)</span>
-</span><span id="Corr-966"><a href="#Corr-966"><span class="linenos"> 966</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-967"><a href="#Corr-967"><span class="linenos"> 967</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s2">&quot;Corr * wrong type&quot;</span><span class="p">)</span>
-</span><span id="Corr-968"><a href="#Corr-968"><span class="linenos"> 968</span></a>
-</span><span id="Corr-969"><a href="#Corr-969"><span class="linenos"> 969</span></a>    <span class="k">def</span> <span class="fm">__truediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Corr-970"><a href="#Corr-970"><span class="linenos"> 970</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="Corr-971"><a href="#Corr-971"><span class="linenos"> 971</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-972"><a href="#Corr-972"><span class="linenos"> 972</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multiplication of Corr object requires N=N or N=1 and T=T&quot;</span><span class="p">)</span>
-</span><span id="Corr-973"><a href="#Corr-973"><span class="linenos"> 973</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-974"><a href="#Corr-974"><span class="linenos"> 974</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-975"><a href="#Corr-975"><span class="linenos"> 975</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-976"><a href="#Corr-976"><span class="linenos"> 976</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-977"><a href="#Corr-977"><span class="linenos"> 977</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-978"><a href="#Corr-978"><span class="linenos"> 978</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="Corr-979"><a href="#Corr-979"><span class="linenos"> 979</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-980"><a href="#Corr-980"><span class="linenos"> 980</span></a>                <span class="k">if</span> <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-981"><a href="#Corr-981"><span class="linenos"> 981</span></a>                    <span class="k">continue</span>
-</span><span id="Corr-982"><a href="#Corr-982"><span class="linenos"> 982</span></a>                <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">])</span><span class="o">.</span><span class="n">value</span><span class="p">):</span>
-</span><span id="Corr-983"><a href="#Corr-983"><span class="linenos"> 983</span></a>                    <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="Corr-984"><a href="#Corr-984"><span class="linenos"> 984</span></a>
-</span><span id="Corr-985"><a href="#Corr-985"><span class="linenos"> 985</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">]):</span>
-</span><span id="Corr-986"><a href="#Corr-986"><span class="linenos"> 986</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Division returns completely undefined correlator&quot;</span><span class="p">)</span>
-</span><span id="Corr-987"><a href="#Corr-987"><span class="linenos"> 987</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="Corr-988"><a href="#Corr-988"><span class="linenos"> 988</span></a>
-</span><span id="Corr-989"><a href="#Corr-989"><span class="linenos"> 989</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
-</span><span id="Corr-990"><a href="#Corr-990"><span class="linenos"> 990</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="Corr-991"><a href="#Corr-991"><span class="linenos"> 991</span></a>                <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Corr-992"><a href="#Corr-992"><span class="linenos"> 992</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Division by zero will return undefined correlator&#39;</span><span class="p">)</span>
-</span><span id="Corr-993"><a href="#Corr-993"><span class="linenos"> 993</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">CObs</span><span class="p">):</span>
-</span><span id="Corr-994"><a href="#Corr-994"><span class="linenos"> 994</span></a>                <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">is_zero</span><span class="p">():</span>
-</span><span id="Corr-995"><a href="#Corr-995"><span class="linenos"> 995</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Division by zero will return undefined correlator&#39;</span><span class="p">)</span>
-</span><span id="Corr-996"><a href="#Corr-996"><span class="linenos"> 996</span></a>
-</span><span id="Corr-997"><a href="#Corr-997"><span class="linenos"> 997</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-998"><a href="#Corr-998"><span class="linenos"> 998</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-999"><a href="#Corr-999"><span class="linenos"> 999</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-1000"><a href="#Corr-1000"><span class="linenos">1000</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-1001"><a href="#Corr-1001"><span class="linenos">1001</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-1002"><a href="#Corr-1002"><span class="linenos">1002</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span>
-</span><span id="Corr-1003"><a href="#Corr-1003"><span class="linenos">1003</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="Corr-1004"><a href="#Corr-1004"><span class="linenos">1004</span></a>
-</span><span id="Corr-1005"><a href="#Corr-1005"><span class="linenos">1005</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
-</span><span id="Corr-1006"><a href="#Corr-1006"><span class="linenos">1006</span></a>            <span class="k">if</span> <span class="n">y</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Corr-1007"><a href="#Corr-1007"><span class="linenos">1007</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Division by zero will return undefined correlator&#39;</span><span class="p">)</span>
-</span><span id="Corr-1008"><a href="#Corr-1008"><span class="linenos">1008</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-1009"><a href="#Corr-1009"><span class="linenos">1009</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-1010"><a href="#Corr-1010"><span class="linenos">1010</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-1011"><a href="#Corr-1011"><span class="linenos">1011</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr-1012"><a href="#Corr-1012"><span class="linenos">1012</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-1013"><a href="#Corr-1013"><span class="linenos">1013</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span>
-</span><span id="Corr-1014"><a href="#Corr-1014"><span class="linenos">1014</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="Corr-1015"><a href="#Corr-1015"><span class="linenos">1015</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="Corr-1016"><a href="#Corr-1016"><span class="linenos">1016</span></a>            <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">,):</span>
-</span><span id="Corr-1017"><a href="#Corr-1017"><span class="linenos">1017</span></a>                <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span><span class="o">.</span><span class="n">T</span><span class="p">))</span>
-</span><span id="Corr-1018"><a href="#Corr-1018"><span class="linenos">1018</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-1019"><a href="#Corr-1019"><span class="linenos">1019</span></a>                <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;operands could not be broadcast together&quot;</span><span class="p">)</span>
-</span><span id="Corr-1020"><a href="#Corr-1020"><span class="linenos">1020</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-1021"><a href="#Corr-1021"><span class="linenos">1021</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;Corr / wrong type&#39;</span><span class="p">)</span>
-</span><span id="Corr-1022"><a href="#Corr-1022"><span class="linenos">1022</span></a>
-</span><span id="Corr-1023"><a href="#Corr-1023"><span class="linenos">1023</span></a>    <span class="k">def</span> <span class="fm">__neg__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1024"><a href="#Corr-1024"><span class="linenos">1024</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="o">-</span><span class="mf">1.</span> <span class="o">*</span> <span class="n">item</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr-1025"><a href="#Corr-1025"><span class="linenos">1025</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="Corr-1026"><a href="#Corr-1026"><span class="linenos">1026</span></a>
-</span><span id="Corr-1027"><a href="#Corr-1027"><span class="linenos">1027</span></a>    <span class="k">def</span> <span class="fm">__sub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Corr-1028"><a href="#Corr-1028"><span class="linenos">1028</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="p">(</span><span class="o">-</span><span class="n">y</span><span class="p">)</span>
-</span><span id="Corr-1029"><a href="#Corr-1029"><span class="linenos">1029</span></a>
-</span><span id="Corr-1030"><a href="#Corr-1030"><span class="linenos">1030</span></a>    <span class="k">def</span> <span class="fm">__pow__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Corr-1031"><a href="#Corr-1031"><span class="linenos">1031</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
-</span><span id="Corr-1032"><a href="#Corr-1032"><span class="linenos">1032</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">item</span><span class="o">**</span><span class="n">y</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr-1033"><a href="#Corr-1033"><span class="linenos">1033</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="Corr-1034"><a href="#Corr-1034"><span class="linenos">1034</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-1035"><a href="#Corr-1035"><span class="linenos">1035</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;Type of exponent not supported&#39;</span><span class="p">)</span>
-</span><span id="Corr-1036"><a href="#Corr-1036"><span class="linenos">1036</span></a>
-</span><span id="Corr-1037"><a href="#Corr-1037"><span class="linenos">1037</span></a>    <span class="k">def</span> <span class="fm">__abs__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1038"><a href="#Corr-1038"><span class="linenos">1038</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr-1039"><a href="#Corr-1039"><span class="linenos">1039</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="Corr-1040"><a href="#Corr-1040"><span class="linenos">1040</span></a>
-</span><span id="Corr-1041"><a href="#Corr-1041"><span class="linenos">1041</span></a>    <span class="c1"># The numpy functions:</span>
-</span><span id="Corr-1042"><a href="#Corr-1042"><span class="linenos">1042</span></a>    <span class="k">def</span> <span class="nf">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1043"><a href="#Corr-1043"><span class="linenos">1043</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">**</span><span class="mf">0.5</span>
-</span><span id="Corr-1044"><a href="#Corr-1044"><span class="linenos">1044</span></a>
-</span><span id="Corr-1045"><a href="#Corr-1045"><span class="linenos">1045</span></a>    <span class="k">def</span> <span class="nf">log</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1046"><a href="#Corr-1046"><span class="linenos">1046</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr-1047"><a href="#Corr-1047"><span class="linenos">1047</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="Corr-1048"><a href="#Corr-1048"><span class="linenos">1048</span></a>
-</span><span id="Corr-1049"><a href="#Corr-1049"><span class="linenos">1049</span></a>    <span class="k">def</span> <span class="nf">exp</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1050"><a href="#Corr-1050"><span class="linenos">1050</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr-1051"><a href="#Corr-1051"><span class="linenos">1051</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
-</span><span id="Corr-1052"><a href="#Corr-1052"><span class="linenos">1052</span></a>
-</span><span id="Corr-1053"><a href="#Corr-1053"><span class="linenos">1053</span></a>    <span class="k">def</span> <span class="nf">_apply_func_to_corr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">func</span><span class="p">):</span>
-</span><span id="Corr-1054"><a href="#Corr-1054"><span class="linenos">1054</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">func</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr-1055"><a href="#Corr-1055"><span class="linenos">1055</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-1056"><a href="#Corr-1056"><span class="linenos">1056</span></a>            <span class="k">if</span> <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-1057"><a href="#Corr-1057"><span class="linenos">1057</span></a>                <span class="k">continue</span>
-</span><span id="Corr-1058"><a href="#Corr-1058"><span class="linenos">1058</span></a>            <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">])</span><span class="o">.</span><span class="n">value</span><span class="p">):</span>
-</span><span id="Corr-1059"><a href="#Corr-1059"><span class="linenos">1059</span></a>                <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="Corr-1060"><a href="#Corr-1060"><span class="linenos">1060</span></a>        <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">]):</span>
-</span><span id="Corr-1061"><a href="#Corr-1061"><span class="linenos">1061</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Operation returns undefined correlator&#39;</span><span class="p">)</span>
-</span><span id="Corr-1062"><a href="#Corr-1062"><span class="linenos">1062</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
-</span><span id="Corr-1063"><a href="#Corr-1063"><span class="linenos">1063</span></a>
-</span><span id="Corr-1064"><a href="#Corr-1064"><span class="linenos">1064</span></a>    <span class="k">def</span> <span class="nf">sin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1065"><a href="#Corr-1065"><span class="linenos">1065</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">)</span>
-</span><span id="Corr-1066"><a href="#Corr-1066"><span class="linenos">1066</span></a>
-</span><span id="Corr-1067"><a href="#Corr-1067"><span class="linenos">1067</span></a>    <span class="k">def</span> <span class="nf">cos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1068"><a href="#Corr-1068"><span class="linenos">1068</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">)</span>
-</span><span id="Corr-1069"><a href="#Corr-1069"><span class="linenos">1069</span></a>
-</span><span id="Corr-1070"><a href="#Corr-1070"><span class="linenos">1070</span></a>    <span class="k">def</span> <span class="nf">tan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1071"><a href="#Corr-1071"><span class="linenos">1071</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">tan</span><span class="p">)</span>
-</span><span id="Corr-1072"><a href="#Corr-1072"><span class="linenos">1072</span></a>
-</span><span id="Corr-1073"><a href="#Corr-1073"><span class="linenos">1073</span></a>    <span class="k">def</span> <span class="nf">sinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1074"><a href="#Corr-1074"><span class="linenos">1074</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">)</span>
-</span><span id="Corr-1075"><a href="#Corr-1075"><span class="linenos">1075</span></a>
-</span><span id="Corr-1076"><a href="#Corr-1076"><span class="linenos">1076</span></a>    <span class="k">def</span> <span class="nf">cosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1077"><a href="#Corr-1077"><span class="linenos">1077</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">)</span>
-</span><span id="Corr-1078"><a href="#Corr-1078"><span class="linenos">1078</span></a>
-</span><span id="Corr-1079"><a href="#Corr-1079"><span class="linenos">1079</span></a>    <span class="k">def</span> <span class="nf">tanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1080"><a href="#Corr-1080"><span class="linenos">1080</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">tanh</span><span class="p">)</span>
-</span><span id="Corr-1081"><a href="#Corr-1081"><span class="linenos">1081</span></a>
-</span><span id="Corr-1082"><a href="#Corr-1082"><span class="linenos">1082</span></a>    <span class="k">def</span> <span class="nf">arcsin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1083"><a href="#Corr-1083"><span class="linenos">1083</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arcsin</span><span class="p">)</span>
-</span><span id="Corr-1084"><a href="#Corr-1084"><span class="linenos">1084</span></a>
-</span><span id="Corr-1085"><a href="#Corr-1085"><span class="linenos">1085</span></a>    <span class="k">def</span> <span class="nf">arccos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1086"><a href="#Corr-1086"><span class="linenos">1086</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arccos</span><span class="p">)</span>
-</span><span id="Corr-1087"><a href="#Corr-1087"><span class="linenos">1087</span></a>
-</span><span id="Corr-1088"><a href="#Corr-1088"><span class="linenos">1088</span></a>    <span class="k">def</span> <span class="nf">arctan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1089"><a href="#Corr-1089"><span class="linenos">1089</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arctan</span><span class="p">)</span>
-</span><span id="Corr-1090"><a href="#Corr-1090"><span class="linenos">1090</span></a>
-</span><span id="Corr-1091"><a href="#Corr-1091"><span class="linenos">1091</span></a>    <span class="k">def</span> <span class="nf">arcsinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1092"><a href="#Corr-1092"><span class="linenos">1092</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arcsinh</span><span class="p">)</span>
-</span><span id="Corr-1093"><a href="#Corr-1093"><span class="linenos">1093</span></a>
-</span><span id="Corr-1094"><a href="#Corr-1094"><span class="linenos">1094</span></a>    <span class="k">def</span> <span class="nf">arccosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1095"><a href="#Corr-1095"><span class="linenos">1095</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arccosh</span><span class="p">)</span>
-</span><span id="Corr-1096"><a href="#Corr-1096"><span class="linenos">1096</span></a>
-</span><span id="Corr-1097"><a href="#Corr-1097"><span class="linenos">1097</span></a>    <span class="k">def</span> <span class="nf">arctanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1098"><a href="#Corr-1098"><span class="linenos">1098</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arctanh</span><span class="p">)</span>
-</span><span id="Corr-1099"><a href="#Corr-1099"><span class="linenos">1099</span></a>
-</span><span id="Corr-1100"><a href="#Corr-1100"><span class="linenos">1100</span></a>    <span class="c1"># Right hand side operations (require tweak in main module to work)</span>
-</span><span id="Corr-1101"><a href="#Corr-1101"><span class="linenos">1101</span></a>    <span class="k">def</span> <span class="fm">__radd__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Corr-1102"><a href="#Corr-1102"><span class="linenos">1102</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
-</span><span id="Corr-1103"><a href="#Corr-1103"><span class="linenos">1103</span></a>
-</span><span id="Corr-1104"><a href="#Corr-1104"><span class="linenos">1104</span></a>    <span class="k">def</span> <span class="fm">__rsub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Corr-1105"><a href="#Corr-1105"><span class="linenos">1105</span></a>        <span class="k">return</span> <span class="o">-</span><span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
-</span><span id="Corr-1106"><a href="#Corr-1106"><span class="linenos">1106</span></a>
-</span><span id="Corr-1107"><a href="#Corr-1107"><span class="linenos">1107</span></a>    <span class="k">def</span> <span class="fm">__rmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Corr-1108"><a href="#Corr-1108"><span class="linenos">1108</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">y</span>
-</span><span id="Corr-1109"><a href="#Corr-1109"><span class="linenos">1109</span></a>
-</span><span id="Corr-1110"><a href="#Corr-1110"><span class="linenos">1110</span></a>    <span class="k">def</span> <span class="fm">__rtruediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Corr-1111"><a href="#Corr-1111"><span class="linenos">1111</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span> <span class="o">**</span> <span class="p">(</span><span class="o">-</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="Corr-1112"><a href="#Corr-1112"><span class="linenos">1112</span></a>
-</span><span id="Corr-1113"><a href="#Corr-1113"><span class="linenos">1113</span></a>    <span class="nd">@property</span>
-</span><span id="Corr-1114"><a href="#Corr-1114"><span class="linenos">1114</span></a>    <span class="k">def</span> <span class="nf">real</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1115"><a href="#Corr-1115"><span class="linenos">1115</span></a>        <span class="k">def</span> <span class="nf">return_real</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">):</span>
-</span><span id="Corr-1116"><a href="#Corr-1116"><span class="linenos">1116</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">):</span>
-</span><span id="Corr-1117"><a href="#Corr-1117"><span class="linenos">1117</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span><span class="o">.</span><span class="n">real</span>
-</span><span id="Corr-1118"><a href="#Corr-1118"><span class="linenos">1118</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-1119"><a href="#Corr-1119"><span class="linenos">1119</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span>
-</span><span id="Corr-1120"><a href="#Corr-1120"><span class="linenos">1120</span></a>
-</span><span id="Corr-1121"><a href="#Corr-1121"><span class="linenos">1121</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">return_real</span><span class="p">)</span>
-</span><span id="Corr-1122"><a href="#Corr-1122"><span class="linenos">1122</span></a>
-</span><span id="Corr-1123"><a href="#Corr-1123"><span class="linenos">1123</span></a>    <span class="nd">@property</span>
-</span><span id="Corr-1124"><a href="#Corr-1124"><span class="linenos">1124</span></a>    <span class="k">def</span> <span class="nf">imag</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr-1125"><a href="#Corr-1125"><span class="linenos">1125</span></a>        <span class="k">def</span> <span class="nf">return_imag</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">):</span>
-</span><span id="Corr-1126"><a href="#Corr-1126"><span class="linenos">1126</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">):</span>
-</span><span id="Corr-1127"><a href="#Corr-1127"><span class="linenos">1127</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span><span class="o">.</span><span class="n">imag</span>
-</span><span id="Corr-1128"><a href="#Corr-1128"><span class="linenos">1128</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr-1129"><a href="#Corr-1129"><span class="linenos">1129</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span> <span class="o">*</span> <span class="mi">0</span>  <span class="c1"># So it stays the right type</span>
-</span><span id="Corr-1130"><a href="#Corr-1130"><span class="linenos">1130</span></a>
-</span><span id="Corr-1131"><a href="#Corr-1131"><span class="linenos">1131</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">return_imag</span><span class="p">)</span>
-</span><span id="Corr-1132"><a href="#Corr-1132"><span class="linenos">1132</span></a>
-</span><span id="Corr-1133"><a href="#Corr-1133"><span class="linenos">1133</span></a>    <span class="k">def</span> <span class="nf">prune</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">Ntrunc</span><span class="p">,</span> <span class="n">tproj</span><span class="o">=</span><span class="mi">3</span><span class="p">,</span> <span class="n">t0proj</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">basematrix</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr-1134"><a href="#Corr-1134"><span class="linenos">1134</span></a>        <span class="sa">r</span><span class="sd">&#39;&#39;&#39; Project large correlation matrix to lowest states</span>
-</span><span id="Corr-1135"><a href="#Corr-1135"><span class="linenos">1135</span></a>
-</span><span id="Corr-1136"><a href="#Corr-1136"><span class="linenos">1136</span></a><span class="sd">        This method can be used to reduce the size of an (N x N) correlation matrix</span>
-</span><span id="Corr-1137"><a href="#Corr-1137"><span class="linenos">1137</span></a><span class="sd">        to (Ntrunc x Ntrunc) by solving a GEVP at very early times where the noise</span>
-</span><span id="Corr-1138"><a href="#Corr-1138"><span class="linenos">1138</span></a><span class="sd">        is still small.</span>
-</span><span id="Corr-1139"><a href="#Corr-1139"><span class="linenos">1139</span></a>
-</span><span id="Corr-1140"><a href="#Corr-1140"><span class="linenos">1140</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr-1141"><a href="#Corr-1141"><span class="linenos">1141</span></a><span class="sd">        ----------</span>
-</span><span id="Corr-1142"><a href="#Corr-1142"><span class="linenos">1142</span></a><span class="sd">        Ntrunc: int</span>
-</span><span id="Corr-1143"><a href="#Corr-1143"><span class="linenos">1143</span></a><span class="sd">            Rank of the target matrix.</span>
-</span><span id="Corr-1144"><a href="#Corr-1144"><span class="linenos">1144</span></a><span class="sd">        tproj: int</span>
-</span><span id="Corr-1145"><a href="#Corr-1145"><span class="linenos">1145</span></a><span class="sd">            Time where the eigenvectors are evaluated, corresponds to ts in the GEVP method.</span>
-</span><span id="Corr-1146"><a href="#Corr-1146"><span class="linenos">1146</span></a><span class="sd">            The default value is 3.</span>
-</span><span id="Corr-1147"><a href="#Corr-1147"><span class="linenos">1147</span></a><span class="sd">        t0proj: int</span>
-</span><span id="Corr-1148"><a href="#Corr-1148"><span class="linenos">1148</span></a><span class="sd">            Time where the correlation matrix is inverted. Choosing t0proj=1 is strongly</span>
-</span><span id="Corr-1149"><a href="#Corr-1149"><span class="linenos">1149</span></a><span class="sd">            discouraged for O(a) improved theories, since the correctness of the procedure</span>
-</span><span id="Corr-1150"><a href="#Corr-1150"><span class="linenos">1150</span></a><span class="sd">            cannot be granted in this case. The default value is 2.</span>
-</span><span id="Corr-1151"><a href="#Corr-1151"><span class="linenos">1151</span></a><span class="sd">        basematrix : Corr</span>
-</span><span id="Corr-1152"><a href="#Corr-1152"><span class="linenos">1152</span></a><span class="sd">            Correlation matrix that is used to determine the eigenvectors of the</span>
-</span><span id="Corr-1153"><a href="#Corr-1153"><span class="linenos">1153</span></a><span class="sd">            lowest states based on a GEVP. basematrix is taken to be the Corr itself if</span>
-</span><span id="Corr-1154"><a href="#Corr-1154"><span class="linenos">1154</span></a><span class="sd">            is is not specified.</span>
-</span><span id="Corr-1155"><a href="#Corr-1155"><span class="linenos">1155</span></a>
-</span><span id="Corr-1156"><a href="#Corr-1156"><span class="linenos">1156</span></a><span class="sd">        Notes</span>
-</span><span id="Corr-1157"><a href="#Corr-1157"><span class="linenos">1157</span></a><span class="sd">        -----</span>
-</span><span id="Corr-1158"><a href="#Corr-1158"><span class="linenos">1158</span></a><span class="sd">        We have the basematrix $C(t)$ and the target matrix $G(t)$. We start by solving</span>
-</span><span id="Corr-1159"><a href="#Corr-1159"><span class="linenos">1159</span></a><span class="sd">        the GEVP $$C(t) v_n(t, t_0) = \lambda_n(t, t_0) C(t_0) v_n(t, t_0)$$ where $t \equiv t_\mathrm{proj}$</span>
-</span><span id="Corr-1160"><a href="#Corr-1160"><span class="linenos">1160</span></a><span class="sd">        and $t_0 \equiv t_{0, \mathrm{proj}}$. The target matrix is projected onto the subspace of the</span>
-</span><span id="Corr-1161"><a href="#Corr-1161"><span class="linenos">1161</span></a><span class="sd">        resulting eigenvectors $v_n, n=1,\dots,N_\mathrm{trunc}$ via</span>
-</span><span id="Corr-1162"><a href="#Corr-1162"><span class="linenos">1162</span></a><span class="sd">        $$G^\prime_{i, j}(t) = (v_i, G(t) v_j)$$. This allows to reduce the size of a large</span>
-</span><span id="Corr-1163"><a href="#Corr-1163"><span class="linenos">1163</span></a><span class="sd">        correlation matrix and to remove some noise that is added by irrelevant operators.</span>
-</span><span id="Corr-1164"><a href="#Corr-1164"><span class="linenos">1164</span></a><span class="sd">        This may allow to use the GEVP on $G(t)$ at late times such that the theoretically motivated</span>
-</span><span id="Corr-1165"><a href="#Corr-1165"><span class="linenos">1165</span></a><span class="sd">        bound $t_0 \leq t/2$ holds, since the condition number of $G(t)$ is decreased, compared to $C(t)$.</span>
-</span><span id="Corr-1166"><a href="#Corr-1166"><span class="linenos">1166</span></a><span class="sd">        &#39;&#39;&#39;</span>
-</span><span id="Corr-1167"><a href="#Corr-1167"><span class="linenos">1167</span></a>
-</span><span id="Corr-1168"><a href="#Corr-1168"><span class="linenos">1168</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr-1169"><a href="#Corr-1169"><span class="linenos">1169</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Method cannot be applied to one-dimensional correlators.&#39;</span><span class="p">)</span>
-</span><span id="Corr-1170"><a href="#Corr-1170"><span class="linenos">1170</span></a>        <span class="k">if</span> <span class="n">basematrix</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr-1171"><a href="#Corr-1171"><span class="linenos">1171</span></a>            <span class="n">basematrix</span> <span class="o">=</span> <span class="bp">self</span>
-</span><span id="Corr-1172"><a href="#Corr-1172"><span class="linenos">1172</span></a>        <span class="k">if</span> <span class="n">Ntrunc</span> <span class="o">&gt;=</span> <span class="n">basematrix</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
-</span><span id="Corr-1173"><a href="#Corr-1173"><span class="linenos">1173</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Cannot truncate using Ntrunc &lt;= </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
-</span><span id="Corr-1174"><a href="#Corr-1174"><span class="linenos">1174</span></a>        <span class="k">if</span> <span class="n">basematrix</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
-</span><span id="Corr-1175"><a href="#Corr-1175"><span class="linenos">1175</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;basematrix and targetmatrix have to be of the same size.&#39;</span><span class="p">)</span>
-</span><span id="Corr-1176"><a href="#Corr-1176"><span class="linenos">1176</span></a>
-</span><span id="Corr-1177"><a href="#Corr-1177"><span class="linenos">1177</span></a>        <span class="n">evecs</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-1178"><a href="#Corr-1178"><span class="linenos">1178</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
-</span><span id="Corr-1179"><a href="#Corr-1179"><span class="linenos">1179</span></a>            <span class="n">evecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">GEVP</span><span class="p">(</span><span class="n">t0proj</span><span class="p">,</span> <span class="n">tproj</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="n">i</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span><span class="p">))</span>
-</span><span id="Corr-1180"><a href="#Corr-1180"><span class="linenos">1180</span></a>
-</span><span id="Corr-1181"><a href="#Corr-1181"><span class="linenos">1181</span></a>        <span class="n">tmpmat</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">Ntrunc</span><span class="p">,</span> <span class="n">Ntrunc</span><span class="p">),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="Corr-1182"><a href="#Corr-1182"><span class="linenos">1182</span></a>        <span class="n">rmat</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr-1183"><a href="#Corr-1183"><span class="linenos">1183</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr-1184"><a href="#Corr-1184"><span class="linenos">1184</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
-</span><span id="Corr-1185"><a href="#Corr-1185"><span class="linenos">1185</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
-</span><span id="Corr-1186"><a href="#Corr-1186"><span class="linenos">1186</span></a>                    <span class="n">tmpmat</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">evecs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="bp">self</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">evecs</span><span class="p">[</span><span class="n">j</span><span class="p">]</span>
-</span><span id="Corr-1187"><a href="#Corr-1187"><span class="linenos">1187</span></a>            <span class="n">rmat</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">copy</span><span class="p">(</span><span class="n">tmpmat</span><span class="p">))</span>
-</span><span id="Corr-1188"><a href="#Corr-1188"><span class="linenos">1188</span></a>
-</span><span id="Corr-1189"><a href="#Corr-1189"><span class="linenos">1189</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">rmat</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)]</span>
-</span><span id="Corr-1190"><a href="#Corr-1190"><span class="linenos">1190</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr-14"><a href="#Corr-14"><span class="linenos">  14</span></a><span class="k">class</span> <span class="nc">Corr</span><span class="p">:</span>
+</span><span id="Corr-15"><a href="#Corr-15"><span class="linenos">  15</span></a>    <span class="sd">&quot;&quot;&quot;The class for a correlator (time dependent sequence of pe.Obs).</span>
+</span><span id="Corr-16"><a href="#Corr-16"><span class="linenos">  16</span></a>
+</span><span id="Corr-17"><a href="#Corr-17"><span class="linenos">  17</span></a><span class="sd">    Everything, this class does, can be achieved using lists or arrays of Obs.</span>
+</span><span id="Corr-18"><a href="#Corr-18"><span class="linenos">  18</span></a><span class="sd">    But it is simply more convenient to have a dedicated object for correlators.</span>
+</span><span id="Corr-19"><a href="#Corr-19"><span class="linenos">  19</span></a><span class="sd">    One often wants to add or multiply correlators of the same length at every timeslice and it is inconvenient</span>
+</span><span id="Corr-20"><a href="#Corr-20"><span class="linenos">  20</span></a><span class="sd">    to iterate over all timeslices for every operation. This is especially true, when dealing with matrices.</span>
+</span><span id="Corr-21"><a href="#Corr-21"><span class="linenos">  21</span></a>
+</span><span id="Corr-22"><a href="#Corr-22"><span class="linenos">  22</span></a><span class="sd">    The correlator can have two types of content: An Obs at every timeslice OR a GEVP</span>
+</span><span id="Corr-23"><a href="#Corr-23"><span class="linenos">  23</span></a><span class="sd">    matrix at every timeslice. Other dependency (eg. spatial) are not supported.</span>
+</span><span id="Corr-24"><a href="#Corr-24"><span class="linenos">  24</span></a>
+</span><span id="Corr-25"><a href="#Corr-25"><span class="linenos">  25</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="Corr-26"><a href="#Corr-26"><span class="linenos">  26</span></a>
+</span><span id="Corr-27"><a href="#Corr-27"><span class="linenos">  27</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data_input</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="n">prange</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-28"><a href="#Corr-28"><span class="linenos">  28</span></a>        <span class="sd">&quot;&quot;&quot; Initialize a Corr object.</span>
+</span><span id="Corr-29"><a href="#Corr-29"><span class="linenos">  29</span></a>
+</span><span id="Corr-30"><a href="#Corr-30"><span class="linenos">  30</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-31"><a href="#Corr-31"><span class="linenos">  31</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-32"><a href="#Corr-32"><span class="linenos">  32</span></a><span class="sd">        data_input : list or array</span>
+</span><span id="Corr-33"><a href="#Corr-33"><span class="linenos">  33</span></a><span class="sd">            list of Obs or list of arrays of Obs or array of Corrs</span>
+</span><span id="Corr-34"><a href="#Corr-34"><span class="linenos">  34</span></a><span class="sd">        padding : list, optional</span>
+</span><span id="Corr-35"><a href="#Corr-35"><span class="linenos">  35</span></a><span class="sd">            List with two entries where the first labels the padding</span>
+</span><span id="Corr-36"><a href="#Corr-36"><span class="linenos">  36</span></a><span class="sd">            at the front of the correlator and the second the padding</span>
+</span><span id="Corr-37"><a href="#Corr-37"><span class="linenos">  37</span></a><span class="sd">            at the back.</span>
+</span><span id="Corr-38"><a href="#Corr-38"><span class="linenos">  38</span></a><span class="sd">        prange : list, optional</span>
+</span><span id="Corr-39"><a href="#Corr-39"><span class="linenos">  39</span></a><span class="sd">            List containing the first and last timeslice of the plateau</span>
+</span><span id="Corr-40"><a href="#Corr-40"><span class="linenos">  40</span></a><span class="sd">            region indentified for this correlator.</span>
+</span><span id="Corr-41"><a href="#Corr-41"><span class="linenos">  41</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-42"><a href="#Corr-42"><span class="linenos">  42</span></a>
+</span><span id="Corr-43"><a href="#Corr-43"><span class="linenos">  43</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data_input</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="Corr-44"><a href="#Corr-44"><span class="linenos">  44</span></a>
+</span><span id="Corr-45"><a href="#Corr-45"><span class="linenos">  45</span></a>            <span class="c1"># This only works, if the array fulfills the conditions below</span>
+</span><span id="Corr-46"><a href="#Corr-46"><span class="linenos">  46</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span> <span class="ow">and</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
+</span><span id="Corr-47"><a href="#Corr-47"><span class="linenos">  47</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Incompatible array shape&quot;</span><span class="p">)</span>
+</span><span id="Corr-48"><a href="#Corr-48"><span class="linenos">  48</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">Corr</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
+</span><span id="Corr-49"><a href="#Corr-49"><span class="linenos">  49</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;If the input is an array, its elements must be of type pe.Corr&quot;</span><span class="p">)</span>
+</span><span id="Corr-50"><a href="#Corr-50"><span class="linenos">  50</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
+</span><span id="Corr-51"><a href="#Corr-51"><span class="linenos">  51</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only construct matrix correlator from single valued correlators&quot;</span><span class="p">)</span>
+</span><span id="Corr-52"><a href="#Corr-52"><span class="linenos">  52</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">T</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]))</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-53"><a href="#Corr-53"><span class="linenos">  53</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All input Correlators must be defined over the same timeslices.&quot;</span><span class="p">)</span>
+</span><span id="Corr-54"><a href="#Corr-54"><span class="linenos">  54</span></a>
+</span><span id="Corr-55"><a href="#Corr-55"><span class="linenos">  55</span></a>            <span class="n">T</span> <span class="o">=</span> <span class="n">data_input</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">T</span>
+</span><span id="Corr-56"><a href="#Corr-56"><span class="linenos">  56</span></a>            <span class="n">N</span> <span class="o">=</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr-57"><a href="#Corr-57"><span class="linenos">  57</span></a>            <span class="n">input_as_list</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-58"><a href="#Corr-58"><span class="linenos">  58</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-59"><a href="#Corr-59"><span class="linenos">  59</span></a>                <span class="k">if</span> <span class="nb">any</span><span class="p">([(</span><span class="n">item</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
+</span><span id="Corr-60"><a href="#Corr-60"><span class="linenos">  60</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([(</span><span class="n">item</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
+</span><span id="Corr-61"><a href="#Corr-61"><span class="linenos">  61</span></a>                        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Input ill-defined at different timeslices. Conversion leads to data loss!&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="Corr-62"><a href="#Corr-62"><span class="linenos">  62</span></a>                    <span class="n">input_as_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-63"><a href="#Corr-63"><span class="linenos">  63</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-64"><a href="#Corr-64"><span class="linenos">  64</span></a>                    <span class="n">array_at_timeslace</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;object&quot;</span><span class="p">)</span>
+</span><span id="Corr-65"><a href="#Corr-65"><span class="linenos">  65</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr-66"><a href="#Corr-66"><span class="linenos">  66</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr-67"><a href="#Corr-67"><span class="linenos">  67</span></a>                            <span class="n">array_at_timeslace</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">data_input</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">][</span><span class="n">t</span><span class="p">]</span>
+</span><span id="Corr-68"><a href="#Corr-68"><span class="linenos">  68</span></a>                    <span class="n">input_as_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">array_at_timeslace</span><span class="p">)</span>
+</span><span id="Corr-69"><a href="#Corr-69"><span class="linenos">  69</span></a>            <span class="n">data_input</span> <span class="o">=</span> <span class="n">input_as_list</span>
+</span><span id="Corr-70"><a href="#Corr-70"><span class="linenos">  70</span></a>
+</span><span id="Corr-71"><a href="#Corr-71"><span class="linenos">  71</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data_input</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="Corr-72"><a href="#Corr-72"><span class="linenos">  72</span></a>
+</span><span id="Corr-73"><a href="#Corr-73"><span class="linenos">  73</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">))</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
+</span><span id="Corr-74"><a href="#Corr-74"><span class="linenos">  74</span></a>                <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">data_input</span><span class="p">)</span>
+</span><span id="Corr-75"><a href="#Corr-75"><span class="linenos">  75</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">item</span><span class="p">])</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]</span>
+</span><span id="Corr-76"><a href="#Corr-76"><span class="linenos">  76</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">))</span> <span class="ow">or</span> <span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
+</span><span id="Corr-77"><a href="#Corr-77"><span class="linenos">  77</span></a>                <span class="n">_assert_equal_properties</span><span class="p">([</span><span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">data_input</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span>
+</span><span id="Corr-78"><a href="#Corr-78"><span class="linenos">  78</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">item</span><span class="p">])</span> <span class="k">if</span> <span class="n">item</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]</span>
+</span><span id="Corr-79"><a href="#Corr-79"><span class="linenos">  79</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="Corr-80"><a href="#Corr-80"><span class="linenos">  80</span></a>
+</span><span id="Corr-81"><a href="#Corr-81"><span class="linenos">  81</span></a>            <span class="k">elif</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span> <span class="ow">or</span> <span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">])</span> <span class="ow">and</span> <span class="nb">any</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
+</span><span id="Corr-82"><a href="#Corr-82"><span class="linenos">  82</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="n">data_input</span>
+</span><span id="Corr-83"><a href="#Corr-83"><span class="linenos">  83</span></a>                <span class="n">noNull</span> <span class="o">=</span> <span class="p">[</span><span class="n">a</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">a</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)]</span>  <span class="c1"># To check if the matrices are correct for all undefined elements</span>
+</span><span id="Corr-84"><a href="#Corr-84"><span class="linenos">  84</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr-85"><a href="#Corr-85"><span class="linenos">  85</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">!=</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
+</span><span id="Corr-86"><a href="#Corr-86"><span class="linenos">  86</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Smearing matrices are not NxN&quot;</span><span class="p">)</span>
+</span><span id="Corr-87"><a href="#Corr-87"><span class="linenos">  87</span></a>                <span class="k">if</span> <span class="p">(</span><span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">noNull</span><span class="p">])):</span>
+</span><span id="Corr-88"><a href="#Corr-88"><span class="linenos">  88</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Items in data_input are not of identical shape.&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noNull</span><span class="p">))</span>
+</span><span id="Corr-89"><a href="#Corr-89"><span class="linenos">  89</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-90"><a href="#Corr-90"><span class="linenos">  90</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;data_input contains item of wrong type&quot;</span><span class="p">)</span>
+</span><span id="Corr-91"><a href="#Corr-91"><span class="linenos">  91</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-92"><a href="#Corr-92"><span class="linenos">  92</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Data input was not given as list or correct array&quot;</span><span class="p">)</span>
+</span><span id="Corr-93"><a href="#Corr-93"><span class="linenos">  93</span></a>
+</span><span id="Corr-94"><a href="#Corr-94"><span class="linenos">  94</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="Corr-95"><a href="#Corr-95"><span class="linenos">  95</span></a>
+</span><span id="Corr-96"><a href="#Corr-96"><span class="linenos">  96</span></a>        <span class="c1"># An undefined timeslice is represented by the None object</span>
+</span><span id="Corr-97"><a href="#Corr-97"><span class="linenos">  97</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">padding</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">+</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">padding</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="Corr-98"><a href="#Corr-98"><span class="linenos">  98</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span>
+</span><span id="Corr-99"><a href="#Corr-99"><span class="linenos">  99</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">prange</span>
+</span><span id="Corr-100"><a href="#Corr-100"><span class="linenos"> 100</span></a>
+</span><span id="Corr-101"><a href="#Corr-101"><span class="linenos"> 101</span></a>    <span class="k">def</span> <span class="fm">__getitem__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">idx</span><span class="p">):</span>
+</span><span id="Corr-102"><a href="#Corr-102"><span class="linenos"> 102</span></a>        <span class="sd">&quot;&quot;&quot;Return the content of timeslice idx&quot;&quot;&quot;</span>
+</span><span id="Corr-103"><a href="#Corr-103"><span class="linenos"> 103</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-104"><a href="#Corr-104"><span class="linenos"> 104</span></a>            <span class="k">return</span> <span class="kc">None</span>
+</span><span id="Corr-105"><a href="#Corr-105"><span class="linenos"> 105</span></a>        <span class="k">elif</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-106"><a href="#Corr-106"><span class="linenos"> 106</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr-107"><a href="#Corr-107"><span class="linenos"> 107</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-108"><a href="#Corr-108"><span class="linenos"> 108</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span>
+</span><span id="Corr-109"><a href="#Corr-109"><span class="linenos"> 109</span></a>
+</span><span id="Corr-110"><a href="#Corr-110"><span class="linenos"> 110</span></a>    <span class="nd">@property</span>
+</span><span id="Corr-111"><a href="#Corr-111"><span class="linenos"> 111</span></a>    <span class="k">def</span> <span class="nf">reweighted</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-112"><a href="#Corr-112"><span class="linenos"> 112</span></a>        <span class="n">bool_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">reweighted</span><span class="p">,</span> <span class="n">o</span><span class="p">))</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]])</span>
+</span><span id="Corr-113"><a href="#Corr-113"><span class="linenos"> 113</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">bool_array</span> <span class="o">==</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr-114"><a href="#Corr-114"><span class="linenos"> 114</span></a>            <span class="k">return</span> <span class="kc">True</span>
+</span><span id="Corr-115"><a href="#Corr-115"><span class="linenos"> 115</span></a>        <span class="k">elif</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">bool_array</span> <span class="o">==</span> <span class="mi">0</span><span class="p">):</span>
+</span><span id="Corr-116"><a href="#Corr-116"><span class="linenos"> 116</span></a>            <span class="k">return</span> <span class="kc">False</span>
+</span><span id="Corr-117"><a href="#Corr-117"><span class="linenos"> 117</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-118"><a href="#Corr-118"><span class="linenos"> 118</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Reweighting status of correlator corrupted.&quot;</span><span class="p">)</span>
+</span><span id="Corr-119"><a href="#Corr-119"><span class="linenos"> 119</span></a>
+</span><span id="Corr-120"><a href="#Corr-120"><span class="linenos"> 120</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Corr-121"><a href="#Corr-121"><span class="linenos"> 121</span></a>        <span class="sd">&quot;&quot;&quot;Apply the gamma method to the content of the Corr.&quot;&quot;&quot;</span>
+</span><span id="Corr-122"><a href="#Corr-122"><span class="linenos"> 122</span></a>        <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">:</span>
+</span><span id="Corr-123"><a href="#Corr-123"><span class="linenos"> 123</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-124"><a href="#Corr-124"><span class="linenos"> 124</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-125"><a href="#Corr-125"><span class="linenos"> 125</span></a>                    <span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="Corr-126"><a href="#Corr-126"><span class="linenos"> 126</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-127"><a href="#Corr-127"><span class="linenos"> 127</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr-128"><a href="#Corr-128"><span class="linenos"> 128</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr-129"><a href="#Corr-129"><span class="linenos"> 129</span></a>                            <span class="n">item</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="Corr-130"><a href="#Corr-130"><span class="linenos"> 130</span></a>
+</span><span id="Corr-131"><a href="#Corr-131"><span class="linenos"> 131</span></a>    <span class="k">def</span> <span class="nf">projected</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">vector_l</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">vector_r</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="Corr-132"><a href="#Corr-132"><span class="linenos"> 132</span></a>        <span class="sd">&quot;&quot;&quot;We need to project the Correlator with a Vector to get a single value at each timeslice.</span>
+</span><span id="Corr-133"><a href="#Corr-133"><span class="linenos"> 133</span></a>
+</span><span id="Corr-134"><a href="#Corr-134"><span class="linenos"> 134</span></a><span class="sd">        The method can use one or two vectors.</span>
+</span><span id="Corr-135"><a href="#Corr-135"><span class="linenos"> 135</span></a><span class="sd">        If two are specified it returns v1@G@v2 (the order might be very important.)</span>
+</span><span id="Corr-136"><a href="#Corr-136"><span class="linenos"> 136</span></a><span class="sd">        By default it will return the lowest source, which usually means unsmeared-unsmeared (0,0), but it does not have to</span>
+</span><span id="Corr-137"><a href="#Corr-137"><span class="linenos"> 137</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-138"><a href="#Corr-138"><span class="linenos"> 138</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-139"><a href="#Corr-139"><span class="linenos"> 139</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to project a Corr, that already has N=1.&quot;</span><span class="p">)</span>
+</span><span id="Corr-140"><a href="#Corr-140"><span class="linenos"> 140</span></a>
+</span><span id="Corr-141"><a href="#Corr-141"><span class="linenos"> 141</span></a>        <span class="k">if</span> <span class="n">vector_l</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-142"><a href="#Corr-142"><span class="linenos"> 142</span></a>            <span class="n">vector_l</span><span class="p">,</span> <span class="n">vector_r</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="mf">1.</span><span class="p">]</span> <span class="o">+</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.</span><span class="p">]),</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="mf">1.</span><span class="p">]</span> <span class="o">+</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.</span><span class="p">])</span>
+</span><span id="Corr-143"><a href="#Corr-143"><span class="linenos"> 143</span></a>        <span class="k">elif</span><span class="p">(</span><span class="n">vector_r</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-144"><a href="#Corr-144"><span class="linenos"> 144</span></a>            <span class="n">vector_r</span> <span class="o">=</span> <span class="n">vector_l</span>
+</span><span id="Corr-145"><a href="#Corr-145"><span class="linenos"> 145</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_r</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="Corr-146"><a href="#Corr-146"><span class="linenos"> 146</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vector_l</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="Corr-147"><a href="#Corr-147"><span class="linenos"> 147</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Length of vector list must be equal to T&quot;</span><span class="p">)</span>
+</span><span id="Corr-148"><a href="#Corr-148"><span class="linenos"> 148</span></a>            <span class="n">vector_r</span> <span class="o">=</span> <span class="p">[</span><span class="n">vector_r</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
+</span><span id="Corr-149"><a href="#Corr-149"><span class="linenos"> 149</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_r</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="Corr-150"><a href="#Corr-150"><span class="linenos"> 150</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vector_r</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="Corr-151"><a href="#Corr-151"><span class="linenos"> 151</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Length of vector list must be equal to T&quot;</span><span class="p">)</span>
+</span><span id="Corr-152"><a href="#Corr-152"><span class="linenos"> 152</span></a>            <span class="n">vector_l</span> <span class="o">=</span> <span class="p">[</span><span class="n">vector_l</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
+</span><span id="Corr-153"><a href="#Corr-153"><span class="linenos"> 153</span></a>
+</span><span id="Corr-154"><a href="#Corr-154"><span class="linenos"> 154</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="Corr-155"><a href="#Corr-155"><span class="linenos"> 155</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">vector_l</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="n">vector_r</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,):</span>
+</span><span id="Corr-156"><a href="#Corr-156"><span class="linenos"> 156</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Vectors are of wrong shape!&quot;</span><span class="p">)</span>
+</span><span id="Corr-157"><a href="#Corr-157"><span class="linenos"> 157</span></a>            <span class="k">if</span> <span class="n">normalize</span><span class="p">:</span>
+</span><span id="Corr-158"><a href="#Corr-158"><span class="linenos"> 158</span></a>                <span class="n">vector_l</span><span class="p">,</span> <span class="n">vector_r</span> <span class="o">=</span> <span class="n">vector_l</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">vector_l</span> <span class="o">@</span> <span class="n">vector_l</span><span class="p">)),</span> <span class="n">vector_r</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">vector_r</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">)</span>
+</span><span id="Corr-159"><a href="#Corr-159"><span class="linenos"> 159</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">vector_l</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">item</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">])</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr-160"><a href="#Corr-160"><span class="linenos"> 160</span></a>
+</span><span id="Corr-161"><a href="#Corr-161"><span class="linenos"> 161</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-162"><a href="#Corr-162"><span class="linenos"> 162</span></a>            <span class="c1"># There are no checks here yet. There are so many possible scenarios, where this can go wrong.</span>
+</span><span id="Corr-163"><a href="#Corr-163"><span class="linenos"> 163</span></a>            <span class="k">if</span> <span class="n">normalize</span><span class="p">:</span>
+</span><span id="Corr-164"><a href="#Corr-164"><span class="linenos"> 164</span></a>                <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-165"><a href="#Corr-165"><span class="linenos"> 165</span></a>                    <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">])),</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="Corr-166"><a href="#Corr-166"><span class="linenos"> 166</span></a>
+</span><span id="Corr-167"><a href="#Corr-167"><span class="linenos"> 167</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]])</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)]</span>
+</span><span id="Corr-168"><a href="#Corr-168"><span class="linenos"> 168</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+</span><span id="Corr-169"><a href="#Corr-169"><span class="linenos"> 169</span></a>
+</span><span id="Corr-170"><a href="#Corr-170"><span class="linenos"> 170</span></a>    <span class="k">def</span> <span class="nf">item</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">):</span>
+</span><span id="Corr-171"><a href="#Corr-171"><span class="linenos"> 171</span></a>        <span class="sd">&quot;&quot;&quot;Picks the element [i,j] from every matrix and returns a correlator containing one Obs per timeslice.</span>
+</span><span id="Corr-172"><a href="#Corr-172"><span class="linenos"> 172</span></a>
+</span><span id="Corr-173"><a href="#Corr-173"><span class="linenos"> 173</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-174"><a href="#Corr-174"><span class="linenos"> 174</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-175"><a href="#Corr-175"><span class="linenos"> 175</span></a><span class="sd">        i : int</span>
+</span><span id="Corr-176"><a href="#Corr-176"><span class="linenos"> 176</span></a><span class="sd">            First index to be picked.</span>
+</span><span id="Corr-177"><a href="#Corr-177"><span class="linenos"> 177</span></a><span class="sd">        j : int</span>
+</span><span id="Corr-178"><a href="#Corr-178"><span class="linenos"> 178</span></a><span class="sd">            Second index to be picked.</span>
+</span><span id="Corr-179"><a href="#Corr-179"><span class="linenos"> 179</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-180"><a href="#Corr-180"><span class="linenos"> 180</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-181"><a href="#Corr-181"><span class="linenos"> 181</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to pick item from projected Corr&quot;</span><span class="p">)</span>
+</span><span id="Corr-182"><a href="#Corr-182"><span class="linenos"> 182</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span><span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">item</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr-183"><a href="#Corr-183"><span class="linenos"> 183</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+</span><span id="Corr-184"><a href="#Corr-184"><span class="linenos"> 184</span></a>
+</span><span id="Corr-185"><a href="#Corr-185"><span class="linenos"> 185</span></a>    <span class="k">def</span> <span class="nf">plottable</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-186"><a href="#Corr-186"><span class="linenos"> 186</span></a>        <span class="sd">&quot;&quot;&quot;Outputs the correlator in a plotable format.</span>
+</span><span id="Corr-187"><a href="#Corr-187"><span class="linenos"> 187</span></a>
+</span><span id="Corr-188"><a href="#Corr-188"><span class="linenos"> 188</span></a><span class="sd">        Outputs three lists containing the timeslice index, the value on each</span>
+</span><span id="Corr-189"><a href="#Corr-189"><span class="linenos"> 189</span></a><span class="sd">        timeslice and the error on each timeslice.</span>
+</span><span id="Corr-190"><a href="#Corr-190"><span class="linenos"> 190</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-191"><a href="#Corr-191"><span class="linenos"> 191</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-192"><a href="#Corr-192"><span class="linenos"> 192</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only make Corr[N=1] plottable&quot;</span><span class="p">)</span>
+</span><span id="Corr-193"><a href="#Corr-193"><span class="linenos"> 193</span></a>        <span class="n">x_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="Corr-194"><a href="#Corr-194"><span class="linenos"> 194</span></a>        <span class="n">y_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="Corr-195"><a href="#Corr-195"><span class="linenos"> 195</span></a>        <span class="n">y_err_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="Corr-196"><a href="#Corr-196"><span class="linenos"> 196</span></a>
+</span><span id="Corr-197"><a href="#Corr-197"><span class="linenos"> 197</span></a>        <span class="k">return</span> <span class="n">x_list</span><span class="p">,</span> <span class="n">y_list</span><span class="p">,</span> <span class="n">y_err_list</span>
+</span><span id="Corr-198"><a href="#Corr-198"><span class="linenos"> 198</span></a>
+</span><span id="Corr-199"><a href="#Corr-199"><span class="linenos"> 199</span></a>    <span class="k">def</span> <span class="nf">symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-200"><a href="#Corr-200"><span class="linenos"> 200</span></a>        <span class="sd">&quot;&quot;&quot; Symmetrize the correlator around x0=0.&quot;&quot;&quot;</span>
+</span><span id="Corr-201"><a href="#Corr-201"><span class="linenos"> 201</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">%</span> <span class="mi">2</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Corr-202"><a href="#Corr-202"><span class="linenos"> 202</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can not symmetrize odd T&quot;</span><span class="p">)</span>
+</span><span id="Corr-203"><a href="#Corr-203"><span class="linenos"> 203</span></a>
+</span><span id="Corr-204"><a href="#Corr-204"><span class="linenos"> 204</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">))</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Corr-205"><a href="#Corr-205"><span class="linenos"> 205</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlator does not seem to be symmetric around x0=0.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="Corr-206"><a href="#Corr-206"><span class="linenos"> 206</span></a>
+</span><span id="Corr-207"><a href="#Corr-207"><span class="linenos"> 207</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
+</span><span id="Corr-208"><a href="#Corr-208"><span class="linenos"> 208</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-209"><a href="#Corr-209"><span class="linenos"> 209</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-210"><a href="#Corr-210"><span class="linenos"> 210</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-211"><a href="#Corr-211"><span class="linenos"> 211</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-212"><a href="#Corr-212"><span class="linenos"> 212</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]))</span>
+</span><span id="Corr-213"><a href="#Corr-213"><span class="linenos"> 213</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr-214"><a href="#Corr-214"><span class="linenos"> 214</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr could not be symmetrized: No redundant values&quot;</span><span class="p">)</span>
+</span><span id="Corr-215"><a href="#Corr-215"><span class="linenos"> 215</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="Corr-216"><a href="#Corr-216"><span class="linenos"> 216</span></a>
+</span><span id="Corr-217"><a href="#Corr-217"><span class="linenos"> 217</span></a>    <span class="k">def</span> <span class="nf">anti_symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-218"><a href="#Corr-218"><span class="linenos"> 218</span></a>        <span class="sd">&quot;&quot;&quot;Anti-symmetrize the correlator around x0=0.&quot;&quot;&quot;</span>
+</span><span id="Corr-219"><a href="#Corr-219"><span class="linenos"> 219</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">%</span> <span class="mi">2</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Corr-220"><a href="#Corr-220"><span class="linenos"> 220</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can not symmetrize odd T&quot;</span><span class="p">)</span>
+</span><span id="Corr-221"><a href="#Corr-221"><span class="linenos"> 221</span></a>
+</span><span id="Corr-222"><a href="#Corr-222"><span class="linenos"> 222</span></a>        <span class="n">test</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
+</span><span id="Corr-223"><a href="#Corr-223"><span class="linenos"> 223</span></a>        <span class="n">test</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="Corr-224"><a href="#Corr-224"><span class="linenos"> 224</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">is_zero_within_error</span><span class="p">(</span><span class="mi">3</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">test</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]):</span>
+</span><span id="Corr-225"><a href="#Corr-225"><span class="linenos"> 225</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlator does not seem to be anti-symmetric around x0=0.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="Corr-226"><a href="#Corr-226"><span class="linenos"> 226</span></a>
+</span><span id="Corr-227"><a href="#Corr-227"><span class="linenos"> 227</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
+</span><span id="Corr-228"><a href="#Corr-228"><span class="linenos"> 228</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-229"><a href="#Corr-229"><span class="linenos"> 229</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-230"><a href="#Corr-230"><span class="linenos"> 230</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-231"><a href="#Corr-231"><span class="linenos"> 231</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-232"><a href="#Corr-232"><span class="linenos"> 232</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]))</span>
+</span><span id="Corr-233"><a href="#Corr-233"><span class="linenos"> 233</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr-234"><a href="#Corr-234"><span class="linenos"> 234</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr could not be symmetrized: No redundant values&quot;</span><span class="p">)</span>
+</span><span id="Corr-235"><a href="#Corr-235"><span class="linenos"> 235</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="Corr-236"><a href="#Corr-236"><span class="linenos"> 236</span></a>
+</span><span id="Corr-237"><a href="#Corr-237"><span class="linenos"> 237</span></a>    <span class="k">def</span> <span class="nf">matrix_symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-238"><a href="#Corr-238"><span class="linenos"> 238</span></a>        <span class="sd">&quot;&quot;&quot;Symmetrizes the correlator matrices on every timeslice.&quot;&quot;&quot;</span>
+</span><span id="Corr-239"><a href="#Corr-239"><span class="linenos"> 239</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-240"><a href="#Corr-240"><span class="linenos"> 240</span></a>            <span class="n">transposed</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">G</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">G</span><span class="o">.</span><span class="n">T</span> <span class="k">for</span> <span class="n">G</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr-241"><a href="#Corr-241"><span class="linenos"> 241</span></a>            <span class="k">return</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">transposed</span><span class="p">)</span> <span class="o">+</span> <span class="bp">self</span><span class="p">)</span>
+</span><span id="Corr-242"><a href="#Corr-242"><span class="linenos"> 242</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-243"><a href="#Corr-243"><span class="linenos"> 243</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to symmetrize a correlator matrix, that already has N=1.&quot;</span><span class="p">)</span>
+</span><span id="Corr-244"><a href="#Corr-244"><span class="linenos"> 244</span></a>
+</span><span id="Corr-245"><a href="#Corr-245"><span class="linenos"> 245</span></a>    <span class="k">def</span> <span class="nf">GEVP</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="s2">&quot;Eigenvalue&quot;</span><span class="p">):</span>
+</span><span id="Corr-246"><a href="#Corr-246"><span class="linenos"> 246</span></a>        <span class="sd">&quot;&quot;&quot;Solve the general eigenvalue problem on the current correlator</span>
+</span><span id="Corr-247"><a href="#Corr-247"><span class="linenos"> 247</span></a>
+</span><span id="Corr-248"><a href="#Corr-248"><span class="linenos"> 248</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-249"><a href="#Corr-249"><span class="linenos"> 249</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-250"><a href="#Corr-250"><span class="linenos"> 250</span></a><span class="sd">        t0 : int</span>
+</span><span id="Corr-251"><a href="#Corr-251"><span class="linenos"> 251</span></a><span class="sd">            The time t0 for G(t)v= lambda G(t_0)v</span>
+</span><span id="Corr-252"><a href="#Corr-252"><span class="linenos"> 252</span></a><span class="sd">        ts : int</span>
+</span><span id="Corr-253"><a href="#Corr-253"><span class="linenos"> 253</span></a><span class="sd">            fixed time G(t_s)v= lambda G(t_0)v  if return_list=False</span>
+</span><span id="Corr-254"><a href="#Corr-254"><span class="linenos"> 254</span></a><span class="sd">            If return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</span>
+</span><span id="Corr-255"><a href="#Corr-255"><span class="linenos"> 255</span></a><span class="sd">        state : int</span>
+</span><span id="Corr-256"><a href="#Corr-256"><span class="linenos"> 256</span></a><span class="sd">            The state one is interested in, ordered by energy. The lowest state is zero.</span>
+</span><span id="Corr-257"><a href="#Corr-257"><span class="linenos"> 257</span></a><span class="sd">        sorted_list : string</span>
+</span><span id="Corr-258"><a href="#Corr-258"><span class="linenos"> 258</span></a><span class="sd">            if this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.</span>
+</span><span id="Corr-259"><a href="#Corr-259"><span class="linenos"> 259</span></a><span class="sd">             &quot;Eigenvalue&quot;  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.</span>
+</span><span id="Corr-260"><a href="#Corr-260"><span class="linenos"> 260</span></a><span class="sd">             &quot;Eigenvector&quot; -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.</span>
+</span><span id="Corr-261"><a href="#Corr-261"><span class="linenos"> 261</span></a><span class="sd">                              The reference state is identified by its eigenvalue at t=ts</span>
+</span><span id="Corr-262"><a href="#Corr-262"><span class="linenos"> 262</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-263"><a href="#Corr-263"><span class="linenos"> 263</span></a>
+</span><span id="Corr-264"><a href="#Corr-264"><span class="linenos"> 264</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-265"><a href="#Corr-265"><span class="linenos"> 265</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;GEVP methods only works on correlator matrices and not single correlators.&quot;</span><span class="p">)</span>
+</span><span id="Corr-266"><a href="#Corr-266"><span class="linenos"> 266</span></a>
+</span><span id="Corr-267"><a href="#Corr-267"><span class="linenos"> 267</span></a>        <span class="n">symmetric_corr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">matrix_symmetric</span><span class="p">()</span>
+</span><span id="Corr-268"><a href="#Corr-268"><span class="linenos"> 268</span></a>        <span class="k">if</span> <span class="n">sorted_list</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-269"><a href="#Corr-269"><span class="linenos"> 269</span></a>            <span class="k">if</span> <span class="p">(</span><span class="n">ts</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-270"><a href="#Corr-270"><span class="linenos"> 270</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;ts is required if sorted_list=None&quot;</span><span class="p">)</span>
+</span><span id="Corr-271"><a href="#Corr-271"><span class="linenos"> 271</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t0</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">ts</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-272"><a href="#Corr-272"><span class="linenos"> 272</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr not defined at t0/ts&quot;</span><span class="p">)</span>
+</span><span id="Corr-273"><a href="#Corr-273"><span class="linenos"> 273</span></a>            <span class="n">G0</span><span class="p">,</span> <span class="n">Gt</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">)</span>
+</span><span id="Corr-274"><a href="#Corr-274"><span class="linenos"> 274</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr-275"><a href="#Corr-275"><span class="linenos"> 275</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr-276"><a href="#Corr-276"><span class="linenos"> 276</span></a>                    <span class="n">G0</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t0</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
+</span><span id="Corr-277"><a href="#Corr-277"><span class="linenos"> 277</span></a>                    <span class="n">Gt</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">ts</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
+</span><span id="Corr-278"><a href="#Corr-278"><span class="linenos"> 278</span></a>
+</span><span id="Corr-279"><a href="#Corr-279"><span class="linenos"> 279</span></a>            <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
+</span><span id="Corr-280"><a href="#Corr-280"><span class="linenos"> 280</span></a>            <span class="n">sp_vec</span> <span class="o">=</span> <span class="n">sp_vecs</span><span class="p">[</span><span class="n">state</span><span class="p">]</span>
+</span><span id="Corr-281"><a href="#Corr-281"><span class="linenos"> 281</span></a>            <span class="k">return</span> <span class="n">sp_vec</span>
+</span><span id="Corr-282"><a href="#Corr-282"><span class="linenos"> 282</span></a>        <span class="k">elif</span> <span class="n">sorted_list</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;Eigenvalue&quot;</span><span class="p">,</span> <span class="s2">&quot;Eigenvector&quot;</span><span class="p">]:</span>
+</span><span id="Corr-283"><a href="#Corr-283"><span class="linenos"> 283</span></a>            <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvalue&quot;</span> <span class="ow">and</span> <span class="n">ts</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-284"><a href="#Corr-284"><span class="linenos"> 284</span></a>                <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;ts has no effect when sorting by eigenvalue is chosen.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="Corr-285"><a href="#Corr-285"><span class="linenos"> 285</span></a>            <span class="n">all_vecs</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-286"><a href="#Corr-286"><span class="linenos"> 286</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-287"><a href="#Corr-287"><span class="linenos"> 287</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="Corr-288"><a href="#Corr-288"><span class="linenos"> 288</span></a>                    <span class="n">G0</span><span class="p">,</span> <span class="n">Gt</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">)</span>
+</span><span id="Corr-289"><a href="#Corr-289"><span class="linenos"> 289</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr-290"><a href="#Corr-290"><span class="linenos"> 290</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr-291"><a href="#Corr-291"><span class="linenos"> 291</span></a>                            <span class="n">G0</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t0</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
+</span><span id="Corr-292"><a href="#Corr-292"><span class="linenos"> 292</span></a>                            <span class="n">Gt</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
+</span><span id="Corr-293"><a href="#Corr-293"><span class="linenos"> 293</span></a>
+</span><span id="Corr-294"><a href="#Corr-294"><span class="linenos"> 294</span></a>                    <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
+</span><span id="Corr-295"><a href="#Corr-295"><span class="linenos"> 295</span></a>                    <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvalue&quot;</span><span class="p">:</span>
+</span><span id="Corr-296"><a href="#Corr-296"><span class="linenos"> 296</span></a>                        <span class="n">sp_vec</span> <span class="o">=</span> <span class="n">sp_vecs</span><span class="p">[</span><span class="n">state</span><span class="p">]</span>
+</span><span id="Corr-297"><a href="#Corr-297"><span class="linenos"> 297</span></a>                        <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">sp_vec</span><span class="p">)</span>
+</span><span id="Corr-298"><a href="#Corr-298"><span class="linenos"> 298</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-299"><a href="#Corr-299"><span class="linenos"> 299</span></a>                        <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">sp_vecs</span><span class="p">)</span>
+</span><span id="Corr-300"><a href="#Corr-300"><span class="linenos"> 300</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="Corr-301"><a href="#Corr-301"><span class="linenos"> 301</span></a>                    <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-302"><a href="#Corr-302"><span class="linenos"> 302</span></a>            <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvector&quot;</span><span class="p">:</span>
+</span><span id="Corr-303"><a href="#Corr-303"><span class="linenos"> 303</span></a>                <span class="k">if</span> <span class="p">(</span><span class="n">ts</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-304"><a href="#Corr-304"><span class="linenos"> 304</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;ts is required for the Eigenvector sorting method.&quot;</span><span class="p">)</span>
+</span><span id="Corr-305"><a href="#Corr-305"><span class="linenos"> 305</span></a>                <span class="n">all_vecs</span> <span class="o">=</span> <span class="n">_sort_vectors</span><span class="p">(</span><span class="n">all_vecs</span><span class="p">,</span> <span class="n">ts</span><span class="p">)</span>
+</span><span id="Corr-306"><a href="#Corr-306"><span class="linenos"> 306</span></a>                <span class="n">all_vecs</span> <span class="o">=</span> <span class="p">[</span><span class="n">a</span><span class="p">[</span><span class="n">state</span><span class="p">]</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="n">all_vecs</span><span class="p">]</span>
+</span><span id="Corr-307"><a href="#Corr-307"><span class="linenos"> 307</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-308"><a href="#Corr-308"><span class="linenos"> 308</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unkown value for &#39;sorted_list&#39;.&quot;</span><span class="p">)</span>
+</span><span id="Corr-309"><a href="#Corr-309"><span class="linenos"> 309</span></a>
+</span><span id="Corr-310"><a href="#Corr-310"><span class="linenos"> 310</span></a>        <span class="k">return</span> <span class="n">all_vecs</span>
+</span><span id="Corr-311"><a href="#Corr-311"><span class="linenos"> 311</span></a>
+</span><span id="Corr-312"><a href="#Corr-312"><span class="linenos"> 312</span></a>    <span class="k">def</span> <span class="nf">Eigenvalue</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-313"><a href="#Corr-313"><span class="linenos"> 313</span></a>        <span class="sd">&quot;&quot;&quot;Determines the eigenvalue of the GEVP by solving and projecting the correlator</span>
+</span><span id="Corr-314"><a href="#Corr-314"><span class="linenos"> 314</span></a>
+</span><span id="Corr-315"><a href="#Corr-315"><span class="linenos"> 315</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-316"><a href="#Corr-316"><span class="linenos"> 316</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-317"><a href="#Corr-317"><span class="linenos"> 317</span></a><span class="sd">        t0 : int</span>
+</span><span id="Corr-318"><a href="#Corr-318"><span class="linenos"> 318</span></a><span class="sd">            The time t0 for G(t)v= lambda G(t_0)v</span>
+</span><span id="Corr-319"><a href="#Corr-319"><span class="linenos"> 319</span></a><span class="sd">        ts : int</span>
+</span><span id="Corr-320"><a href="#Corr-320"><span class="linenos"> 320</span></a><span class="sd">            fixed time G(t_s)v= lambda G(t_0)v  if return_list=False</span>
+</span><span id="Corr-321"><a href="#Corr-321"><span class="linenos"> 321</span></a><span class="sd">            If return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</span>
+</span><span id="Corr-322"><a href="#Corr-322"><span class="linenos"> 322</span></a><span class="sd">        state : int</span>
+</span><span id="Corr-323"><a href="#Corr-323"><span class="linenos"> 323</span></a><span class="sd">            The state one is interested in ordered by energy. The lowest state is zero.</span>
+</span><span id="Corr-324"><a href="#Corr-324"><span class="linenos"> 324</span></a><span class="sd">        sorted_list : string</span>
+</span><span id="Corr-325"><a href="#Corr-325"><span class="linenos"> 325</span></a><span class="sd">            if this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.</span>
+</span><span id="Corr-326"><a href="#Corr-326"><span class="linenos"> 326</span></a><span class="sd">             &quot;Eigenvalue&quot;  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.</span>
+</span><span id="Corr-327"><a href="#Corr-327"><span class="linenos"> 327</span></a><span class="sd">             &quot;Eigenvector&quot; -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.</span>
+</span><span id="Corr-328"><a href="#Corr-328"><span class="linenos"> 328</span></a><span class="sd">                              The reference state is identified by its eigenvalue at t=ts</span>
+</span><span id="Corr-329"><a href="#Corr-329"><span class="linenos"> 329</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-330"><a href="#Corr-330"><span class="linenos"> 330</span></a>        <span class="n">vec</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">GEVP</span><span class="p">(</span><span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="n">ts</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="n">state</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="n">sorted_list</span><span class="p">)</span>
+</span><span id="Corr-331"><a href="#Corr-331"><span class="linenos"> 331</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">projected</span><span class="p">(</span><span class="n">vec</span><span class="p">)</span>
+</span><span id="Corr-332"><a href="#Corr-332"><span class="linenos"> 332</span></a>
+</span><span id="Corr-333"><a href="#Corr-333"><span class="linenos"> 333</span></a>    <span class="k">def</span> <span class="nf">Hankel</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">N</span><span class="p">,</span> <span class="n">periodic</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="Corr-334"><a href="#Corr-334"><span class="linenos"> 334</span></a>        <span class="sd">&quot;&quot;&quot;Constructs an NxN Hankel matrix</span>
+</span><span id="Corr-335"><a href="#Corr-335"><span class="linenos"> 335</span></a>
+</span><span id="Corr-336"><a href="#Corr-336"><span class="linenos"> 336</span></a><span class="sd">        C(t) c(t+1) ... c(t+n-1)</span>
+</span><span id="Corr-337"><a href="#Corr-337"><span class="linenos"> 337</span></a><span class="sd">        C(t+1) c(t+2) ... c(t+n)</span>
+</span><span id="Corr-338"><a href="#Corr-338"><span class="linenos"> 338</span></a><span class="sd">        .................</span>
+</span><span id="Corr-339"><a href="#Corr-339"><span class="linenos"> 339</span></a><span class="sd">        C(t+(n-1)) c(t+n) ... c(t+2(n-1))</span>
+</span><span id="Corr-340"><a href="#Corr-340"><span class="linenos"> 340</span></a>
+</span><span id="Corr-341"><a href="#Corr-341"><span class="linenos"> 341</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-342"><a href="#Corr-342"><span class="linenos"> 342</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-343"><a href="#Corr-343"><span class="linenos"> 343</span></a><span class="sd">        N : int</span>
+</span><span id="Corr-344"><a href="#Corr-344"><span class="linenos"> 344</span></a><span class="sd">            Dimension of the Hankel matrix</span>
+</span><span id="Corr-345"><a href="#Corr-345"><span class="linenos"> 345</span></a><span class="sd">        periodic : bool, optional</span>
+</span><span id="Corr-346"><a href="#Corr-346"><span class="linenos"> 346</span></a><span class="sd">            determines whether the matrix is extended periodically</span>
+</span><span id="Corr-347"><a href="#Corr-347"><span class="linenos"> 347</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-348"><a href="#Corr-348"><span class="linenos"> 348</span></a>
+</span><span id="Corr-349"><a href="#Corr-349"><span class="linenos"> 349</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-350"><a href="#Corr-350"><span class="linenos"> 350</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multi-operator Prony not implemented!&quot;</span><span class="p">)</span>
+</span><span id="Corr-351"><a href="#Corr-351"><span class="linenos"> 351</span></a>
+</span><span id="Corr-352"><a href="#Corr-352"><span class="linenos"> 352</span></a>        <span class="n">array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;object&quot;</span><span class="p">)</span>
+</span><span id="Corr-353"><a href="#Corr-353"><span class="linenos"> 353</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-354"><a href="#Corr-354"><span class="linenos"> 354</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-355"><a href="#Corr-355"><span class="linenos"> 355</span></a>            <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">array</span><span class="o">.</span><span class="n">copy</span><span class="p">())</span>
+</span><span id="Corr-356"><a href="#Corr-356"><span class="linenos"> 356</span></a>
+</span><span id="Corr-357"><a href="#Corr-357"><span class="linenos"> 357</span></a>        <span class="k">def</span> <span class="nf">wrap</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+</span><span id="Corr-358"><a href="#Corr-358"><span class="linenos"> 358</span></a>            <span class="k">while</span> <span class="n">i</span> <span class="o">&gt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="Corr-359"><a href="#Corr-359"><span class="linenos"> 359</span></a>                <span class="n">i</span> <span class="o">-=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
+</span><span id="Corr-360"><a href="#Corr-360"><span class="linenos"> 360</span></a>            <span class="k">return</span> <span class="n">i</span>
+</span><span id="Corr-361"><a href="#Corr-361"><span class="linenos"> 361</span></a>
+</span><span id="Corr-362"><a href="#Corr-362"><span class="linenos"> 362</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-363"><a href="#Corr-363"><span class="linenos"> 363</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr-364"><a href="#Corr-364"><span class="linenos"> 364</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr-365"><a href="#Corr-365"><span class="linenos"> 365</span></a>                    <span class="k">if</span> <span class="n">periodic</span><span class="p">:</span>
+</span><span id="Corr-366"><a href="#Corr-366"><span class="linenos"> 366</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">wrap</span><span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">)][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr-367"><a href="#Corr-367"><span class="linenos"> 367</span></a>                    <span class="k">elif</span> <span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">)</span> <span class="o">&gt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="Corr-368"><a href="#Corr-368"><span class="linenos"> 368</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="Corr-369"><a href="#Corr-369"><span class="linenos"> 369</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-370"><a href="#Corr-370"><span class="linenos"> 370</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr-371"><a href="#Corr-371"><span class="linenos"> 371</span></a>
+</span><span id="Corr-372"><a href="#Corr-372"><span class="linenos"> 372</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
+</span><span id="Corr-373"><a href="#Corr-373"><span class="linenos"> 373</span></a>
+</span><span id="Corr-374"><a href="#Corr-374"><span class="linenos"> 374</span></a>    <span class="k">def</span> <span class="nf">roll</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">dt</span><span class="p">):</span>
+</span><span id="Corr-375"><a href="#Corr-375"><span class="linenos"> 375</span></a>        <span class="sd">&quot;&quot;&quot;Periodically shift the correlator by dt timeslices</span>
+</span><span id="Corr-376"><a href="#Corr-376"><span class="linenos"> 376</span></a>
+</span><span id="Corr-377"><a href="#Corr-377"><span class="linenos"> 377</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-378"><a href="#Corr-378"><span class="linenos"> 378</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-379"><a href="#Corr-379"><span class="linenos"> 379</span></a><span class="sd">        dt : int</span>
+</span><span id="Corr-380"><a href="#Corr-380"><span class="linenos"> 380</span></a><span class="sd">            number of timeslices</span>
+</span><span id="Corr-381"><a href="#Corr-381"><span class="linenos"> 381</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-382"><a href="#Corr-382"><span class="linenos"> 382</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">roll</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">),</span> <span class="n">dt</span><span class="p">)))</span>
+</span><span id="Corr-383"><a href="#Corr-383"><span class="linenos"> 383</span></a>
+</span><span id="Corr-384"><a href="#Corr-384"><span class="linenos"> 384</span></a>    <span class="k">def</span> <span class="nf">reverse</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-385"><a href="#Corr-385"><span class="linenos"> 385</span></a>        <span class="sd">&quot;&quot;&quot;Reverse the time ordering of the Corr&quot;&quot;&quot;</span>
+</span><span id="Corr-386"><a href="#Corr-386"><span class="linenos"> 386</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[::</span> <span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr-387"><a href="#Corr-387"><span class="linenos"> 387</span></a>
+</span><span id="Corr-388"><a href="#Corr-388"><span class="linenos"> 388</span></a>    <span class="k">def</span> <span class="nf">thin</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">spacing</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">offset</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span>
+</span><span id="Corr-389"><a href="#Corr-389"><span class="linenos"> 389</span></a>        <span class="sd">&quot;&quot;&quot;Thin out a correlator to suppress correlations</span>
+</span><span id="Corr-390"><a href="#Corr-390"><span class="linenos"> 390</span></a>
+</span><span id="Corr-391"><a href="#Corr-391"><span class="linenos"> 391</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-392"><a href="#Corr-392"><span class="linenos"> 392</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-393"><a href="#Corr-393"><span class="linenos"> 393</span></a><span class="sd">        spacing : int</span>
+</span><span id="Corr-394"><a href="#Corr-394"><span class="linenos"> 394</span></a><span class="sd">            Keep only every &#39;spacing&#39;th entry of the correlator</span>
+</span><span id="Corr-395"><a href="#Corr-395"><span class="linenos"> 395</span></a><span class="sd">        offset : int</span>
+</span><span id="Corr-396"><a href="#Corr-396"><span class="linenos"> 396</span></a><span class="sd">            Offset the equal spacing</span>
+</span><span id="Corr-397"><a href="#Corr-397"><span class="linenos"> 397</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-398"><a href="#Corr-398"><span class="linenos"> 398</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-399"><a href="#Corr-399"><span class="linenos"> 399</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-400"><a href="#Corr-400"><span class="linenos"> 400</span></a>            <span class="k">if</span> <span class="p">(</span><span class="n">offset</span> <span class="o">+</span> <span class="n">t</span><span class="p">)</span> <span class="o">%</span> <span class="n">spacing</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Corr-401"><a href="#Corr-401"><span class="linenos"> 401</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-402"><a href="#Corr-402"><span class="linenos"> 402</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-403"><a href="#Corr-403"><span class="linenos"> 403</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="Corr-404"><a href="#Corr-404"><span class="linenos"> 404</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
+</span><span id="Corr-405"><a href="#Corr-405"><span class="linenos"> 405</span></a>
+</span><span id="Corr-406"><a href="#Corr-406"><span class="linenos"> 406</span></a>    <span class="k">def</span> <span class="nf">correlate</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">partner</span><span class="p">):</span>
+</span><span id="Corr-407"><a href="#Corr-407"><span class="linenos"> 407</span></a>        <span class="sd">&quot;&quot;&quot;Correlate the correlator with another correlator or Obs</span>
+</span><span id="Corr-408"><a href="#Corr-408"><span class="linenos"> 408</span></a>
+</span><span id="Corr-409"><a href="#Corr-409"><span class="linenos"> 409</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-410"><a href="#Corr-410"><span class="linenos"> 410</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-411"><a href="#Corr-411"><span class="linenos"> 411</span></a><span class="sd">        partner : Obs or Corr</span>
+</span><span id="Corr-412"><a href="#Corr-412"><span class="linenos"> 412</span></a><span class="sd">            partner to correlate the correlator with.</span>
+</span><span id="Corr-413"><a href="#Corr-413"><span class="linenos"> 413</span></a><span class="sd">            Can either be an Obs which is correlated with all entries of the</span>
+</span><span id="Corr-414"><a href="#Corr-414"><span class="linenos"> 414</span></a><span class="sd">            correlator or a Corr of same length.</span>
+</span><span id="Corr-415"><a href="#Corr-415"><span class="linenos"> 415</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-416"><a href="#Corr-416"><span class="linenos"> 416</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-417"><a href="#Corr-417"><span class="linenos"> 417</span></a>        <span class="k">for</span> <span class="n">x0</span><span class="p">,</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">):</span>
+</span><span id="Corr-418"><a href="#Corr-418"><span class="linenos"> 418</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-419"><a href="#Corr-419"><span class="linenos"> 419</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-420"><a href="#Corr-420"><span class="linenos"> 420</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-421"><a href="#Corr-421"><span class="linenos"> 421</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="Corr-422"><a href="#Corr-422"><span class="linenos"> 422</span></a>                    <span class="k">if</span> <span class="n">partner</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x0</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-423"><a href="#Corr-423"><span class="linenos"> 423</span></a>                        <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-424"><a href="#Corr-424"><span class="linenos"> 424</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-425"><a href="#Corr-425"><span class="linenos"> 425</span></a>                        <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">correlate</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">partner</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x0</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t_slice</span><span class="p">]))</span>
+</span><span id="Corr-426"><a href="#Corr-426"><span class="linenos"> 426</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>  <span class="c1"># Should this include CObs?</span>
+</span><span id="Corr-427"><a href="#Corr-427"><span class="linenos"> 427</span></a>                    <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">correlate</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">partner</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t_slice</span><span class="p">]))</span>
+</span><span id="Corr-428"><a href="#Corr-428"><span class="linenos"> 428</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-429"><a href="#Corr-429"><span class="linenos"> 429</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only correlate with an Obs or a Corr.&quot;</span><span class="p">)</span>
+</span><span id="Corr-430"><a href="#Corr-430"><span class="linenos"> 430</span></a>
+</span><span id="Corr-431"><a href="#Corr-431"><span class="linenos"> 431</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
+</span><span id="Corr-432"><a href="#Corr-432"><span class="linenos"> 432</span></a>
+</span><span id="Corr-433"><a href="#Corr-433"><span class="linenos"> 433</span></a>    <span class="k">def</span> <span class="nf">reweight</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">weight</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Corr-434"><a href="#Corr-434"><span class="linenos"> 434</span></a>        <span class="sd">&quot;&quot;&quot;Reweight the correlator.</span>
+</span><span id="Corr-435"><a href="#Corr-435"><span class="linenos"> 435</span></a>
+</span><span id="Corr-436"><a href="#Corr-436"><span class="linenos"> 436</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-437"><a href="#Corr-437"><span class="linenos"> 437</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-438"><a href="#Corr-438"><span class="linenos"> 438</span></a><span class="sd">        weight : Obs</span>
+</span><span id="Corr-439"><a href="#Corr-439"><span class="linenos"> 439</span></a><span class="sd">            Reweighting factor. An Observable that has to be defined on a superset of the</span>
+</span><span id="Corr-440"><a href="#Corr-440"><span class="linenos"> 440</span></a><span class="sd">            configurations in obs[i].idl for all i.</span>
+</span><span id="Corr-441"><a href="#Corr-441"><span class="linenos"> 441</span></a><span class="sd">        all_configs : bool</span>
+</span><span id="Corr-442"><a href="#Corr-442"><span class="linenos"> 442</span></a><span class="sd">            if True, the reweighted observables are normalized by the average of</span>
+</span><span id="Corr-443"><a href="#Corr-443"><span class="linenos"> 443</span></a><span class="sd">            the reweighting factor on all configurations in weight.idl and not</span>
+</span><span id="Corr-444"><a href="#Corr-444"><span class="linenos"> 444</span></a><span class="sd">            on the configurations in obs[i].idl.</span>
+</span><span id="Corr-445"><a href="#Corr-445"><span class="linenos"> 445</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-446"><a href="#Corr-446"><span class="linenos"> 446</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-447"><a href="#Corr-447"><span class="linenos"> 447</span></a>        <span class="k">for</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">:</span>
+</span><span id="Corr-448"><a href="#Corr-448"><span class="linenos"> 448</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-449"><a href="#Corr-449"><span class="linenos"> 449</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-450"><a href="#Corr-450"><span class="linenos"> 450</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-451"><a href="#Corr-451"><span class="linenos"> 451</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">reweight</span><span class="p">(</span><span class="n">weight</span><span class="p">,</span> <span class="n">t_slice</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)))</span>
+</span><span id="Corr-452"><a href="#Corr-452"><span class="linenos"> 452</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
+</span><span id="Corr-453"><a href="#Corr-453"><span class="linenos"> 453</span></a>
+</span><span id="Corr-454"><a href="#Corr-454"><span class="linenos"> 454</span></a>    <span class="k">def</span> <span class="nf">T_symmetry</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">partner</span><span class="p">,</span> <span class="n">parity</span><span class="o">=+</span><span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr-455"><a href="#Corr-455"><span class="linenos"> 455</span></a>        <span class="sd">&quot;&quot;&quot;Return the time symmetry average of the correlator and its partner</span>
+</span><span id="Corr-456"><a href="#Corr-456"><span class="linenos"> 456</span></a>
+</span><span id="Corr-457"><a href="#Corr-457"><span class="linenos"> 457</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-458"><a href="#Corr-458"><span class="linenos"> 458</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-459"><a href="#Corr-459"><span class="linenos"> 459</span></a><span class="sd">        partner : Corr</span>
+</span><span id="Corr-460"><a href="#Corr-460"><span class="linenos"> 460</span></a><span class="sd">            Time symmetry partner of the Corr</span>
+</span><span id="Corr-461"><a href="#Corr-461"><span class="linenos"> 461</span></a><span class="sd">        partity : int</span>
+</span><span id="Corr-462"><a href="#Corr-462"><span class="linenos"> 462</span></a><span class="sd">            Parity quantum number of the correlator, can be +1 or -1</span>
+</span><span id="Corr-463"><a href="#Corr-463"><span class="linenos"> 463</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-464"><a href="#Corr-464"><span class="linenos"> 464</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="Corr-465"><a href="#Corr-465"><span class="linenos"> 465</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;T partner has to be a Corr object.&quot;</span><span class="p">)</span>
+</span><span id="Corr-466"><a href="#Corr-466"><span class="linenos"> 466</span></a>        <span class="k">if</span> <span class="n">parity</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="o">+</span><span class="mi">1</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">]:</span>
+</span><span id="Corr-467"><a href="#Corr-467"><span class="linenos"> 467</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Parity has to be +1 or -1.&quot;</span><span class="p">)</span>
+</span><span id="Corr-468"><a href="#Corr-468"><span class="linenos"> 468</span></a>        <span class="n">T_partner</span> <span class="o">=</span> <span class="n">parity</span> <span class="o">*</span> <span class="n">partner</span><span class="o">.</span><span class="n">reverse</span><span class="p">()</span>
+</span><span id="Corr-469"><a href="#Corr-469"><span class="linenos"> 469</span></a>
+</span><span id="Corr-470"><a href="#Corr-470"><span class="linenos"> 470</span></a>        <span class="n">t_slices</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-471"><a href="#Corr-471"><span class="linenos"> 471</span></a>        <span class="n">test</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">T_partner</span><span class="p">)</span>
+</span><span id="Corr-472"><a href="#Corr-472"><span class="linenos"> 472</span></a>        <span class="n">test</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="Corr-473"><a href="#Corr-473"><span class="linenos"> 473</span></a>        <span class="k">for</span> <span class="n">x0</span><span class="p">,</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">test</span><span class="o">.</span><span class="n">content</span><span class="p">):</span>
+</span><span id="Corr-474"><a href="#Corr-474"><span class="linenos"> 474</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-475"><a href="#Corr-475"><span class="linenos"> 475</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">t_slice</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">is_zero_within_error</span><span class="p">(</span><span class="mi">5</span><span class="p">):</span>
+</span><span id="Corr-476"><a href="#Corr-476"><span class="linenos"> 476</span></a>                    <span class="n">t_slices</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span>
+</span><span id="Corr-477"><a href="#Corr-477"><span class="linenos"> 477</span></a>        <span class="k">if</span> <span class="n">t_slices</span><span class="p">:</span>
+</span><span id="Corr-478"><a href="#Corr-478"><span class="linenos"> 478</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;T symmetry partners do not agree within 5 sigma on time slices &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">t_slices</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="Corr-479"><a href="#Corr-479"><span class="linenos"> 479</span></a>
+</span><span id="Corr-480"><a href="#Corr-480"><span class="linenos"> 480</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">+</span> <span class="n">T_partner</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span>
+</span><span id="Corr-481"><a href="#Corr-481"><span class="linenos"> 481</span></a>
+</span><span id="Corr-482"><a href="#Corr-482"><span class="linenos"> 482</span></a>    <span class="k">def</span> <span class="nf">deriv</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s2">&quot;symmetric&quot;</span><span class="p">):</span>
+</span><span id="Corr-483"><a href="#Corr-483"><span class="linenos"> 483</span></a>        <span class="sd">&quot;&quot;&quot;Return the first derivative of the correlator with respect to x0.</span>
+</span><span id="Corr-484"><a href="#Corr-484"><span class="linenos"> 484</span></a>
+</span><span id="Corr-485"><a href="#Corr-485"><span class="linenos"> 485</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-486"><a href="#Corr-486"><span class="linenos"> 486</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-487"><a href="#Corr-487"><span class="linenos"> 487</span></a><span class="sd">        variant : str</span>
+</span><span id="Corr-488"><a href="#Corr-488"><span class="linenos"> 488</span></a><span class="sd">            decides which definition of the finite differences derivative is used.</span>
+</span><span id="Corr-489"><a href="#Corr-489"><span class="linenos"> 489</span></a><span class="sd">            Available choice: symmetric, forward, backward, improved, default: symmetric</span>
+</span><span id="Corr-490"><a href="#Corr-490"><span class="linenos"> 490</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-491"><a href="#Corr-491"><span class="linenos"> 491</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;symmetric&quot;</span><span class="p">:</span>
+</span><span id="Corr-492"><a href="#Corr-492"><span class="linenos"> 492</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-493"><a href="#Corr-493"><span class="linenos"> 493</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr-494"><a href="#Corr-494"><span class="linenos"> 494</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-495"><a href="#Corr-495"><span class="linenos"> 495</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-496"><a href="#Corr-496"><span class="linenos"> 496</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-497"><a href="#Corr-497"><span class="linenos"> 497</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]))</span>
+</span><span id="Corr-498"><a href="#Corr-498"><span class="linenos"> 498</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr-499"><a href="#Corr-499"><span class="linenos"> 499</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Derivative is undefined at all timeslices&#39;</span><span class="p">)</span>
+</span><span id="Corr-500"><a href="#Corr-500"><span class="linenos"> 500</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr-501"><a href="#Corr-501"><span class="linenos"> 501</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;forward&quot;</span><span class="p">:</span>
+</span><span id="Corr-502"><a href="#Corr-502"><span class="linenos"> 502</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-503"><a href="#Corr-503"><span class="linenos"> 503</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr-504"><a href="#Corr-504"><span class="linenos"> 504</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-505"><a href="#Corr-505"><span class="linenos"> 505</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-506"><a href="#Corr-506"><span class="linenos"> 506</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-507"><a href="#Corr-507"><span class="linenos"> 507</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="Corr-508"><a href="#Corr-508"><span class="linenos"> 508</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr-509"><a href="#Corr-509"><span class="linenos"> 509</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="Corr-510"><a href="#Corr-510"><span class="linenos"> 510</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr-511"><a href="#Corr-511"><span class="linenos"> 511</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;backward&quot;</span><span class="p">:</span>
+</span><span id="Corr-512"><a href="#Corr-512"><span class="linenos"> 512</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-513"><a href="#Corr-513"><span class="linenos"> 513</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-514"><a href="#Corr-514"><span class="linenos"> 514</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-515"><a href="#Corr-515"><span class="linenos"> 515</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-516"><a href="#Corr-516"><span class="linenos"> 516</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-517"><a href="#Corr-517"><span class="linenos"> 517</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr-518"><a href="#Corr-518"><span class="linenos"> 518</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr-519"><a href="#Corr-519"><span class="linenos"> 519</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="Corr-520"><a href="#Corr-520"><span class="linenos"> 520</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">])</span>
+</span><span id="Corr-521"><a href="#Corr-521"><span class="linenos"> 521</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;improved&quot;</span><span class="p">:</span>
+</span><span id="Corr-522"><a href="#Corr-522"><span class="linenos"> 522</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-523"><a href="#Corr-523"><span class="linenos"> 523</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="Corr-524"><a href="#Corr-524"><span class="linenos"> 524</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-525"><a href="#Corr-525"><span class="linenos"> 525</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-526"><a href="#Corr-526"><span class="linenos"> 526</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-527"><a href="#Corr-527"><span class="linenos"> 527</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="mi">8</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">8</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]))</span>
+</span><span id="Corr-528"><a href="#Corr-528"><span class="linenos"> 528</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr-529"><a href="#Corr-529"><span class="linenos"> 529</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Derivative is undefined at all timeslices&#39;</span><span class="p">)</span>
+</span><span id="Corr-530"><a href="#Corr-530"><span class="linenos"> 530</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="Corr-531"><a href="#Corr-531"><span class="linenos"> 531</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-532"><a href="#Corr-532"><span class="linenos"> 532</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown variant.&quot;</span><span class="p">)</span>
+</span><span id="Corr-533"><a href="#Corr-533"><span class="linenos"> 533</span></a>
+</span><span id="Corr-534"><a href="#Corr-534"><span class="linenos"> 534</span></a>    <span class="k">def</span> <span class="nf">second_deriv</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s2">&quot;symmetric&quot;</span><span class="p">):</span>
+</span><span id="Corr-535"><a href="#Corr-535"><span class="linenos"> 535</span></a>        <span class="sd">&quot;&quot;&quot;Return the second derivative of the correlator with respect to x0.</span>
+</span><span id="Corr-536"><a href="#Corr-536"><span class="linenos"> 536</span></a>
+</span><span id="Corr-537"><a href="#Corr-537"><span class="linenos"> 537</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-538"><a href="#Corr-538"><span class="linenos"> 538</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-539"><a href="#Corr-539"><span class="linenos"> 539</span></a><span class="sd">        variant : str</span>
+</span><span id="Corr-540"><a href="#Corr-540"><span class="linenos"> 540</span></a><span class="sd">            decides which definition of the finite differences derivative is used.</span>
+</span><span id="Corr-541"><a href="#Corr-541"><span class="linenos"> 541</span></a><span class="sd">            Available choice: symmetric, improved, default: symmetric</span>
+</span><span id="Corr-542"><a href="#Corr-542"><span class="linenos"> 542</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-543"><a href="#Corr-543"><span class="linenos"> 543</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;symmetric&quot;</span><span class="p">:</span>
+</span><span id="Corr-544"><a href="#Corr-544"><span class="linenos"> 544</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-545"><a href="#Corr-545"><span class="linenos"> 545</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr-546"><a href="#Corr-546"><span class="linenos"> 546</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-547"><a href="#Corr-547"><span class="linenos"> 547</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-548"><a href="#Corr-548"><span class="linenos"> 548</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-549"><a href="#Corr-549"><span class="linenos"> 549</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]))</span>
+</span><span id="Corr-550"><a href="#Corr-550"><span class="linenos"> 550</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr-551"><a href="#Corr-551"><span class="linenos"> 551</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="Corr-552"><a href="#Corr-552"><span class="linenos"> 552</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr-553"><a href="#Corr-553"><span class="linenos"> 553</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;improved&quot;</span><span class="p">:</span>
+</span><span id="Corr-554"><a href="#Corr-554"><span class="linenos"> 554</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-555"><a href="#Corr-555"><span class="linenos"> 555</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="Corr-556"><a href="#Corr-556"><span class="linenos"> 556</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-557"><a href="#Corr-557"><span class="linenos"> 557</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-558"><a href="#Corr-558"><span class="linenos"> 558</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-559"><a href="#Corr-559"><span class="linenos"> 559</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="o">+</span> <span class="mi">16</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="mi">30</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="mi">16</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]))</span>
+</span><span id="Corr-560"><a href="#Corr-560"><span class="linenos"> 560</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr-561"><a href="#Corr-561"><span class="linenos"> 561</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="Corr-562"><a href="#Corr-562"><span class="linenos"> 562</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="Corr-563"><a href="#Corr-563"><span class="linenos"> 563</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-564"><a href="#Corr-564"><span class="linenos"> 564</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown variant.&quot;</span><span class="p">)</span>
+</span><span id="Corr-565"><a href="#Corr-565"><span class="linenos"> 565</span></a>
+</span><span id="Corr-566"><a href="#Corr-566"><span class="linenos"> 566</span></a>    <span class="k">def</span> <span class="nf">m_eff</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s1">&#39;log&#39;</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="mf">1.0</span><span class="p">):</span>
+</span><span id="Corr-567"><a href="#Corr-567"><span class="linenos"> 567</span></a>        <span class="sd">&quot;&quot;&quot;Returns the effective mass of the correlator as correlator object</span>
+</span><span id="Corr-568"><a href="#Corr-568"><span class="linenos"> 568</span></a>
+</span><span id="Corr-569"><a href="#Corr-569"><span class="linenos"> 569</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-570"><a href="#Corr-570"><span class="linenos"> 570</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-571"><a href="#Corr-571"><span class="linenos"> 571</span></a><span class="sd">        variant : str</span>
+</span><span id="Corr-572"><a href="#Corr-572"><span class="linenos"> 572</span></a><span class="sd">            log : uses the standard effective mass log(C(t) / C(t+1))</span>
+</span><span id="Corr-573"><a href="#Corr-573"><span class="linenos"> 573</span></a><span class="sd">            cosh, periodic : Use periodicitiy of the correlator by solving C(t) / C(t+1) = cosh(m * (t - T/2)) / cosh(m * (t + 1 - T/2)) for m.</span>
+</span><span id="Corr-574"><a href="#Corr-574"><span class="linenos"> 574</span></a><span class="sd">            sinh : Use anti-periodicitiy of the correlator by solving C(t) / C(t+1) = sinh(m * (t - T/2)) / sinh(m * (t + 1 - T/2)) for m.</span>
+</span><span id="Corr-575"><a href="#Corr-575"><span class="linenos"> 575</span></a><span class="sd">            See, e.g., arXiv:1205.5380</span>
+</span><span id="Corr-576"><a href="#Corr-576"><span class="linenos"> 576</span></a><span class="sd">            arccosh : Uses the explicit form of the symmetrized correlator (not recommended)</span>
+</span><span id="Corr-577"><a href="#Corr-577"><span class="linenos"> 577</span></a><span class="sd">        guess : float</span>
+</span><span id="Corr-578"><a href="#Corr-578"><span class="linenos"> 578</span></a><span class="sd">            guess for the root finder, only relevant for the root variant</span>
+</span><span id="Corr-579"><a href="#Corr-579"><span class="linenos"> 579</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-580"><a href="#Corr-580"><span class="linenos"> 580</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-581"><a href="#Corr-581"><span class="linenos"> 581</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Correlator must be projected before getting m_eff&#39;</span><span class="p">)</span>
+</span><span id="Corr-582"><a href="#Corr-582"><span class="linenos"> 582</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;log&#39;</span><span class="p">:</span>
+</span><span id="Corr-583"><a href="#Corr-583"><span class="linenos"> 583</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-584"><a href="#Corr-584"><span class="linenos"> 584</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr-585"><a href="#Corr-585"><span class="linenos"> 585</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-586"><a href="#Corr-586"><span class="linenos"> 586</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-587"><a href="#Corr-587"><span class="linenos"> 587</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-588"><a href="#Corr-588"><span class="linenos"> 588</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr-589"><a href="#Corr-589"><span class="linenos"> 589</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr-590"><a href="#Corr-590"><span class="linenos"> 590</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;m_eff is undefined at all timeslices&#39;</span><span class="p">)</span>
+</span><span id="Corr-591"><a href="#Corr-591"><span class="linenos"> 591</span></a>
+</span><span id="Corr-592"><a href="#Corr-592"><span class="linenos"> 592</span></a>            <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">]))</span>
+</span><span id="Corr-593"><a href="#Corr-593"><span class="linenos"> 593</span></a>
+</span><span id="Corr-594"><a href="#Corr-594"><span class="linenos"> 594</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;periodic&#39;</span><span class="p">,</span> <span class="s1">&#39;cosh&#39;</span><span class="p">,</span> <span class="s1">&#39;sinh&#39;</span><span class="p">]:</span>
+</span><span id="Corr-595"><a href="#Corr-595"><span class="linenos"> 595</span></a>            <span class="k">if</span> <span class="n">variant</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;periodic&#39;</span><span class="p">,</span> <span class="s1">&#39;cosh&#39;</span><span class="p">]:</span>
+</span><span id="Corr-596"><a href="#Corr-596"><span class="linenos"> 596</span></a>                <span class="n">func</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">cosh</span>
+</span><span id="Corr-597"><a href="#Corr-597"><span class="linenos"> 597</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-598"><a href="#Corr-598"><span class="linenos"> 598</span></a>                <span class="n">func</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sinh</span>
+</span><span id="Corr-599"><a href="#Corr-599"><span class="linenos"> 599</span></a>
+</span><span id="Corr-600"><a href="#Corr-600"><span class="linenos"> 600</span></a>            <span class="k">def</span> <span class="nf">root_function</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">d</span><span class="p">):</span>
+</span><span id="Corr-601"><a href="#Corr-601"><span class="linenos"> 601</span></a>                <span class="k">return</span> <span class="n">func</span><span class="p">(</span><span class="n">x</span> <span class="o">*</span> <span class="p">(</span><span class="n">t</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">))</span> <span class="o">/</span> <span class="n">func</span><span class="p">(</span><span class="n">x</span> <span class="o">*</span> <span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">))</span> <span class="o">-</span> <span class="n">d</span>
+</span><span id="Corr-602"><a href="#Corr-602"><span class="linenos"> 602</span></a>
+</span><span id="Corr-603"><a href="#Corr-603"><span class="linenos"> 603</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-604"><a href="#Corr-604"><span class="linenos"> 604</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr-605"><a href="#Corr-605"><span class="linenos"> 605</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-606"><a href="#Corr-606"><span class="linenos"> 606</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-607"><a href="#Corr-607"><span class="linenos"> 607</span></a>                <span class="c1"># Fill the two timeslices in the middle of the lattice with their predecessors</span>
+</span><span id="Corr-608"><a href="#Corr-608"><span class="linenos"> 608</span></a>                <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;sinh&#39;</span> <span class="ow">and</span> <span class="n">t</span> <span class="ow">in</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]:</span>
+</span><span id="Corr-609"><a href="#Corr-609"><span class="linenos"> 609</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr-610"><a href="#Corr-610"><span class="linenos"> 610</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-611"><a href="#Corr-611"><span class="linenos"> 611</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">find_root</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">root_function</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="n">guess</span><span class="p">)))</span>
+</span><span id="Corr-612"><a href="#Corr-612"><span class="linenos"> 612</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr-613"><a href="#Corr-613"><span class="linenos"> 613</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;m_eff is undefined at all timeslices&#39;</span><span class="p">)</span>
+</span><span id="Corr-614"><a href="#Corr-614"><span class="linenos"> 614</span></a>
+</span><span id="Corr-615"><a href="#Corr-615"><span class="linenos"> 615</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr-616"><a href="#Corr-616"><span class="linenos"> 616</span></a>
+</span><span id="Corr-617"><a href="#Corr-617"><span class="linenos"> 617</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;arccosh&#39;</span><span class="p">:</span>
+</span><span id="Corr-618"><a href="#Corr-618"><span class="linenos"> 618</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-619"><a href="#Corr-619"><span class="linenos"> 619</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr-620"><a href="#Corr-620"><span class="linenos"> 620</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-621"><a href="#Corr-621"><span class="linenos"> 621</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-622"><a href="#Corr-622"><span class="linenos"> 622</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-623"><a href="#Corr-623"><span class="linenos"> 623</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]))</span>
+</span><span id="Corr-624"><a href="#Corr-624"><span class="linenos"> 624</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr-625"><a href="#Corr-625"><span class="linenos"> 625</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;m_eff is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="Corr-626"><a href="#Corr-626"><span class="linenos"> 626</span></a>            <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">arccosh</span><span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">]))</span>
+</span><span id="Corr-627"><a href="#Corr-627"><span class="linenos"> 627</span></a>
+</span><span id="Corr-628"><a href="#Corr-628"><span class="linenos"> 628</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-629"><a href="#Corr-629"><span class="linenos"> 629</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown variant.&#39;</span><span class="p">)</span>
+</span><span id="Corr-630"><a href="#Corr-630"><span class="linenos"> 630</span></a>
+</span><span id="Corr-631"><a href="#Corr-631"><span class="linenos"> 631</span></a>    <span class="k">def</span> <span class="nf">fit</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">function</span><span class="p">,</span> <span class="n">fitrange</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Corr-632"><a href="#Corr-632"><span class="linenos"> 632</span></a>        <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Fits function to the data</span>
+</span><span id="Corr-633"><a href="#Corr-633"><span class="linenos"> 633</span></a>
+</span><span id="Corr-634"><a href="#Corr-634"><span class="linenos"> 634</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-635"><a href="#Corr-635"><span class="linenos"> 635</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-636"><a href="#Corr-636"><span class="linenos"> 636</span></a><span class="sd">        function : obj</span>
+</span><span id="Corr-637"><a href="#Corr-637"><span class="linenos"> 637</span></a><span class="sd">            function to fit to the data. See fits.least_squares for details.</span>
+</span><span id="Corr-638"><a href="#Corr-638"><span class="linenos"> 638</span></a><span class="sd">        fitrange : list</span>
+</span><span id="Corr-639"><a href="#Corr-639"><span class="linenos"> 639</span></a><span class="sd">            Two element list containing the timeslices on which the fit is supposed to start and stop.</span>
+</span><span id="Corr-640"><a href="#Corr-640"><span class="linenos"> 640</span></a><span class="sd">            Caution: This range is inclusive as opposed to standard python indexing.</span>
+</span><span id="Corr-641"><a href="#Corr-641"><span class="linenos"> 641</span></a><span class="sd">            `fitrange=[4, 6]` corresponds to the three entries 4, 5 and 6.</span>
+</span><span id="Corr-642"><a href="#Corr-642"><span class="linenos"> 642</span></a><span class="sd">            If not specified, self.prange or all timeslices are used.</span>
+</span><span id="Corr-643"><a href="#Corr-643"><span class="linenos"> 643</span></a><span class="sd">        silent : bool</span>
+</span><span id="Corr-644"><a href="#Corr-644"><span class="linenos"> 644</span></a><span class="sd">            Decides whether output is printed to the standard output.</span>
+</span><span id="Corr-645"><a href="#Corr-645"><span class="linenos"> 645</span></a><span class="sd">        &#39;&#39;&#39;</span>
+</span><span id="Corr-646"><a href="#Corr-646"><span class="linenos"> 646</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-647"><a href="#Corr-647"><span class="linenos"> 647</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before fitting&quot;</span><span class="p">)</span>
+</span><span id="Corr-648"><a href="#Corr-648"><span class="linenos"> 648</span></a>
+</span><span id="Corr-649"><a href="#Corr-649"><span class="linenos"> 649</span></a>        <span class="k">if</span> <span class="n">fitrange</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-650"><a href="#Corr-650"><span class="linenos"> 650</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
+</span><span id="Corr-651"><a href="#Corr-651"><span class="linenos"> 651</span></a>                <span class="n">fitrange</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span>
+</span><span id="Corr-652"><a href="#Corr-652"><span class="linenos"> 652</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-653"><a href="#Corr-653"><span class="linenos"> 653</span></a>                <span class="n">fitrange</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
+</span><span id="Corr-654"><a href="#Corr-654"><span class="linenos"> 654</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-655"><a href="#Corr-655"><span class="linenos"> 655</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">fitrange</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="Corr-656"><a href="#Corr-656"><span class="linenos"> 656</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;fitrange has to be a list with two elements&quot;</span><span class="p">)</span>
+</span><span id="Corr-657"><a href="#Corr-657"><span class="linenos"> 657</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">fitrange</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="Corr-658"><a href="#Corr-658"><span class="linenos"> 658</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;fitrange has to have exactly two elements [fit_start, fit_stop]&quot;</span><span class="p">)</span>
+</span><span id="Corr-659"><a href="#Corr-659"><span class="linenos"> 659</span></a>
+</span><span id="Corr-660"><a href="#Corr-660"><span class="linenos"> 660</span></a>        <span class="n">xs</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">fitrange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">fitrange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="Corr-661"><a href="#Corr-661"><span class="linenos"> 661</span></a>        <span class="n">ys</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">fitrange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">fitrange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="Corr-662"><a href="#Corr-662"><span class="linenos"> 662</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">least_squares</span><span class="p">(</span><span class="n">xs</span><span class="p">,</span> <span class="n">ys</span><span class="p">,</span> <span class="n">function</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="Corr-663"><a href="#Corr-663"><span class="linenos"> 663</span></a>        <span class="k">return</span> <span class="n">result</span>
+</span><span id="Corr-664"><a href="#Corr-664"><span class="linenos"> 664</span></a>
+</span><span id="Corr-665"><a href="#Corr-665"><span class="linenos"> 665</span></a>    <span class="k">def</span> <span class="nf">plateau</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">plateau_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">method</span><span class="o">=</span><span class="s2">&quot;fit&quot;</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="Corr-666"><a href="#Corr-666"><span class="linenos"> 666</span></a>        <span class="sd">&quot;&quot;&quot; Extract a plateau value from a Corr object</span>
+</span><span id="Corr-667"><a href="#Corr-667"><span class="linenos"> 667</span></a>
+</span><span id="Corr-668"><a href="#Corr-668"><span class="linenos"> 668</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-669"><a href="#Corr-669"><span class="linenos"> 669</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-670"><a href="#Corr-670"><span class="linenos"> 670</span></a><span class="sd">        plateau_range : list</span>
+</span><span id="Corr-671"><a href="#Corr-671"><span class="linenos"> 671</span></a><span class="sd">            list with two entries, indicating the first and the last timeslice</span>
+</span><span id="Corr-672"><a href="#Corr-672"><span class="linenos"> 672</span></a><span class="sd">            of the plateau region.</span>
+</span><span id="Corr-673"><a href="#Corr-673"><span class="linenos"> 673</span></a><span class="sd">        method : str</span>
+</span><span id="Corr-674"><a href="#Corr-674"><span class="linenos"> 674</span></a><span class="sd">            method to extract the plateau.</span>
+</span><span id="Corr-675"><a href="#Corr-675"><span class="linenos"> 675</span></a><span class="sd">                &#39;fit&#39; fits a constant to the plateau region</span>
+</span><span id="Corr-676"><a href="#Corr-676"><span class="linenos"> 676</span></a><span class="sd">                &#39;avg&#39;, &#39;average&#39; or &#39;mean&#39; just average over the given timeslices.</span>
+</span><span id="Corr-677"><a href="#Corr-677"><span class="linenos"> 677</span></a><span class="sd">        auto_gamma : bool</span>
+</span><span id="Corr-678"><a href="#Corr-678"><span class="linenos"> 678</span></a><span class="sd">            apply gamma_method with default parameters to the Corr. Defaults to None</span>
+</span><span id="Corr-679"><a href="#Corr-679"><span class="linenos"> 679</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-680"><a href="#Corr-680"><span class="linenos"> 680</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">plateau_range</span><span class="p">:</span>
+</span><span id="Corr-681"><a href="#Corr-681"><span class="linenos"> 681</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
+</span><span id="Corr-682"><a href="#Corr-682"><span class="linenos"> 682</span></a>                <span class="n">plateau_range</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span>
+</span><span id="Corr-683"><a href="#Corr-683"><span class="linenos"> 683</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-684"><a href="#Corr-684"><span class="linenos"> 684</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;no plateau range provided&quot;</span><span class="p">)</span>
+</span><span id="Corr-685"><a href="#Corr-685"><span class="linenos"> 685</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-686"><a href="#Corr-686"><span class="linenos"> 686</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before getting a plateau.&quot;</span><span class="p">)</span>
+</span><span id="Corr-687"><a href="#Corr-687"><span class="linenos"> 687</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">plateau_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)])):</span>
+</span><span id="Corr-688"><a href="#Corr-688"><span class="linenos"> 688</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;plateau is undefined at all timeslices in plateaurange.&quot;</span><span class="p">)</span>
+</span><span id="Corr-689"><a href="#Corr-689"><span class="linenos"> 689</span></a>        <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
+</span><span id="Corr-690"><a href="#Corr-690"><span class="linenos"> 690</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="Corr-691"><a href="#Corr-691"><span class="linenos"> 691</span></a>        <span class="k">if</span> <span class="n">method</span> <span class="o">==</span> <span class="s2">&quot;fit&quot;</span><span class="p">:</span>
+</span><span id="Corr-692"><a href="#Corr-692"><span class="linenos"> 692</span></a>            <span class="k">def</span> <span class="nf">const_func</span><span class="p">(</span><span class="n">a</span><span class="p">,</span> <span class="n">t</span><span class="p">):</span>
+</span><span id="Corr-693"><a href="#Corr-693"><span class="linenos"> 693</span></a>                <span class="k">return</span> <span class="n">a</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr-694"><a href="#Corr-694"><span class="linenos"> 694</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit</span><span class="p">(</span><span class="n">const_func</span><span class="p">,</span> <span class="n">plateau_range</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr-695"><a href="#Corr-695"><span class="linenos"> 695</span></a>        <span class="k">elif</span> <span class="n">method</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;avg&quot;</span><span class="p">,</span> <span class="s2">&quot;average&quot;</span><span class="p">,</span> <span class="s2">&quot;mean&quot;</span><span class="p">]:</span>
+</span><span id="Corr-696"><a href="#Corr-696"><span class="linenos"> 696</span></a>            <span class="n">returnvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">([</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="n">item</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span>
+</span><span id="Corr-697"><a href="#Corr-697"><span class="linenos"> 697</span></a>            <span class="k">return</span> <span class="n">returnvalue</span>
+</span><span id="Corr-698"><a href="#Corr-698"><span class="linenos"> 698</span></a>
+</span><span id="Corr-699"><a href="#Corr-699"><span class="linenos"> 699</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-700"><a href="#Corr-700"><span class="linenos"> 700</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsupported plateau method: &quot;</span> <span class="o">+</span> <span class="n">method</span><span class="p">)</span>
+</span><span id="Corr-701"><a href="#Corr-701"><span class="linenos"> 701</span></a>
+</span><span id="Corr-702"><a href="#Corr-702"><span class="linenos"> 702</span></a>    <span class="k">def</span> <span class="nf">set_prange</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">prange</span><span class="p">):</span>
+</span><span id="Corr-703"><a href="#Corr-703"><span class="linenos"> 703</span></a>        <span class="sd">&quot;&quot;&quot;Sets the attribute prange of the Corr object.&quot;&quot;&quot;</span>
+</span><span id="Corr-704"><a href="#Corr-704"><span class="linenos"> 704</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">prange</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="Corr-705"><a href="#Corr-705"><span class="linenos"> 705</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;prange must be a list or array with two values&quot;</span><span class="p">)</span>
+</span><span id="Corr-706"><a href="#Corr-706"><span class="linenos"> 706</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">((</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">int</span><span class="p">))</span> <span class="ow">and</span> <span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="nb">int</span><span class="p">))):</span>
+</span><span id="Corr-707"><a href="#Corr-707"><span class="linenos"> 707</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Start and end point must be integers&quot;</span><span class="p">)</span>
+</span><span id="Corr-708"><a href="#Corr-708"><span class="linenos"> 708</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="mi">0</span> <span class="o">&lt;=</span> <span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="ow">and</span> <span class="mi">0</span> <span class="o">&lt;=</span> <span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="ow">and</span> <span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&lt;</span> <span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="Corr-709"><a href="#Corr-709"><span class="linenos"> 709</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Start and end point must define a range in the interval 0,T&quot;</span><span class="p">)</span>
+</span><span id="Corr-710"><a href="#Corr-710"><span class="linenos"> 710</span></a>
+</span><span id="Corr-711"><a href="#Corr-711"><span class="linenos"> 711</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">prange</span>
+</span><span id="Corr-712"><a href="#Corr-712"><span class="linenos"> 712</span></a>        <span class="k">return</span>
+</span><span id="Corr-713"><a href="#Corr-713"><span class="linenos"> 713</span></a>
+</span><span id="Corr-714"><a href="#Corr-714"><span class="linenos"> 714</span></a>    <span class="k">def</span> <span class="nf">show</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">comp</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">y_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">logscale</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">plateau</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">fit_res</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">ylabel</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">hide_sigma</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">references</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-715"><a href="#Corr-715"><span class="linenos"> 715</span></a>        <span class="sd">&quot;&quot;&quot;Plots the correlator using the tag of the correlator as label if available.</span>
+</span><span id="Corr-716"><a href="#Corr-716"><span class="linenos"> 716</span></a>
+</span><span id="Corr-717"><a href="#Corr-717"><span class="linenos"> 717</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-718"><a href="#Corr-718"><span class="linenos"> 718</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-719"><a href="#Corr-719"><span class="linenos"> 719</span></a><span class="sd">        x_range : list</span>
+</span><span id="Corr-720"><a href="#Corr-720"><span class="linenos"> 720</span></a><span class="sd">            list of two values, determining the range of the x-axis e.g. [4, 8]</span>
+</span><span id="Corr-721"><a href="#Corr-721"><span class="linenos"> 721</span></a><span class="sd">        comp : Corr or list of Corr</span>
+</span><span id="Corr-722"><a href="#Corr-722"><span class="linenos"> 722</span></a><span class="sd">            Correlator or list of correlators which are plotted for comparison.</span>
+</span><span id="Corr-723"><a href="#Corr-723"><span class="linenos"> 723</span></a><span class="sd">            The tags of these correlators are used as labels if available.</span>
+</span><span id="Corr-724"><a href="#Corr-724"><span class="linenos"> 724</span></a><span class="sd">        logscale : bool</span>
+</span><span id="Corr-725"><a href="#Corr-725"><span class="linenos"> 725</span></a><span class="sd">            Sets y-axis to logscale</span>
+</span><span id="Corr-726"><a href="#Corr-726"><span class="linenos"> 726</span></a><span class="sd">        plateau : Obs</span>
+</span><span id="Corr-727"><a href="#Corr-727"><span class="linenos"> 727</span></a><span class="sd">            Plateau value to be visualized in the figure</span>
+</span><span id="Corr-728"><a href="#Corr-728"><span class="linenos"> 728</span></a><span class="sd">        fit_res : Fit_result</span>
+</span><span id="Corr-729"><a href="#Corr-729"><span class="linenos"> 729</span></a><span class="sd">            Fit_result object to be visualized</span>
+</span><span id="Corr-730"><a href="#Corr-730"><span class="linenos"> 730</span></a><span class="sd">        ylabel : str</span>
+</span><span id="Corr-731"><a href="#Corr-731"><span class="linenos"> 731</span></a><span class="sd">            Label for the y-axis</span>
+</span><span id="Corr-732"><a href="#Corr-732"><span class="linenos"> 732</span></a><span class="sd">        save : str</span>
+</span><span id="Corr-733"><a href="#Corr-733"><span class="linenos"> 733</span></a><span class="sd">            path to file in which the figure should be saved</span>
+</span><span id="Corr-734"><a href="#Corr-734"><span class="linenos"> 734</span></a><span class="sd">        auto_gamma : bool</span>
+</span><span id="Corr-735"><a href="#Corr-735"><span class="linenos"> 735</span></a><span class="sd">            Apply the gamma method with standard parameters to all correlators and plateau values before plotting.</span>
+</span><span id="Corr-736"><a href="#Corr-736"><span class="linenos"> 736</span></a><span class="sd">        hide_sigma : float</span>
+</span><span id="Corr-737"><a href="#Corr-737"><span class="linenos"> 737</span></a><span class="sd">            Hides data points from the first value on which is consistent with zero within &#39;hide_sigma&#39; standard errors.</span>
+</span><span id="Corr-738"><a href="#Corr-738"><span class="linenos"> 738</span></a><span class="sd">        references : list</span>
+</span><span id="Corr-739"><a href="#Corr-739"><span class="linenos"> 739</span></a><span class="sd">            List of floating point values that are displayed as horizontal lines for reference.</span>
+</span><span id="Corr-740"><a href="#Corr-740"><span class="linenos"> 740</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-741"><a href="#Corr-741"><span class="linenos"> 741</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-742"><a href="#Corr-742"><span class="linenos"> 742</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before plotting&quot;</span><span class="p">)</span>
+</span><span id="Corr-743"><a href="#Corr-743"><span class="linenos"> 743</span></a>
+</span><span id="Corr-744"><a href="#Corr-744"><span class="linenos"> 744</span></a>        <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
+</span><span id="Corr-745"><a href="#Corr-745"><span class="linenos"> 745</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="Corr-746"><a href="#Corr-746"><span class="linenos"> 746</span></a>
+</span><span id="Corr-747"><a href="#Corr-747"><span class="linenos"> 747</span></a>        <span class="k">if</span> <span class="n">x_range</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-748"><a href="#Corr-748"><span class="linenos"> 748</span></a>            <span class="n">x_range</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
+</span><span id="Corr-749"><a href="#Corr-749"><span class="linenos"> 749</span></a>
+</span><span id="Corr-750"><a href="#Corr-750"><span class="linenos"> 750</span></a>        <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="Corr-751"><a href="#Corr-751"><span class="linenos"> 751</span></a>        <span class="n">ax1</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">111</span><span class="p">)</span>
+</span><span id="Corr-752"><a href="#Corr-752"><span class="linenos"> 752</span></a>
+</span><span id="Corr-753"><a href="#Corr-753"><span class="linenos"> 753</span></a>        <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">y_err</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">plottable</span><span class="p">()</span>
+</span><span id="Corr-754"><a href="#Corr-754"><span class="linenos"> 754</span></a>        <span class="k">if</span> <span class="n">hide_sigma</span><span class="p">:</span>
+</span><span id="Corr-755"><a href="#Corr-755"><span class="linenos"> 755</span></a>            <span class="n">hide_from</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">((</span><span class="n">hide_sigma</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">y_err</span><span class="p">))</span> <span class="o">&gt;</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="Corr-756"><a href="#Corr-756"><span class="linenos"> 756</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-757"><a href="#Corr-757"><span class="linenos"> 757</span></a>            <span class="n">hide_from</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="Corr-758"><a href="#Corr-758"><span class="linenos"> 758</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y_err</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">label</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
+</span><span id="Corr-759"><a href="#Corr-759"><span class="linenos"> 759</span></a>        <span class="k">if</span> <span class="n">logscale</span><span class="p">:</span>
+</span><span id="Corr-760"><a href="#Corr-760"><span class="linenos"> 760</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">set_yscale</span><span class="p">(</span><span class="s1">&#39;log&#39;</span><span class="p">)</span>
+</span><span id="Corr-761"><a href="#Corr-761"><span class="linenos"> 761</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-762"><a href="#Corr-762"><span class="linenos"> 762</span></a>            <span class="k">if</span> <span class="n">y_range</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-763"><a href="#Corr-763"><span class="linenos"> 763</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="Corr-764"><a href="#Corr-764"><span class="linenos"> 764</span></a>                    <span class="n">y_min</span> <span class="o">=</span> <span class="nb">min</span><span class="p">([(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="p">(</span><span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">and</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">&lt;</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="Corr-765"><a href="#Corr-765"><span class="linenos"> 765</span></a>                    <span class="n">y_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="p">(</span><span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">and</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">&lt;</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="Corr-766"><a href="#Corr-766"><span class="linenos"> 766</span></a>                    <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">([</span><span class="n">y_min</span> <span class="o">-</span> <span class="mf">0.1</span> <span class="o">*</span> <span class="p">(</span><span class="n">y_max</span> <span class="o">-</span> <span class="n">y_min</span><span class="p">),</span> <span class="n">y_max</span> <span class="o">+</span> <span class="mf">0.1</span> <span class="o">*</span> <span class="p">(</span><span class="n">y_max</span> <span class="o">-</span> <span class="n">y_min</span><span class="p">)])</span>
+</span><span id="Corr-767"><a href="#Corr-767"><span class="linenos"> 767</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="Corr-768"><a href="#Corr-768"><span class="linenos"> 768</span></a>                    <span class="k">pass</span>
+</span><span id="Corr-769"><a href="#Corr-769"><span class="linenos"> 769</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-770"><a href="#Corr-770"><span class="linenos"> 770</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">(</span><span class="n">y_range</span><span class="p">)</span>
+</span><span id="Corr-771"><a href="#Corr-771"><span class="linenos"> 771</span></a>        <span class="k">if</span> <span class="n">comp</span><span class="p">:</span>
+</span><span id="Corr-772"><a href="#Corr-772"><span class="linenos"> 772</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">comp</span><span class="p">,</span> <span class="p">(</span><span class="n">Corr</span><span class="p">,</span> <span class="nb">list</span><span class="p">)):</span>
+</span><span id="Corr-773"><a href="#Corr-773"><span class="linenos"> 773</span></a>                <span class="k">for</span> <span class="n">corr</span> <span class="ow">in</span> <span class="n">comp</span> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">comp</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="k">else</span> <span class="p">[</span><span class="n">comp</span><span class="p">]:</span>
+</span><span id="Corr-774"><a href="#Corr-774"><span class="linenos"> 774</span></a>                    <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
+</span><span id="Corr-775"><a href="#Corr-775"><span class="linenos"> 775</span></a>                        <span class="n">corr</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="Corr-776"><a href="#Corr-776"><span class="linenos"> 776</span></a>                    <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">y_err</span> <span class="o">=</span> <span class="n">corr</span><span class="o">.</span><span class="n">plottable</span><span class="p">()</span>
+</span><span id="Corr-777"><a href="#Corr-777"><span class="linenos"> 777</span></a>                    <span class="k">if</span> <span class="n">hide_sigma</span><span class="p">:</span>
+</span><span id="Corr-778"><a href="#Corr-778"><span class="linenos"> 778</span></a>                        <span class="n">hide_from</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">((</span><span class="n">hide_sigma</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">y_err</span><span class="p">))</span> <span class="o">&gt;</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="Corr-779"><a href="#Corr-779"><span class="linenos"> 779</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-780"><a href="#Corr-780"><span class="linenos"> 780</span></a>                        <span class="n">hide_from</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="Corr-781"><a href="#Corr-781"><span class="linenos"> 781</span></a>                    <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y_err</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">label</span><span class="o">=</span><span class="n">corr</span><span class="o">.</span><span class="n">tag</span><span class="p">,</span> <span class="n">mfc</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;axes.facecolor&#39;</span><span class="p">])</span>
+</span><span id="Corr-782"><a href="#Corr-782"><span class="linenos"> 782</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-783"><a href="#Corr-783"><span class="linenos"> 783</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;comp&#39; must be a correlator or a list of correlators.&quot;</span><span class="p">)</span>
+</span><span id="Corr-784"><a href="#Corr-784"><span class="linenos"> 784</span></a>
+</span><span id="Corr-785"><a href="#Corr-785"><span class="linenos"> 785</span></a>        <span class="k">if</span> <span class="n">plateau</span><span class="p">:</span>
+</span><span id="Corr-786"><a href="#Corr-786"><span class="linenos"> 786</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">plateau</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="Corr-787"><a href="#Corr-787"><span class="linenos"> 787</span></a>                <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
+</span><span id="Corr-788"><a href="#Corr-788"><span class="linenos"> 788</span></a>                    <span class="n">plateau</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="Corr-789"><a href="#Corr-789"><span class="linenos"> 789</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="n">plateau</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="nb">str</span><span class="p">(</span><span class="n">plateau</span><span class="p">))</span>
+</span><span id="Corr-790"><a href="#Corr-790"><span class="linenos"> 790</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">axhspan</span><span class="p">(</span><span class="n">plateau</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">plateau</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">plateau</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">plateau</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.25</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">)</span>
+</span><span id="Corr-791"><a href="#Corr-791"><span class="linenos"> 791</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-792"><a href="#Corr-792"><span class="linenos"> 792</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;plateau&#39; must be an Obs&quot;</span><span class="p">)</span>
+</span><span id="Corr-793"><a href="#Corr-793"><span class="linenos"> 793</span></a>
+</span><span id="Corr-794"><a href="#Corr-794"><span class="linenos"> 794</span></a>        <span class="k">if</span> <span class="n">references</span><span class="p">:</span>
+</span><span id="Corr-795"><a href="#Corr-795"><span class="linenos"> 795</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">references</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="Corr-796"><a href="#Corr-796"><span class="linenos"> 796</span></a>                <span class="k">for</span> <span class="n">ref</span> <span class="ow">in</span> <span class="n">references</span><span class="p">:</span>
+</span><span id="Corr-797"><a href="#Corr-797"><span class="linenos"> 797</span></a>                    <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="n">ref</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">)</span>
+</span><span id="Corr-798"><a href="#Corr-798"><span class="linenos"> 798</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-799"><a href="#Corr-799"><span class="linenos"> 799</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;references&#39; must be a list of floating pint values.&quot;</span><span class="p">)</span>
+</span><span id="Corr-800"><a href="#Corr-800"><span class="linenos"> 800</span></a>
+</span><span id="Corr-801"><a href="#Corr-801"><span class="linenos"> 801</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
+</span><span id="Corr-802"><a href="#Corr-802"><span class="linenos"> 802</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="Corr-803"><a href="#Corr-803"><span class="linenos"> 803</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="Corr-804"><a href="#Corr-804"><span class="linenos"> 804</span></a>
+</span><span id="Corr-805"><a href="#Corr-805"><span class="linenos"> 805</span></a>        <span class="k">if</span> <span class="n">fit_res</span><span class="p">:</span>
+</span><span id="Corr-806"><a href="#Corr-806"><span class="linenos"> 806</span></a>            <span class="n">x_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mf">0.05</span><span class="p">)</span>
+</span><span id="Corr-807"><a href="#Corr-807"><span class="linenos"> 807</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span>
+</span><span id="Corr-808"><a href="#Corr-808"><span class="linenos"> 808</span></a>                     <span class="n">fit_res</span><span class="o">.</span><span class="n">fit_function</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">],</span> <span class="n">x_samples</span><span class="p">),</span>
+</span><span id="Corr-809"><a href="#Corr-809"><span class="linenos"> 809</span></a>                     <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
+</span><span id="Corr-810"><a href="#Corr-810"><span class="linenos"> 810</span></a>
+</span><span id="Corr-811"><a href="#Corr-811"><span class="linenos"> 811</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$x_0 / a$&#39;</span><span class="p">)</span>
+</span><span id="Corr-812"><a href="#Corr-812"><span class="linenos"> 812</span></a>        <span class="k">if</span> <span class="n">ylabel</span><span class="p">:</span>
+</span><span id="Corr-813"><a href="#Corr-813"><span class="linenos"> 813</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="n">ylabel</span><span class="p">)</span>
+</span><span id="Corr-814"><a href="#Corr-814"><span class="linenos"> 814</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">,</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">])</span>
+</span><span id="Corr-815"><a href="#Corr-815"><span class="linenos"> 815</span></a>
+</span><span id="Corr-816"><a href="#Corr-816"><span class="linenos"> 816</span></a>        <span class="n">handles</span><span class="p">,</span> <span class="n">labels</span> <span class="o">=</span> <span class="n">ax1</span><span class="o">.</span><span class="n">get_legend_handles_labels</span><span class="p">()</span>
+</span><span id="Corr-817"><a href="#Corr-817"><span class="linenos"> 817</span></a>        <span class="k">if</span> <span class="n">labels</span><span class="p">:</span>
+</span><span id="Corr-818"><a href="#Corr-818"><span class="linenos"> 818</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
+</span><span id="Corr-819"><a href="#Corr-819"><span class="linenos"> 819</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="Corr-820"><a href="#Corr-820"><span class="linenos"> 820</span></a>
+</span><span id="Corr-821"><a href="#Corr-821"><span class="linenos"> 821</span></a>        <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
+</span><span id="Corr-822"><a href="#Corr-822"><span class="linenos"> 822</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">save</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="Corr-823"><a href="#Corr-823"><span class="linenos"> 823</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span><span class="p">)</span>
+</span><span id="Corr-824"><a href="#Corr-824"><span class="linenos"> 824</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-825"><a href="#Corr-825"><span class="linenos"> 825</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;save&#39; has to be a string.&quot;</span><span class="p">)</span>
+</span><span id="Corr-826"><a href="#Corr-826"><span class="linenos"> 826</span></a>
+</span><span id="Corr-827"><a href="#Corr-827"><span class="linenos"> 827</span></a>    <span class="k">def</span> <span class="nf">spaghetti_plot</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">logscale</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="Corr-828"><a href="#Corr-828"><span class="linenos"> 828</span></a>        <span class="sd">&quot;&quot;&quot;Produces a spaghetti plot of the correlator suited to monitor exceptional configurations.</span>
+</span><span id="Corr-829"><a href="#Corr-829"><span class="linenos"> 829</span></a>
+</span><span id="Corr-830"><a href="#Corr-830"><span class="linenos"> 830</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-831"><a href="#Corr-831"><span class="linenos"> 831</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-832"><a href="#Corr-832"><span class="linenos"> 832</span></a><span class="sd">        logscale : bool</span>
+</span><span id="Corr-833"><a href="#Corr-833"><span class="linenos"> 833</span></a><span class="sd">            Determines whether the scale of the y-axis is logarithmic or standard.</span>
+</span><span id="Corr-834"><a href="#Corr-834"><span class="linenos"> 834</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-835"><a href="#Corr-835"><span class="linenos"> 835</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-836"><a href="#Corr-836"><span class="linenos"> 836</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator needs to be projected first.&quot;</span><span class="p">)</span>
+</span><span id="Corr-837"><a href="#Corr-837"><span class="linenos"> 837</span></a>
+</span><span id="Corr-838"><a href="#Corr-838"><span class="linenos"> 838</span></a>        <span class="n">mc_names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">mc_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]))</span>
+</span><span id="Corr-839"><a href="#Corr-839"><span class="linenos"> 839</span></a>        <span class="n">x0_vals</span> <span class="o">=</span> <span class="p">[</span><span class="n">n</span> <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">o</span><span class="p">)</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="Corr-840"><a href="#Corr-840"><span class="linenos"> 840</span></a>
+</span><span id="Corr-841"><a href="#Corr-841"><span class="linenos"> 841</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
+</span><span id="Corr-842"><a href="#Corr-842"><span class="linenos"> 842</span></a>            <span class="n">data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span><span class="o">.</span><span class="n">T</span>
+</span><span id="Corr-843"><a href="#Corr-843"><span class="linenos"> 843</span></a>
+</span><span id="Corr-844"><a href="#Corr-844"><span class="linenos"> 844</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="Corr-845"><a href="#Corr-845"><span class="linenos"> 845</span></a>            <span class="n">ax</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">111</span><span class="p">)</span>
+</span><span id="Corr-846"><a href="#Corr-846"><span class="linenos"> 846</span></a>            <span class="k">for</span> <span class="n">dat</span> <span class="ow">in</span> <span class="n">data</span><span class="p">:</span>
+</span><span id="Corr-847"><a href="#Corr-847"><span class="linenos"> 847</span></a>                <span class="n">ax</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x0_vals</span><span class="p">,</span> <span class="n">dat</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="Corr-848"><a href="#Corr-848"><span class="linenos"> 848</span></a>
+</span><span id="Corr-849"><a href="#Corr-849"><span class="linenos"> 849</span></a>            <span class="k">if</span> <span class="n">logscale</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="Corr-850"><a href="#Corr-850"><span class="linenos"> 850</span></a>                <span class="n">ax</span><span class="o">.</span><span class="n">set_yscale</span><span class="p">(</span><span class="s1">&#39;log&#39;</span><span class="p">)</span>
+</span><span id="Corr-851"><a href="#Corr-851"><span class="linenos"> 851</span></a>
+</span><span id="Corr-852"><a href="#Corr-852"><span class="linenos"> 852</span></a>            <span class="n">ax</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$x_0 / a$&#39;</span><span class="p">)</span>
+</span><span id="Corr-853"><a href="#Corr-853"><span class="linenos"> 853</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="Corr-854"><a href="#Corr-854"><span class="linenos"> 854</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="Corr-855"><a href="#Corr-855"><span class="linenos"> 855</span></a>
+</span><span id="Corr-856"><a href="#Corr-856"><span class="linenos"> 856</span></a>    <span class="k">def</span> <span class="nf">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="n">datatype</span><span class="o">=</span><span class="s2">&quot;json.gz&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Corr-857"><a href="#Corr-857"><span class="linenos"> 857</span></a>        <span class="sd">&quot;&quot;&quot;Dumps the Corr into a file of chosen type</span>
+</span><span id="Corr-858"><a href="#Corr-858"><span class="linenos"> 858</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-859"><a href="#Corr-859"><span class="linenos"> 859</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-860"><a href="#Corr-860"><span class="linenos"> 860</span></a><span class="sd">        filename : str</span>
+</span><span id="Corr-861"><a href="#Corr-861"><span class="linenos"> 861</span></a><span class="sd">            Name of the file to be saved.</span>
+</span><span id="Corr-862"><a href="#Corr-862"><span class="linenos"> 862</span></a><span class="sd">        datatype : str</span>
+</span><span id="Corr-863"><a href="#Corr-863"><span class="linenos"> 863</span></a><span class="sd">            Format of the exported file. Supported formats include</span>
+</span><span id="Corr-864"><a href="#Corr-864"><span class="linenos"> 864</span></a><span class="sd">            &quot;json.gz&quot; and &quot;pickle&quot;</span>
+</span><span id="Corr-865"><a href="#Corr-865"><span class="linenos"> 865</span></a><span class="sd">        path : str</span>
+</span><span id="Corr-866"><a href="#Corr-866"><span class="linenos"> 866</span></a><span class="sd">            specifies a custom path for the file (default &#39;.&#39;)</span>
+</span><span id="Corr-867"><a href="#Corr-867"><span class="linenos"> 867</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr-868"><a href="#Corr-868"><span class="linenos"> 868</span></a>        <span class="k">if</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;json.gz&quot;</span><span class="p">:</span>
+</span><span id="Corr-869"><a href="#Corr-869"><span class="linenos"> 869</span></a>            <span class="kn">from</span> <span class="nn">.input.json</span> <span class="kn">import</span> <span class="n">dump_to_json</span>
+</span><span id="Corr-870"><a href="#Corr-870"><span class="linenos"> 870</span></a>            <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="Corr-871"><a href="#Corr-871"><span class="linenos"> 871</span></a>                <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">filename</span>
+</span><span id="Corr-872"><a href="#Corr-872"><span class="linenos"> 872</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-873"><a href="#Corr-873"><span class="linenos"> 873</span></a>                <span class="n">file_name</span> <span class="o">=</span> <span class="n">filename</span>
+</span><span id="Corr-874"><a href="#Corr-874"><span class="linenos"> 874</span></a>            <span class="n">dump_to_json</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">file_name</span><span class="p">)</span>
+</span><span id="Corr-875"><a href="#Corr-875"><span class="linenos"> 875</span></a>        <span class="k">elif</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;pickle&quot;</span><span class="p">:</span>
+</span><span id="Corr-876"><a href="#Corr-876"><span class="linenos"> 876</span></a>            <span class="n">dump_object</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="Corr-877"><a href="#Corr-877"><span class="linenos"> 877</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-878"><a href="#Corr-878"><span class="linenos"> 878</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown datatype &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">datatype</span><span class="p">))</span>
+</span><span id="Corr-879"><a href="#Corr-879"><span class="linenos"> 879</span></a>
+</span><span id="Corr-880"><a href="#Corr-880"><span class="linenos"> 880</span></a>    <span class="k">def</span> <span class="nf">print</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="nb">range</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="kc">None</span><span class="p">]):</span>
+</span><span id="Corr-881"><a href="#Corr-881"><span class="linenos"> 881</span></a>        <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="fm">__repr__</span><span class="p">(</span><span class="nb">range</span><span class="p">))</span>
+</span><span id="Corr-882"><a href="#Corr-882"><span class="linenos"> 882</span></a>
+</span><span id="Corr-883"><a href="#Corr-883"><span class="linenos"> 883</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="nb">range</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="kc">None</span><span class="p">]):</span>
+</span><span id="Corr-884"><a href="#Corr-884"><span class="linenos"> 884</span></a>        <span class="n">content_string</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
+</span><span id="Corr-885"><a href="#Corr-885"><span class="linenos"> 885</span></a>
+</span><span id="Corr-886"><a href="#Corr-886"><span class="linenos"> 886</span></a>        <span class="n">content_string</span> <span class="o">+=</span> <span class="s2">&quot;Corr T=&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot; N=&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\n</span><span class="s2">&quot;</span>  <span class="c1"># +&quot; filled with&quot;+ str(type(self.content[0][0])) there should be a good solution here</span>
+</span><span id="Corr-887"><a href="#Corr-887"><span class="linenos"> 887</span></a>
+</span><span id="Corr-888"><a href="#Corr-888"><span class="linenos"> 888</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-889"><a href="#Corr-889"><span class="linenos"> 889</span></a>            <span class="n">content_string</span> <span class="o">+=</span> <span class="s2">&quot;Description: &quot;</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\n</span><span class="s2">&quot;</span>
+</span><span id="Corr-890"><a href="#Corr-890"><span class="linenos"> 890</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-891"><a href="#Corr-891"><span class="linenos"> 891</span></a>            <span class="k">return</span> <span class="n">content_string</span>
+</span><span id="Corr-892"><a href="#Corr-892"><span class="linenos"> 892</span></a>
+</span><span id="Corr-893"><a href="#Corr-893"><span class="linenos"> 893</span></a>        <span class="k">if</span> <span class="nb">range</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
+</span><span id="Corr-894"><a href="#Corr-894"><span class="linenos"> 894</span></a>            <span class="nb">range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="Corr-895"><a href="#Corr-895"><span class="linenos"> 895</span></a>        <span class="n">content_string</span> <span class="o">+=</span> <span class="s1">&#39;x0/a</span><span class="se">\t</span><span class="s1">Corr(x0/a)</span><span class="se">\n</span><span class="s1">------------------</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="Corr-896"><a href="#Corr-896"><span class="linenos"> 896</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">sub_corr</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="nb">range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span><span class="nb">range</span><span class="p">[</span><span class="mi">1</span><span class="p">]]):</span>
+</span><span id="Corr-897"><a href="#Corr-897"><span class="linenos"> 897</span></a>            <span class="k">if</span> <span class="n">sub_corr</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-898"><a href="#Corr-898"><span class="linenos"> 898</span></a>                <span class="n">content_string</span> <span class="o">+=</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="nb">range</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="Corr-899"><a href="#Corr-899"><span class="linenos"> 899</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-900"><a href="#Corr-900"><span class="linenos"> 900</span></a>                <span class="n">content_string</span> <span class="o">+=</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="nb">range</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="Corr-901"><a href="#Corr-901"><span class="linenos"> 901</span></a>                <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">sub_corr</span><span class="p">:</span>
+</span><span id="Corr-902"><a href="#Corr-902"><span class="linenos"> 902</span></a>                    <span class="n">content_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">*</span> <span class="nb">int</span><span class="p">(</span><span class="n">element</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="Corr-903"><a href="#Corr-903"><span class="linenos"> 903</span></a>                <span class="n">content_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="Corr-904"><a href="#Corr-904"><span class="linenos"> 904</span></a>        <span class="k">return</span> <span class="n">content_string</span>
+</span><span id="Corr-905"><a href="#Corr-905"><span class="linenos"> 905</span></a>
+</span><span id="Corr-906"><a href="#Corr-906"><span class="linenos"> 906</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-907"><a href="#Corr-907"><span class="linenos"> 907</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="fm">__repr__</span><span class="p">()</span>
+</span><span id="Corr-908"><a href="#Corr-908"><span class="linenos"> 908</span></a>
+</span><span id="Corr-909"><a href="#Corr-909"><span class="linenos"> 909</span></a>    <span class="c1"># We define the basic operations, that can be performed with correlators.</span>
+</span><span id="Corr-910"><a href="#Corr-910"><span class="linenos"> 910</span></a>    <span class="c1"># While */+- get defined here, they only work for Corr*Obs and not Obs*Corr.</span>
+</span><span id="Corr-911"><a href="#Corr-911"><span class="linenos"> 911</span></a>    <span class="c1"># This is because Obs*Corr checks Obs.__mul__ first and does not catch an exception.</span>
+</span><span id="Corr-912"><a href="#Corr-912"><span class="linenos"> 912</span></a>    <span class="c1"># One could try and tell Obs to check if the y in __mul__ is a Corr and</span>
+</span><span id="Corr-913"><a href="#Corr-913"><span class="linenos"> 913</span></a>
+</span><span id="Corr-914"><a href="#Corr-914"><span class="linenos"> 914</span></a>    <span class="k">def</span> <span class="fm">__add__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Corr-915"><a href="#Corr-915"><span class="linenos"> 915</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="Corr-916"><a href="#Corr-916"><span class="linenos"> 916</span></a>            <span class="k">if</span> <span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">!=</span> <span class="n">y</span><span class="o">.</span><span class="n">T</span><span class="p">)):</span>
+</span><span id="Corr-917"><a href="#Corr-917"><span class="linenos"> 917</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Addition of Corrs with different shape&quot;</span><span class="p">)</span>
+</span><span id="Corr-918"><a href="#Corr-918"><span class="linenos"> 918</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-919"><a href="#Corr-919"><span class="linenos"> 919</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-920"><a href="#Corr-920"><span class="linenos"> 920</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-921"><a href="#Corr-921"><span class="linenos"> 921</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-922"><a href="#Corr-922"><span class="linenos"> 922</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-923"><a href="#Corr-923"><span class="linenos"> 923</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="Corr-924"><a href="#Corr-924"><span class="linenos"> 924</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+</span><span id="Corr-925"><a href="#Corr-925"><span class="linenos"> 925</span></a>
+</span><span id="Corr-926"><a href="#Corr-926"><span class="linenos"> 926</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
+</span><span id="Corr-927"><a href="#Corr-927"><span class="linenos"> 927</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-928"><a href="#Corr-928"><span class="linenos"> 928</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-929"><a href="#Corr-929"><span class="linenos"> 929</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-930"><a href="#Corr-930"><span class="linenos"> 930</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-931"><a href="#Corr-931"><span class="linenos"> 931</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-932"><a href="#Corr-932"><span class="linenos"> 932</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="n">y</span><span class="p">)</span>
+</span><span id="Corr-933"><a href="#Corr-933"><span class="linenos"> 933</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="Corr-934"><a href="#Corr-934"><span class="linenos"> 934</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="Corr-935"><a href="#Corr-935"><span class="linenos"> 935</span></a>            <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">,):</span>
+</span><span id="Corr-936"><a href="#Corr-936"><span class="linenos"> 936</span></a>                <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span><span class="o">.</span><span class="n">T</span> <span class="o">+</span> <span class="n">y</span><span class="p">)</span><span class="o">.</span><span class="n">T</span><span class="p">))</span>
+</span><span id="Corr-937"><a href="#Corr-937"><span class="linenos"> 937</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-938"><a href="#Corr-938"><span class="linenos"> 938</span></a>                <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;operands could not be broadcast together&quot;</span><span class="p">)</span>
+</span><span id="Corr-939"><a href="#Corr-939"><span class="linenos"> 939</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-940"><a href="#Corr-940"><span class="linenos"> 940</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s2">&quot;Corr + wrong type&quot;</span><span class="p">)</span>
+</span><span id="Corr-941"><a href="#Corr-941"><span class="linenos"> 941</span></a>
+</span><span id="Corr-942"><a href="#Corr-942"><span class="linenos"> 942</span></a>    <span class="k">def</span> <span class="fm">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Corr-943"><a href="#Corr-943"><span class="linenos"> 943</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="Corr-944"><a href="#Corr-944"><span class="linenos"> 944</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-945"><a href="#Corr-945"><span class="linenos"> 945</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multiplication of Corr object requires N=N or N=1 and T=T&quot;</span><span class="p">)</span>
+</span><span id="Corr-946"><a href="#Corr-946"><span class="linenos"> 946</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-947"><a href="#Corr-947"><span class="linenos"> 947</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-948"><a href="#Corr-948"><span class="linenos"> 948</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-949"><a href="#Corr-949"><span class="linenos"> 949</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-950"><a href="#Corr-950"><span class="linenos"> 950</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-951"><a href="#Corr-951"><span class="linenos"> 951</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">*</span> <span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="Corr-952"><a href="#Corr-952"><span class="linenos"> 952</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+</span><span id="Corr-953"><a href="#Corr-953"><span class="linenos"> 953</span></a>
+</span><span id="Corr-954"><a href="#Corr-954"><span class="linenos"> 954</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
+</span><span id="Corr-955"><a href="#Corr-955"><span class="linenos"> 955</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-956"><a href="#Corr-956"><span class="linenos"> 956</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-957"><a href="#Corr-957"><span class="linenos"> 957</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-958"><a href="#Corr-958"><span class="linenos"> 958</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-959"><a href="#Corr-959"><span class="linenos"> 959</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-960"><a href="#Corr-960"><span class="linenos"> 960</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">*</span> <span class="n">y</span><span class="p">)</span>
+</span><span id="Corr-961"><a href="#Corr-961"><span class="linenos"> 961</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="Corr-962"><a href="#Corr-962"><span class="linenos"> 962</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="Corr-963"><a href="#Corr-963"><span class="linenos"> 963</span></a>            <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">,):</span>
+</span><span id="Corr-964"><a href="#Corr-964"><span class="linenos"> 964</span></a>                <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span><span class="o">.</span><span class="n">T</span> <span class="o">*</span> <span class="n">y</span><span class="p">)</span><span class="o">.</span><span class="n">T</span><span class="p">))</span>
+</span><span id="Corr-965"><a href="#Corr-965"><span class="linenos"> 965</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-966"><a href="#Corr-966"><span class="linenos"> 966</span></a>                <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;operands could not be broadcast together&quot;</span><span class="p">)</span>
+</span><span id="Corr-967"><a href="#Corr-967"><span class="linenos"> 967</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-968"><a href="#Corr-968"><span class="linenos"> 968</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s2">&quot;Corr * wrong type&quot;</span><span class="p">)</span>
+</span><span id="Corr-969"><a href="#Corr-969"><span class="linenos"> 969</span></a>
+</span><span id="Corr-970"><a href="#Corr-970"><span class="linenos"> 970</span></a>    <span class="k">def</span> <span class="fm">__truediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Corr-971"><a href="#Corr-971"><span class="linenos"> 971</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="Corr-972"><a href="#Corr-972"><span class="linenos"> 972</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">or</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">==</span> <span class="n">y</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-973"><a href="#Corr-973"><span class="linenos"> 973</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multiplication of Corr object requires N=N or N=1 and T=T&quot;</span><span class="p">)</span>
+</span><span id="Corr-974"><a href="#Corr-974"><span class="linenos"> 974</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-975"><a href="#Corr-975"><span class="linenos"> 975</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-976"><a href="#Corr-976"><span class="linenos"> 976</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-977"><a href="#Corr-977"><span class="linenos"> 977</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-978"><a href="#Corr-978"><span class="linenos"> 978</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-979"><a href="#Corr-979"><span class="linenos"> 979</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="Corr-980"><a href="#Corr-980"><span class="linenos"> 980</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-981"><a href="#Corr-981"><span class="linenos"> 981</span></a>                <span class="k">if</span> <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-982"><a href="#Corr-982"><span class="linenos"> 982</span></a>                    <span class="k">continue</span>
+</span><span id="Corr-983"><a href="#Corr-983"><span class="linenos"> 983</span></a>                <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">])</span><span class="o">.</span><span class="n">value</span><span class="p">):</span>
+</span><span id="Corr-984"><a href="#Corr-984"><span class="linenos"> 984</span></a>                    <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="Corr-985"><a href="#Corr-985"><span class="linenos"> 985</span></a>
+</span><span id="Corr-986"><a href="#Corr-986"><span class="linenos"> 986</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">]):</span>
+</span><span id="Corr-987"><a href="#Corr-987"><span class="linenos"> 987</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Division returns completely undefined correlator&quot;</span><span class="p">)</span>
+</span><span id="Corr-988"><a href="#Corr-988"><span class="linenos"> 988</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+</span><span id="Corr-989"><a href="#Corr-989"><span class="linenos"> 989</span></a>
+</span><span id="Corr-990"><a href="#Corr-990"><span class="linenos"> 990</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
+</span><span id="Corr-991"><a href="#Corr-991"><span class="linenos"> 991</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="Corr-992"><a href="#Corr-992"><span class="linenos"> 992</span></a>                <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Corr-993"><a href="#Corr-993"><span class="linenos"> 993</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Division by zero will return undefined correlator&#39;</span><span class="p">)</span>
+</span><span id="Corr-994"><a href="#Corr-994"><span class="linenos"> 994</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">CObs</span><span class="p">):</span>
+</span><span id="Corr-995"><a href="#Corr-995"><span class="linenos"> 995</span></a>                <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">is_zero</span><span class="p">():</span>
+</span><span id="Corr-996"><a href="#Corr-996"><span class="linenos"> 996</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Division by zero will return undefined correlator&#39;</span><span class="p">)</span>
+</span><span id="Corr-997"><a href="#Corr-997"><span class="linenos"> 997</span></a>
+</span><span id="Corr-998"><a href="#Corr-998"><span class="linenos"> 998</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-999"><a href="#Corr-999"><span class="linenos"> 999</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-1000"><a href="#Corr-1000"><span class="linenos">1000</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-1001"><a href="#Corr-1001"><span class="linenos">1001</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-1002"><a href="#Corr-1002"><span class="linenos">1002</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-1003"><a href="#Corr-1003"><span class="linenos">1003</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span>
+</span><span id="Corr-1004"><a href="#Corr-1004"><span class="linenos">1004</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="Corr-1005"><a href="#Corr-1005"><span class="linenos">1005</span></a>
+</span><span id="Corr-1006"><a href="#Corr-1006"><span class="linenos">1006</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
+</span><span id="Corr-1007"><a href="#Corr-1007"><span class="linenos">1007</span></a>            <span class="k">if</span> <span class="n">y</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Corr-1008"><a href="#Corr-1008"><span class="linenos">1008</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Division by zero will return undefined correlator&#39;</span><span class="p">)</span>
+</span><span id="Corr-1009"><a href="#Corr-1009"><span class="linenos">1009</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-1010"><a href="#Corr-1010"><span class="linenos">1010</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-1011"><a href="#Corr-1011"><span class="linenos">1011</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-1012"><a href="#Corr-1012"><span class="linenos">1012</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr-1013"><a href="#Corr-1013"><span class="linenos">1013</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-1014"><a href="#Corr-1014"><span class="linenos">1014</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span>
+</span><span id="Corr-1015"><a href="#Corr-1015"><span class="linenos">1015</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="Corr-1016"><a href="#Corr-1016"><span class="linenos">1016</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="Corr-1017"><a href="#Corr-1017"><span class="linenos">1017</span></a>            <span class="k">if</span> <span class="n">y</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">,):</span>
+</span><span id="Corr-1018"><a href="#Corr-1018"><span class="linenos">1018</span></a>                <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span><span class="o">.</span><span class="n">T</span><span class="p">))</span>
+</span><span id="Corr-1019"><a href="#Corr-1019"><span class="linenos">1019</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-1020"><a href="#Corr-1020"><span class="linenos">1020</span></a>                <span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">&quot;operands could not be broadcast together&quot;</span><span class="p">)</span>
+</span><span id="Corr-1021"><a href="#Corr-1021"><span class="linenos">1021</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-1022"><a href="#Corr-1022"><span class="linenos">1022</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;Corr / wrong type&#39;</span><span class="p">)</span>
+</span><span id="Corr-1023"><a href="#Corr-1023"><span class="linenos">1023</span></a>
+</span><span id="Corr-1024"><a href="#Corr-1024"><span class="linenos">1024</span></a>    <span class="k">def</span> <span class="fm">__neg__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1025"><a href="#Corr-1025"><span class="linenos">1025</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="o">-</span><span class="mf">1.</span> <span class="o">*</span> <span class="n">item</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr-1026"><a href="#Corr-1026"><span class="linenos">1026</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="Corr-1027"><a href="#Corr-1027"><span class="linenos">1027</span></a>
+</span><span id="Corr-1028"><a href="#Corr-1028"><span class="linenos">1028</span></a>    <span class="k">def</span> <span class="fm">__sub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Corr-1029"><a href="#Corr-1029"><span class="linenos">1029</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="p">(</span><span class="o">-</span><span class="n">y</span><span class="p">)</span>
+</span><span id="Corr-1030"><a href="#Corr-1030"><span class="linenos">1030</span></a>
+</span><span id="Corr-1031"><a href="#Corr-1031"><span class="linenos">1031</span></a>    <span class="k">def</span> <span class="fm">__pow__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Corr-1032"><a href="#Corr-1032"><span class="linenos">1032</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)):</span>
+</span><span id="Corr-1033"><a href="#Corr-1033"><span class="linenos">1033</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">item</span><span class="o">**</span><span class="n">y</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr-1034"><a href="#Corr-1034"><span class="linenos">1034</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="Corr-1035"><a href="#Corr-1035"><span class="linenos">1035</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-1036"><a href="#Corr-1036"><span class="linenos">1036</span></a>            <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;Type of exponent not supported&#39;</span><span class="p">)</span>
+</span><span id="Corr-1037"><a href="#Corr-1037"><span class="linenos">1037</span></a>
+</span><span id="Corr-1038"><a href="#Corr-1038"><span class="linenos">1038</span></a>    <span class="k">def</span> <span class="fm">__abs__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1039"><a href="#Corr-1039"><span class="linenos">1039</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr-1040"><a href="#Corr-1040"><span class="linenos">1040</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="Corr-1041"><a href="#Corr-1041"><span class="linenos">1041</span></a>
+</span><span id="Corr-1042"><a href="#Corr-1042"><span class="linenos">1042</span></a>    <span class="c1"># The numpy functions:</span>
+</span><span id="Corr-1043"><a href="#Corr-1043"><span class="linenos">1043</span></a>    <span class="k">def</span> <span class="nf">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1044"><a href="#Corr-1044"><span class="linenos">1044</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">**</span><span class="mf">0.5</span>
+</span><span id="Corr-1045"><a href="#Corr-1045"><span class="linenos">1045</span></a>
+</span><span id="Corr-1046"><a href="#Corr-1046"><span class="linenos">1046</span></a>    <span class="k">def</span> <span class="nf">log</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1047"><a href="#Corr-1047"><span class="linenos">1047</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr-1048"><a href="#Corr-1048"><span class="linenos">1048</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="Corr-1049"><a href="#Corr-1049"><span class="linenos">1049</span></a>
+</span><span id="Corr-1050"><a href="#Corr-1050"><span class="linenos">1050</span></a>    <span class="k">def</span> <span class="nf">exp</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1051"><a href="#Corr-1051"><span class="linenos">1051</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr-1052"><a href="#Corr-1052"><span class="linenos">1052</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+</span><span id="Corr-1053"><a href="#Corr-1053"><span class="linenos">1053</span></a>
+</span><span id="Corr-1054"><a href="#Corr-1054"><span class="linenos">1054</span></a>    <span class="k">def</span> <span class="nf">_apply_func_to_corr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">func</span><span class="p">):</span>
+</span><span id="Corr-1055"><a href="#Corr-1055"><span class="linenos">1055</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">func</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr-1056"><a href="#Corr-1056"><span class="linenos">1056</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-1057"><a href="#Corr-1057"><span class="linenos">1057</span></a>            <span class="k">if</span> <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-1058"><a href="#Corr-1058"><span class="linenos">1058</span></a>                <span class="k">continue</span>
+</span><span id="Corr-1059"><a href="#Corr-1059"><span class="linenos">1059</span></a>            <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">])</span><span class="o">.</span><span class="n">value</span><span class="p">):</span>
+</span><span id="Corr-1060"><a href="#Corr-1060"><span class="linenos">1060</span></a>                <span class="n">newcontent</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="Corr-1061"><a href="#Corr-1061"><span class="linenos">1061</span></a>        <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">]):</span>
+</span><span id="Corr-1062"><a href="#Corr-1062"><span class="linenos">1062</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Operation returns undefined correlator&#39;</span><span class="p">)</span>
+</span><span id="Corr-1063"><a href="#Corr-1063"><span class="linenos">1063</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+</span><span id="Corr-1064"><a href="#Corr-1064"><span class="linenos">1064</span></a>
+</span><span id="Corr-1065"><a href="#Corr-1065"><span class="linenos">1065</span></a>    <span class="k">def</span> <span class="nf">sin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1066"><a href="#Corr-1066"><span class="linenos">1066</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">)</span>
+</span><span id="Corr-1067"><a href="#Corr-1067"><span class="linenos">1067</span></a>
+</span><span id="Corr-1068"><a href="#Corr-1068"><span class="linenos">1068</span></a>    <span class="k">def</span> <span class="nf">cos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1069"><a href="#Corr-1069"><span class="linenos">1069</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">)</span>
+</span><span id="Corr-1070"><a href="#Corr-1070"><span class="linenos">1070</span></a>
+</span><span id="Corr-1071"><a href="#Corr-1071"><span class="linenos">1071</span></a>    <span class="k">def</span> <span class="nf">tan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1072"><a href="#Corr-1072"><span class="linenos">1072</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">tan</span><span class="p">)</span>
+</span><span id="Corr-1073"><a href="#Corr-1073"><span class="linenos">1073</span></a>
+</span><span id="Corr-1074"><a href="#Corr-1074"><span class="linenos">1074</span></a>    <span class="k">def</span> <span class="nf">sinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1075"><a href="#Corr-1075"><span class="linenos">1075</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">)</span>
+</span><span id="Corr-1076"><a href="#Corr-1076"><span class="linenos">1076</span></a>
+</span><span id="Corr-1077"><a href="#Corr-1077"><span class="linenos">1077</span></a>    <span class="k">def</span> <span class="nf">cosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1078"><a href="#Corr-1078"><span class="linenos">1078</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">)</span>
+</span><span id="Corr-1079"><a href="#Corr-1079"><span class="linenos">1079</span></a>
+</span><span id="Corr-1080"><a href="#Corr-1080"><span class="linenos">1080</span></a>    <span class="k">def</span> <span class="nf">tanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1081"><a href="#Corr-1081"><span class="linenos">1081</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">tanh</span><span class="p">)</span>
+</span><span id="Corr-1082"><a href="#Corr-1082"><span class="linenos">1082</span></a>
+</span><span id="Corr-1083"><a href="#Corr-1083"><span class="linenos">1083</span></a>    <span class="k">def</span> <span class="nf">arcsin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1084"><a href="#Corr-1084"><span class="linenos">1084</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arcsin</span><span class="p">)</span>
+</span><span id="Corr-1085"><a href="#Corr-1085"><span class="linenos">1085</span></a>
+</span><span id="Corr-1086"><a href="#Corr-1086"><span class="linenos">1086</span></a>    <span class="k">def</span> <span class="nf">arccos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1087"><a href="#Corr-1087"><span class="linenos">1087</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arccos</span><span class="p">)</span>
+</span><span id="Corr-1088"><a href="#Corr-1088"><span class="linenos">1088</span></a>
+</span><span id="Corr-1089"><a href="#Corr-1089"><span class="linenos">1089</span></a>    <span class="k">def</span> <span class="nf">arctan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1090"><a href="#Corr-1090"><span class="linenos">1090</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arctan</span><span class="p">)</span>
+</span><span id="Corr-1091"><a href="#Corr-1091"><span class="linenos">1091</span></a>
+</span><span id="Corr-1092"><a href="#Corr-1092"><span class="linenos">1092</span></a>    <span class="k">def</span> <span class="nf">arcsinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1093"><a href="#Corr-1093"><span class="linenos">1093</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arcsinh</span><span class="p">)</span>
+</span><span id="Corr-1094"><a href="#Corr-1094"><span class="linenos">1094</span></a>
+</span><span id="Corr-1095"><a href="#Corr-1095"><span class="linenos">1095</span></a>    <span class="k">def</span> <span class="nf">arccosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1096"><a href="#Corr-1096"><span class="linenos">1096</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arccosh</span><span class="p">)</span>
+</span><span id="Corr-1097"><a href="#Corr-1097"><span class="linenos">1097</span></a>
+</span><span id="Corr-1098"><a href="#Corr-1098"><span class="linenos">1098</span></a>    <span class="k">def</span> <span class="nf">arctanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1099"><a href="#Corr-1099"><span class="linenos">1099</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arctanh</span><span class="p">)</span>
+</span><span id="Corr-1100"><a href="#Corr-1100"><span class="linenos">1100</span></a>
+</span><span id="Corr-1101"><a href="#Corr-1101"><span class="linenos">1101</span></a>    <span class="c1"># Right hand side operations (require tweak in main module to work)</span>
+</span><span id="Corr-1102"><a href="#Corr-1102"><span class="linenos">1102</span></a>    <span class="k">def</span> <span class="fm">__radd__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Corr-1103"><a href="#Corr-1103"><span class="linenos">1103</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
+</span><span id="Corr-1104"><a href="#Corr-1104"><span class="linenos">1104</span></a>
+</span><span id="Corr-1105"><a href="#Corr-1105"><span class="linenos">1105</span></a>    <span class="k">def</span> <span class="fm">__rsub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Corr-1106"><a href="#Corr-1106"><span class="linenos">1106</span></a>        <span class="k">return</span> <span class="o">-</span><span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
+</span><span id="Corr-1107"><a href="#Corr-1107"><span class="linenos">1107</span></a>
+</span><span id="Corr-1108"><a href="#Corr-1108"><span class="linenos">1108</span></a>    <span class="k">def</span> <span class="fm">__rmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Corr-1109"><a href="#Corr-1109"><span class="linenos">1109</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">y</span>
+</span><span id="Corr-1110"><a href="#Corr-1110"><span class="linenos">1110</span></a>
+</span><span id="Corr-1111"><a href="#Corr-1111"><span class="linenos">1111</span></a>    <span class="k">def</span> <span class="fm">__rtruediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Corr-1112"><a href="#Corr-1112"><span class="linenos">1112</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">/</span> <span class="n">y</span><span class="p">)</span> <span class="o">**</span> <span class="p">(</span><span class="o">-</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="Corr-1113"><a href="#Corr-1113"><span class="linenos">1113</span></a>
+</span><span id="Corr-1114"><a href="#Corr-1114"><span class="linenos">1114</span></a>    <span class="nd">@property</span>
+</span><span id="Corr-1115"><a href="#Corr-1115"><span class="linenos">1115</span></a>    <span class="k">def</span> <span class="nf">real</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1116"><a href="#Corr-1116"><span class="linenos">1116</span></a>        <span class="k">def</span> <span class="nf">return_real</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">):</span>
+</span><span id="Corr-1117"><a href="#Corr-1117"><span class="linenos">1117</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">):</span>
+</span><span id="Corr-1118"><a href="#Corr-1118"><span class="linenos">1118</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span><span class="o">.</span><span class="n">real</span>
+</span><span id="Corr-1119"><a href="#Corr-1119"><span class="linenos">1119</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-1120"><a href="#Corr-1120"><span class="linenos">1120</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span>
+</span><span id="Corr-1121"><a href="#Corr-1121"><span class="linenos">1121</span></a>
+</span><span id="Corr-1122"><a href="#Corr-1122"><span class="linenos">1122</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">return_real</span><span class="p">)</span>
+</span><span id="Corr-1123"><a href="#Corr-1123"><span class="linenos">1123</span></a>
+</span><span id="Corr-1124"><a href="#Corr-1124"><span class="linenos">1124</span></a>    <span class="nd">@property</span>
+</span><span id="Corr-1125"><a href="#Corr-1125"><span class="linenos">1125</span></a>    <span class="k">def</span> <span class="nf">imag</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr-1126"><a href="#Corr-1126"><span class="linenos">1126</span></a>        <span class="k">def</span> <span class="nf">return_imag</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">):</span>
+</span><span id="Corr-1127"><a href="#Corr-1127"><span class="linenos">1127</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obs_OR_cobs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">):</span>
+</span><span id="Corr-1128"><a href="#Corr-1128"><span class="linenos">1128</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span><span class="o">.</span><span class="n">imag</span>
+</span><span id="Corr-1129"><a href="#Corr-1129"><span class="linenos">1129</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr-1130"><a href="#Corr-1130"><span class="linenos">1130</span></a>                <span class="k">return</span> <span class="n">obs_OR_cobs</span> <span class="o">*</span> <span class="mi">0</span>  <span class="c1"># So it stays the right type</span>
+</span><span id="Corr-1131"><a href="#Corr-1131"><span class="linenos">1131</span></a>
+</span><span id="Corr-1132"><a href="#Corr-1132"><span class="linenos">1132</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">return_imag</span><span class="p">)</span>
+</span><span id="Corr-1133"><a href="#Corr-1133"><span class="linenos">1133</span></a>
+</span><span id="Corr-1134"><a href="#Corr-1134"><span class="linenos">1134</span></a>    <span class="k">def</span> <span class="nf">prune</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">Ntrunc</span><span class="p">,</span> <span class="n">tproj</span><span class="o">=</span><span class="mi">3</span><span class="p">,</span> <span class="n">t0proj</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">basematrix</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr-1135"><a href="#Corr-1135"><span class="linenos">1135</span></a>        <span class="sa">r</span><span class="sd">&#39;&#39;&#39; Project large correlation matrix to lowest states</span>
+</span><span id="Corr-1136"><a href="#Corr-1136"><span class="linenos">1136</span></a>
+</span><span id="Corr-1137"><a href="#Corr-1137"><span class="linenos">1137</span></a><span class="sd">        This method can be used to reduce the size of an (N x N) correlation matrix</span>
+</span><span id="Corr-1138"><a href="#Corr-1138"><span class="linenos">1138</span></a><span class="sd">        to (Ntrunc x Ntrunc) by solving a GEVP at very early times where the noise</span>
+</span><span id="Corr-1139"><a href="#Corr-1139"><span class="linenos">1139</span></a><span class="sd">        is still small.</span>
+</span><span id="Corr-1140"><a href="#Corr-1140"><span class="linenos">1140</span></a>
+</span><span id="Corr-1141"><a href="#Corr-1141"><span class="linenos">1141</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr-1142"><a href="#Corr-1142"><span class="linenos">1142</span></a><span class="sd">        ----------</span>
+</span><span id="Corr-1143"><a href="#Corr-1143"><span class="linenos">1143</span></a><span class="sd">        Ntrunc: int</span>
+</span><span id="Corr-1144"><a href="#Corr-1144"><span class="linenos">1144</span></a><span class="sd">            Rank of the target matrix.</span>
+</span><span id="Corr-1145"><a href="#Corr-1145"><span class="linenos">1145</span></a><span class="sd">        tproj: int</span>
+</span><span id="Corr-1146"><a href="#Corr-1146"><span class="linenos">1146</span></a><span class="sd">            Time where the eigenvectors are evaluated, corresponds to ts in the GEVP method.</span>
+</span><span id="Corr-1147"><a href="#Corr-1147"><span class="linenos">1147</span></a><span class="sd">            The default value is 3.</span>
+</span><span id="Corr-1148"><a href="#Corr-1148"><span class="linenos">1148</span></a><span class="sd">        t0proj: int</span>
+</span><span id="Corr-1149"><a href="#Corr-1149"><span class="linenos">1149</span></a><span class="sd">            Time where the correlation matrix is inverted. Choosing t0proj=1 is strongly</span>
+</span><span id="Corr-1150"><a href="#Corr-1150"><span class="linenos">1150</span></a><span class="sd">            discouraged for O(a) improved theories, since the correctness of the procedure</span>
+</span><span id="Corr-1151"><a href="#Corr-1151"><span class="linenos">1151</span></a><span class="sd">            cannot be granted in this case. The default value is 2.</span>
+</span><span id="Corr-1152"><a href="#Corr-1152"><span class="linenos">1152</span></a><span class="sd">        basematrix : Corr</span>
+</span><span id="Corr-1153"><a href="#Corr-1153"><span class="linenos">1153</span></a><span class="sd">            Correlation matrix that is used to determine the eigenvectors of the</span>
+</span><span id="Corr-1154"><a href="#Corr-1154"><span class="linenos">1154</span></a><span class="sd">            lowest states based on a GEVP. basematrix is taken to be the Corr itself if</span>
+</span><span id="Corr-1155"><a href="#Corr-1155"><span class="linenos">1155</span></a><span class="sd">            is is not specified.</span>
+</span><span id="Corr-1156"><a href="#Corr-1156"><span class="linenos">1156</span></a>
+</span><span id="Corr-1157"><a href="#Corr-1157"><span class="linenos">1157</span></a><span class="sd">        Notes</span>
+</span><span id="Corr-1158"><a href="#Corr-1158"><span class="linenos">1158</span></a><span class="sd">        -----</span>
+</span><span id="Corr-1159"><a href="#Corr-1159"><span class="linenos">1159</span></a><span class="sd">        We have the basematrix $C(t)$ and the target matrix $G(t)$. We start by solving</span>
+</span><span id="Corr-1160"><a href="#Corr-1160"><span class="linenos">1160</span></a><span class="sd">        the GEVP $$C(t) v_n(t, t_0) = \lambda_n(t, t_0) C(t_0) v_n(t, t_0)$$ where $t \equiv t_\mathrm{proj}$</span>
+</span><span id="Corr-1161"><a href="#Corr-1161"><span class="linenos">1161</span></a><span class="sd">        and $t_0 \equiv t_{0, \mathrm{proj}}$. The target matrix is projected onto the subspace of the</span>
+</span><span id="Corr-1162"><a href="#Corr-1162"><span class="linenos">1162</span></a><span class="sd">        resulting eigenvectors $v_n, n=1,\dots,N_\mathrm{trunc}$ via</span>
+</span><span id="Corr-1163"><a href="#Corr-1163"><span class="linenos">1163</span></a><span class="sd">        $$G^\prime_{i, j}(t) = (v_i, G(t) v_j)$$. This allows to reduce the size of a large</span>
+</span><span id="Corr-1164"><a href="#Corr-1164"><span class="linenos">1164</span></a><span class="sd">        correlation matrix and to remove some noise that is added by irrelevant operators.</span>
+</span><span id="Corr-1165"><a href="#Corr-1165"><span class="linenos">1165</span></a><span class="sd">        This may allow to use the GEVP on $G(t)$ at late times such that the theoretically motivated</span>
+</span><span id="Corr-1166"><a href="#Corr-1166"><span class="linenos">1166</span></a><span class="sd">        bound $t_0 \leq t/2$ holds, since the condition number of $G(t)$ is decreased, compared to $C(t)$.</span>
+</span><span id="Corr-1167"><a href="#Corr-1167"><span class="linenos">1167</span></a><span class="sd">        &#39;&#39;&#39;</span>
+</span><span id="Corr-1168"><a href="#Corr-1168"><span class="linenos">1168</span></a>
+</span><span id="Corr-1169"><a href="#Corr-1169"><span class="linenos">1169</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr-1170"><a href="#Corr-1170"><span class="linenos">1170</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Method cannot be applied to one-dimensional correlators.&#39;</span><span class="p">)</span>
+</span><span id="Corr-1171"><a href="#Corr-1171"><span class="linenos">1171</span></a>        <span class="k">if</span> <span class="n">basematrix</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr-1172"><a href="#Corr-1172"><span class="linenos">1172</span></a>            <span class="n">basematrix</span> <span class="o">=</span> <span class="bp">self</span>
+</span><span id="Corr-1173"><a href="#Corr-1173"><span class="linenos">1173</span></a>        <span class="k">if</span> <span class="n">Ntrunc</span> <span class="o">&gt;=</span> <span class="n">basematrix</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
+</span><span id="Corr-1174"><a href="#Corr-1174"><span class="linenos">1174</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Cannot truncate using Ntrunc &lt;= </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
+</span><span id="Corr-1175"><a href="#Corr-1175"><span class="linenos">1175</span></a>        <span class="k">if</span> <span class="n">basematrix</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
+</span><span id="Corr-1176"><a href="#Corr-1176"><span class="linenos">1176</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;basematrix and targetmatrix have to be of the same size.&#39;</span><span class="p">)</span>
+</span><span id="Corr-1177"><a href="#Corr-1177"><span class="linenos">1177</span></a>
+</span><span id="Corr-1178"><a href="#Corr-1178"><span class="linenos">1178</span></a>        <span class="n">evecs</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-1179"><a href="#Corr-1179"><span class="linenos">1179</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
+</span><span id="Corr-1180"><a href="#Corr-1180"><span class="linenos">1180</span></a>            <span class="n">evecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">GEVP</span><span class="p">(</span><span class="n">t0proj</span><span class="p">,</span> <span class="n">tproj</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="n">i</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span><span class="p">))</span>
+</span><span id="Corr-1181"><a href="#Corr-1181"><span class="linenos">1181</span></a>
+</span><span id="Corr-1182"><a href="#Corr-1182"><span class="linenos">1182</span></a>        <span class="n">tmpmat</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">Ntrunc</span><span class="p">,</span> <span class="n">Ntrunc</span><span class="p">),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="Corr-1183"><a href="#Corr-1183"><span class="linenos">1183</span></a>        <span class="n">rmat</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr-1184"><a href="#Corr-1184"><span class="linenos">1184</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr-1185"><a href="#Corr-1185"><span class="linenos">1185</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
+</span><span id="Corr-1186"><a href="#Corr-1186"><span class="linenos">1186</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
+</span><span id="Corr-1187"><a href="#Corr-1187"><span class="linenos">1187</span></a>                    <span class="n">tmpmat</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">evecs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="bp">self</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">evecs</span><span class="p">[</span><span class="n">j</span><span class="p">]</span>
+</span><span id="Corr-1188"><a href="#Corr-1188"><span class="linenos">1188</span></a>            <span class="n">rmat</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">copy</span><span class="p">(</span><span class="n">tmpmat</span><span class="p">))</span>
+</span><span id="Corr-1189"><a href="#Corr-1189"><span class="linenos">1189</span></a>
+</span><span id="Corr-1190"><a href="#Corr-1190"><span class="linenos">1190</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">rmat</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)]</span>
+</span><span id="Corr-1191"><a href="#Corr-1191"><span class="linenos">1191</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>The class for a correlator (time dependent sequence of pe.Obs).</p>
 
@@ -2645,90 +2645,90 @@ matrix at every timeslice. Other dependency (eg. spatial) are not supported.</p>
 
 
                             <div id="Corr.__init__" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.__init__">#&nbsp;&nbsp</a>
+                                        <input id="Corr.__init__-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="name">Corr</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">data_input</span>, </span><span class="param"><span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span>, </span><span class="param"><span class="n">prange</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.__init__-view-source"><span>View Source</span></label>
 
-        
-            <span class="name">Corr</span><span class="signature">(data_input, padding=[0, 0], prange=None)</span>
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.__init__-26"><a href="#Corr.__init__-26"><span class="linenos">26</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data_input</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="n">prange</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.__init__-27"><a href="#Corr.__init__-27"><span class="linenos">27</span></a>        <span class="sd">&quot;&quot;&quot; Initialize a Corr object.</span>
-</span><span id="Corr.__init__-28"><a href="#Corr.__init__-28"><span class="linenos">28</span></a>
-</span><span id="Corr.__init__-29"><a href="#Corr.__init__-29"><span class="linenos">29</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.__init__-30"><a href="#Corr.__init__-30"><span class="linenos">30</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.__init__-31"><a href="#Corr.__init__-31"><span class="linenos">31</span></a><span class="sd">        data_input : list or array</span>
-</span><span id="Corr.__init__-32"><a href="#Corr.__init__-32"><span class="linenos">32</span></a><span class="sd">            list of Obs or list of arrays of Obs or array of Corrs</span>
-</span><span id="Corr.__init__-33"><a href="#Corr.__init__-33"><span class="linenos">33</span></a><span class="sd">        padding : list, optional</span>
-</span><span id="Corr.__init__-34"><a href="#Corr.__init__-34"><span class="linenos">34</span></a><span class="sd">            List with two entries where the first labels the padding</span>
-</span><span id="Corr.__init__-35"><a href="#Corr.__init__-35"><span class="linenos">35</span></a><span class="sd">            at the front of the correlator and the second the padding</span>
-</span><span id="Corr.__init__-36"><a href="#Corr.__init__-36"><span class="linenos">36</span></a><span class="sd">            at the back.</span>
-</span><span id="Corr.__init__-37"><a href="#Corr.__init__-37"><span class="linenos">37</span></a><span class="sd">        prange : list, optional</span>
-</span><span id="Corr.__init__-38"><a href="#Corr.__init__-38"><span class="linenos">38</span></a><span class="sd">            List containing the first and last timeslice of the plateau</span>
-</span><span id="Corr.__init__-39"><a href="#Corr.__init__-39"><span class="linenos">39</span></a><span class="sd">            region indentified for this correlator.</span>
-</span><span id="Corr.__init__-40"><a href="#Corr.__init__-40"><span class="linenos">40</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.__init__-41"><a href="#Corr.__init__-41"><span class="linenos">41</span></a>
-</span><span id="Corr.__init__-42"><a href="#Corr.__init__-42"><span class="linenos">42</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data_input</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="Corr.__init__-43"><a href="#Corr.__init__-43"><span class="linenos">43</span></a>
-</span><span id="Corr.__init__-44"><a href="#Corr.__init__-44"><span class="linenos">44</span></a>            <span class="c1"># This only works, if the array fulfills the conditions below</span>
-</span><span id="Corr.__init__-45"><a href="#Corr.__init__-45"><span class="linenos">45</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span> <span class="ow">and</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
-</span><span id="Corr.__init__-46"><a href="#Corr.__init__-46"><span class="linenos">46</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Incompatible array shape&quot;</span><span class="p">)</span>
-</span><span id="Corr.__init__-47"><a href="#Corr.__init__-47"><span class="linenos">47</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">Corr</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
-</span><span id="Corr.__init__-48"><a href="#Corr.__init__-48"><span class="linenos">48</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;If the input is an array, its elements must be of type pe.Corr&quot;</span><span class="p">)</span>
-</span><span id="Corr.__init__-49"><a href="#Corr.__init__-49"><span class="linenos">49</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
-</span><span id="Corr.__init__-50"><a href="#Corr.__init__-50"><span class="linenos">50</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only construct matrix correlator from single valued correlators&quot;</span><span class="p">)</span>
-</span><span id="Corr.__init__-51"><a href="#Corr.__init__-51"><span class="linenos">51</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">T</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]))</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.__init__-52"><a href="#Corr.__init__-52"><span class="linenos">52</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All input Correlators must be defined over the same timeslices.&quot;</span><span class="p">)</span>
-</span><span id="Corr.__init__-53"><a href="#Corr.__init__-53"><span class="linenos">53</span></a>
-</span><span id="Corr.__init__-54"><a href="#Corr.__init__-54"><span class="linenos">54</span></a>            <span class="n">T</span> <span class="o">=</span> <span class="n">data_input</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">T</span>
-</span><span id="Corr.__init__-55"><a href="#Corr.__init__-55"><span class="linenos">55</span></a>            <span class="n">N</span> <span class="o">=</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr.__init__-56"><a href="#Corr.__init__-56"><span class="linenos">56</span></a>            <span class="n">input_as_list</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.__init__-57"><a href="#Corr.__init__-57"><span class="linenos">57</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr.__init__-58"><a href="#Corr.__init__-58"><span class="linenos">58</span></a>                <span class="k">if</span> <span class="nb">any</span><span class="p">([(</span><span class="n">item</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
-</span><span id="Corr.__init__-59"><a href="#Corr.__init__-59"><span class="linenos">59</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([(</span><span class="n">item</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
-</span><span id="Corr.__init__-60"><a href="#Corr.__init__-60"><span class="linenos">60</span></a>                        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Input ill-defined at different timeslices. Conversion leads to data loss!&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="Corr.__init__-61"><a href="#Corr.__init__-61"><span class="linenos">61</span></a>                    <span class="n">input_as_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.__init__-62"><a href="#Corr.__init__-62"><span class="linenos">62</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.__init__-63"><a href="#Corr.__init__-63"><span class="linenos">63</span></a>                    <span class="n">array_at_timeslace</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;object&quot;</span><span class="p">)</span>
-</span><span id="Corr.__init__-64"><a href="#Corr.__init__-64"><span class="linenos">64</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr.__init__-65"><a href="#Corr.__init__-65"><span class="linenos">65</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr.__init__-66"><a href="#Corr.__init__-66"><span class="linenos">66</span></a>                            <span class="n">array_at_timeslace</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">data_input</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">][</span><span class="n">t</span><span class="p">]</span>
-</span><span id="Corr.__init__-67"><a href="#Corr.__init__-67"><span class="linenos">67</span></a>                    <span class="n">input_as_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">array_at_timeslace</span><span class="p">)</span>
-</span><span id="Corr.__init__-68"><a href="#Corr.__init__-68"><span class="linenos">68</span></a>            <span class="n">data_input</span> <span class="o">=</span> <span class="n">input_as_list</span>
-</span><span id="Corr.__init__-69"><a href="#Corr.__init__-69"><span class="linenos">69</span></a>
-</span><span id="Corr.__init__-70"><a href="#Corr.__init__-70"><span class="linenos">70</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data_input</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="Corr.__init__-71"><a href="#Corr.__init__-71"><span class="linenos">71</span></a>
-</span><span id="Corr.__init__-72"><a href="#Corr.__init__-72"><span class="linenos">72</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">))</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
-</span><span id="Corr.__init__-73"><a href="#Corr.__init__-73"><span class="linenos">73</span></a>                <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">data_input</span><span class="p">)</span>
-</span><span id="Corr.__init__-74"><a href="#Corr.__init__-74"><span class="linenos">74</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">item</span><span class="p">])</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]</span>
-</span><span id="Corr.__init__-75"><a href="#Corr.__init__-75"><span class="linenos">75</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">))</span> <span class="ow">or</span> <span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
-</span><span id="Corr.__init__-76"><a href="#Corr.__init__-76"><span class="linenos">76</span></a>                <span class="n">_assert_equal_properties</span><span class="p">([</span><span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">data_input</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span>
-</span><span id="Corr.__init__-77"><a href="#Corr.__init__-77"><span class="linenos">77</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">item</span><span class="p">])</span> <span class="k">if</span> <span class="n">item</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]</span>
-</span><span id="Corr.__init__-78"><a href="#Corr.__init__-78"><span class="linenos">78</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="Corr.__init__-79"><a href="#Corr.__init__-79"><span class="linenos">79</span></a>
-</span><span id="Corr.__init__-80"><a href="#Corr.__init__-80"><span class="linenos">80</span></a>            <span class="k">elif</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span> <span class="ow">or</span> <span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">])</span> <span class="ow">and</span> <span class="nb">any</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
-</span><span id="Corr.__init__-81"><a href="#Corr.__init__-81"><span class="linenos">81</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="n">data_input</span>
-</span><span id="Corr.__init__-82"><a href="#Corr.__init__-82"><span class="linenos">82</span></a>                <span class="n">noNull</span> <span class="o">=</span> <span class="p">[</span><span class="n">a</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">a</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)]</span>  <span class="c1"># To check if the matrices are correct for all undefined elements</span>
-</span><span id="Corr.__init__-83"><a href="#Corr.__init__-83"><span class="linenos">83</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr.__init__-84"><a href="#Corr.__init__-84"><span class="linenos">84</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">!=</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
-</span><span id="Corr.__init__-85"><a href="#Corr.__init__-85"><span class="linenos">85</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Smearing matrices are not NxN&quot;</span><span class="p">)</span>
-</span><span id="Corr.__init__-86"><a href="#Corr.__init__-86"><span class="linenos">86</span></a>                <span class="k">if</span> <span class="p">(</span><span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">noNull</span><span class="p">])):</span>
-</span><span id="Corr.__init__-87"><a href="#Corr.__init__-87"><span class="linenos">87</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Items in data_input are not of identical shape.&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noNull</span><span class="p">))</span>
-</span><span id="Corr.__init__-88"><a href="#Corr.__init__-88"><span class="linenos">88</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.__init__-89"><a href="#Corr.__init__-89"><span class="linenos">89</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;data_input contains item of wrong type&quot;</span><span class="p">)</span>
-</span><span id="Corr.__init__-90"><a href="#Corr.__init__-90"><span class="linenos">90</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.__init__-91"><a href="#Corr.__init__-91"><span class="linenos">91</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Data input was not given as list or correct array&quot;</span><span class="p">)</span>
-</span><span id="Corr.__init__-92"><a href="#Corr.__init__-92"><span class="linenos">92</span></a>
-</span><span id="Corr.__init__-93"><a href="#Corr.__init__-93"><span class="linenos">93</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="Corr.__init__-94"><a href="#Corr.__init__-94"><span class="linenos">94</span></a>
-</span><span id="Corr.__init__-95"><a href="#Corr.__init__-95"><span class="linenos">95</span></a>        <span class="c1"># An undefined timeslice is represented by the None object</span>
-</span><span id="Corr.__init__-96"><a href="#Corr.__init__-96"><span class="linenos">96</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">padding</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">+</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">padding</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="Corr.__init__-97"><a href="#Corr.__init__-97"><span class="linenos">97</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span>
-</span><span id="Corr.__init__-98"><a href="#Corr.__init__-98"><span class="linenos">98</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">prange</span>
+    <a class="headerlink" href="#Corr.__init__"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.__init__-27"><a href="#Corr.__init__-27"><span class="linenos">27</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">data_input</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="n">prange</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.__init__-28"><a href="#Corr.__init__-28"><span class="linenos">28</span></a>        <span class="sd">&quot;&quot;&quot; Initialize a Corr object.</span>
+</span><span id="Corr.__init__-29"><a href="#Corr.__init__-29"><span class="linenos">29</span></a>
+</span><span id="Corr.__init__-30"><a href="#Corr.__init__-30"><span class="linenos">30</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.__init__-31"><a href="#Corr.__init__-31"><span class="linenos">31</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.__init__-32"><a href="#Corr.__init__-32"><span class="linenos">32</span></a><span class="sd">        data_input : list or array</span>
+</span><span id="Corr.__init__-33"><a href="#Corr.__init__-33"><span class="linenos">33</span></a><span class="sd">            list of Obs or list of arrays of Obs or array of Corrs</span>
+</span><span id="Corr.__init__-34"><a href="#Corr.__init__-34"><span class="linenos">34</span></a><span class="sd">        padding : list, optional</span>
+</span><span id="Corr.__init__-35"><a href="#Corr.__init__-35"><span class="linenos">35</span></a><span class="sd">            List with two entries where the first labels the padding</span>
+</span><span id="Corr.__init__-36"><a href="#Corr.__init__-36"><span class="linenos">36</span></a><span class="sd">            at the front of the correlator and the second the padding</span>
+</span><span id="Corr.__init__-37"><a href="#Corr.__init__-37"><span class="linenos">37</span></a><span class="sd">            at the back.</span>
+</span><span id="Corr.__init__-38"><a href="#Corr.__init__-38"><span class="linenos">38</span></a><span class="sd">        prange : list, optional</span>
+</span><span id="Corr.__init__-39"><a href="#Corr.__init__-39"><span class="linenos">39</span></a><span class="sd">            List containing the first and last timeslice of the plateau</span>
+</span><span id="Corr.__init__-40"><a href="#Corr.__init__-40"><span class="linenos">40</span></a><span class="sd">            region indentified for this correlator.</span>
+</span><span id="Corr.__init__-41"><a href="#Corr.__init__-41"><span class="linenos">41</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.__init__-42"><a href="#Corr.__init__-42"><span class="linenos">42</span></a>
+</span><span id="Corr.__init__-43"><a href="#Corr.__init__-43"><span class="linenos">43</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data_input</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="Corr.__init__-44"><a href="#Corr.__init__-44"><span class="linenos">44</span></a>
+</span><span id="Corr.__init__-45"><a href="#Corr.__init__-45"><span class="linenos">45</span></a>            <span class="c1"># This only works, if the array fulfills the conditions below</span>
+</span><span id="Corr.__init__-46"><a href="#Corr.__init__-46"><span class="linenos">46</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span> <span class="ow">and</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
+</span><span id="Corr.__init__-47"><a href="#Corr.__init__-47"><span class="linenos">47</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Incompatible array shape&quot;</span><span class="p">)</span>
+</span><span id="Corr.__init__-48"><a href="#Corr.__init__-48"><span class="linenos">48</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">Corr</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
+</span><span id="Corr.__init__-49"><a href="#Corr.__init__-49"><span class="linenos">49</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;If the input is an array, its elements must be of type pe.Corr&quot;</span><span class="p">)</span>
+</span><span id="Corr.__init__-50"><a href="#Corr.__init__-50"><span class="linenos">50</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
+</span><span id="Corr.__init__-51"><a href="#Corr.__init__-51"><span class="linenos">51</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only construct matrix correlator from single valued correlators&quot;</span><span class="p">)</span>
+</span><span id="Corr.__init__-52"><a href="#Corr.__init__-52"><span class="linenos">52</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">T</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]))</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.__init__-53"><a href="#Corr.__init__-53"><span class="linenos">53</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All input Correlators must be defined over the same timeslices.&quot;</span><span class="p">)</span>
+</span><span id="Corr.__init__-54"><a href="#Corr.__init__-54"><span class="linenos">54</span></a>
+</span><span id="Corr.__init__-55"><a href="#Corr.__init__-55"><span class="linenos">55</span></a>            <span class="n">T</span> <span class="o">=</span> <span class="n">data_input</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">T</span>
+</span><span id="Corr.__init__-56"><a href="#Corr.__init__-56"><span class="linenos">56</span></a>            <span class="n">N</span> <span class="o">=</span> <span class="n">data_input</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr.__init__-57"><a href="#Corr.__init__-57"><span class="linenos">57</span></a>            <span class="n">input_as_list</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.__init__-58"><a href="#Corr.__init__-58"><span class="linenos">58</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr.__init__-59"><a href="#Corr.__init__-59"><span class="linenos">59</span></a>                <span class="k">if</span> <span class="nb">any</span><span class="p">([(</span><span class="n">item</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
+</span><span id="Corr.__init__-60"><a href="#Corr.__init__-60"><span class="linenos">60</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([(</span><span class="n">item</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="o">.</span><span class="n">flatten</span><span class="p">()]):</span>
+</span><span id="Corr.__init__-61"><a href="#Corr.__init__-61"><span class="linenos">61</span></a>                        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Input ill-defined at different timeslices. Conversion leads to data loss!&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="Corr.__init__-62"><a href="#Corr.__init__-62"><span class="linenos">62</span></a>                    <span class="n">input_as_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.__init__-63"><a href="#Corr.__init__-63"><span class="linenos">63</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.__init__-64"><a href="#Corr.__init__-64"><span class="linenos">64</span></a>                    <span class="n">array_at_timeslace</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;object&quot;</span><span class="p">)</span>
+</span><span id="Corr.__init__-65"><a href="#Corr.__init__-65"><span class="linenos">65</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr.__init__-66"><a href="#Corr.__init__-66"><span class="linenos">66</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr.__init__-67"><a href="#Corr.__init__-67"><span class="linenos">67</span></a>                            <span class="n">array_at_timeslace</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">data_input</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">][</span><span class="n">t</span><span class="p">]</span>
+</span><span id="Corr.__init__-68"><a href="#Corr.__init__-68"><span class="linenos">68</span></a>                    <span class="n">input_as_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">array_at_timeslace</span><span class="p">)</span>
+</span><span id="Corr.__init__-69"><a href="#Corr.__init__-69"><span class="linenos">69</span></a>            <span class="n">data_input</span> <span class="o">=</span> <span class="n">input_as_list</span>
+</span><span id="Corr.__init__-70"><a href="#Corr.__init__-70"><span class="linenos">70</span></a>
+</span><span id="Corr.__init__-71"><a href="#Corr.__init__-71"><span class="linenos">71</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">data_input</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="Corr.__init__-72"><a href="#Corr.__init__-72"><span class="linenos">72</span></a>
+</span><span id="Corr.__init__-73"><a href="#Corr.__init__-73"><span class="linenos">73</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">))</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
+</span><span id="Corr.__init__-74"><a href="#Corr.__init__-74"><span class="linenos">74</span></a>                <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">data_input</span><span class="p">)</span>
+</span><span id="Corr.__init__-75"><a href="#Corr.__init__-75"><span class="linenos">75</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">item</span><span class="p">])</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]</span>
+</span><span id="Corr.__init__-76"><a href="#Corr.__init__-76"><span class="linenos">76</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span><span class="p">))</span> <span class="ow">or</span> <span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
+</span><span id="Corr.__init__-77"><a href="#Corr.__init__-77"><span class="linenos">77</span></a>                <span class="n">_assert_equal_properties</span><span class="p">([</span><span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">data_input</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span>
+</span><span id="Corr.__init__-78"><a href="#Corr.__init__-78"><span class="linenos">78</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">item</span><span class="p">])</span> <span class="k">if</span> <span class="n">item</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]</span>
+</span><span id="Corr.__init__-79"><a href="#Corr.__init__-79"><span class="linenos">79</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="Corr.__init__-80"><a href="#Corr.__init__-80"><span class="linenos">80</span></a>
+</span><span id="Corr.__init__-81"><a href="#Corr.__init__-81"><span class="linenos">81</span></a>            <span class="k">elif</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span> <span class="ow">or</span> <span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">])</span> <span class="ow">and</span> <span class="nb">any</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">data_input</span><span class="p">]):</span>
+</span><span id="Corr.__init__-82"><a href="#Corr.__init__-82"><span class="linenos">82</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="n">data_input</span>
+</span><span id="Corr.__init__-83"><a href="#Corr.__init__-83"><span class="linenos">83</span></a>                <span class="n">noNull</span> <span class="o">=</span> <span class="p">[</span><span class="n">a</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">a</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)]</span>  <span class="c1"># To check if the matrices are correct for all undefined elements</span>
+</span><span id="Corr.__init__-84"><a href="#Corr.__init__-84"><span class="linenos">84</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr.__init__-85"><a href="#Corr.__init__-85"><span class="linenos">85</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">!=</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]:</span>
+</span><span id="Corr.__init__-86"><a href="#Corr.__init__-86"><span class="linenos">86</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Smearing matrices are not NxN&quot;</span><span class="p">)</span>
+</span><span id="Corr.__init__-87"><a href="#Corr.__init__-87"><span class="linenos">87</span></a>                <span class="k">if</span> <span class="p">(</span><span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">item</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="n">noNull</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">noNull</span><span class="p">])):</span>
+</span><span id="Corr.__init__-88"><a href="#Corr.__init__-88"><span class="linenos">88</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Items in data_input are not of identical shape.&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noNull</span><span class="p">))</span>
+</span><span id="Corr.__init__-89"><a href="#Corr.__init__-89"><span class="linenos">89</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.__init__-90"><a href="#Corr.__init__-90"><span class="linenos">90</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;data_input contains item of wrong type&quot;</span><span class="p">)</span>
+</span><span id="Corr.__init__-91"><a href="#Corr.__init__-91"><span class="linenos">91</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.__init__-92"><a href="#Corr.__init__-92"><span class="linenos">92</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Data input was not given as list or correct array&quot;</span><span class="p">)</span>
+</span><span id="Corr.__init__-93"><a href="#Corr.__init__-93"><span class="linenos">93</span></a>
+</span><span id="Corr.__init__-94"><a href="#Corr.__init__-94"><span class="linenos">94</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="Corr.__init__-95"><a href="#Corr.__init__-95"><span class="linenos">95</span></a>
+</span><span id="Corr.__init__-96"><a href="#Corr.__init__-96"><span class="linenos">96</span></a>        <span class="c1"># An undefined timeslice is represented by the None object</span>
+</span><span id="Corr.__init__-97"><a href="#Corr.__init__-97"><span class="linenos">97</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">padding</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="o">+</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">padding</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="Corr.__init__-98"><a href="#Corr.__init__-98"><span class="linenos">98</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span>
+</span><span id="Corr.__init__-99"><a href="#Corr.__init__-99"><span class="linenos">99</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">prange</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Initialize a Corr object.</p>
 
@@ -2750,38 +2750,39 @@ region indentified for this correlator.</li>
 
                             </div>
                             <div id="Corr.reweighted" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Corr.reweighted">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">reweighted</span>
 
-        <span class="name">reweighted</span>
+        
     </div>
-
+    <a class="headerlink" href="#Corr.reweighted"></a>
     
     
 
                             </div>
                             <div id="Corr.gamma_method" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.gamma_method">#&nbsp;&nbsp</a>
+                                        <input id="Corr.gamma_method-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">gamma_method</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.gamma_method-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">gamma_method</span><span class="signature">(self, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.gamma_method-119"><a href="#Corr.gamma_method-119"><span class="linenos">119</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Corr.gamma_method-120"><a href="#Corr.gamma_method-120"><span class="linenos">120</span></a>        <span class="sd">&quot;&quot;&quot;Apply the gamma method to the content of the Corr.&quot;&quot;&quot;</span>
-</span><span id="Corr.gamma_method-121"><a href="#Corr.gamma_method-121"><span class="linenos">121</span></a>        <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">:</span>
-</span><span id="Corr.gamma_method-122"><a href="#Corr.gamma_method-122"><span class="linenos">122</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.gamma_method-123"><a href="#Corr.gamma_method-123"><span class="linenos">123</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.gamma_method-124"><a href="#Corr.gamma_method-124"><span class="linenos">124</span></a>                    <span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="Corr.gamma_method-125"><a href="#Corr.gamma_method-125"><span class="linenos">125</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.gamma_method-126"><a href="#Corr.gamma_method-126"><span class="linenos">126</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr.gamma_method-127"><a href="#Corr.gamma_method-127"><span class="linenos">127</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr.gamma_method-128"><a href="#Corr.gamma_method-128"><span class="linenos">128</span></a>                            <span class="n">item</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.gamma_method"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.gamma_method-120"><a href="#Corr.gamma_method-120"><span class="linenos">120</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Corr.gamma_method-121"><a href="#Corr.gamma_method-121"><span class="linenos">121</span></a>        <span class="sd">&quot;&quot;&quot;Apply the gamma method to the content of the Corr.&quot;&quot;&quot;</span>
+</span><span id="Corr.gamma_method-122"><a href="#Corr.gamma_method-122"><span class="linenos">122</span></a>        <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">:</span>
+</span><span id="Corr.gamma_method-123"><a href="#Corr.gamma_method-123"><span class="linenos">123</span></a>            <span class="k">if</span> <span class="ow">not</span><span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.gamma_method-124"><a href="#Corr.gamma_method-124"><span class="linenos">124</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.gamma_method-125"><a href="#Corr.gamma_method-125"><span class="linenos">125</span></a>                    <span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="Corr.gamma_method-126"><a href="#Corr.gamma_method-126"><span class="linenos">126</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.gamma_method-127"><a href="#Corr.gamma_method-127"><span class="linenos">127</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr.gamma_method-128"><a href="#Corr.gamma_method-128"><span class="linenos">128</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr.gamma_method-129"><a href="#Corr.gamma_method-129"><span class="linenos">129</span></a>                            <span class="n">item</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Apply the gamma method to the content of the Corr.</p>
 </div>
@@ -2789,56 +2790,56 @@ region indentified for this correlator.</li>
 
                             </div>
                             <div id="Corr.projected" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.projected">#&nbsp;&nbsp</a>
+                                        <input id="Corr.projected-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">projected</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">vector_l</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="n">vector_r</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="n">normalize</span><span class="o">=</span><span class="kc">False</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.projected-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">projected</span><span class="signature">(self, vector_l=None, vector_r=None, normalize=False)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.projected-130"><a href="#Corr.projected-130"><span class="linenos">130</span></a>    <span class="k">def</span> <span class="nf">projected</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">vector_l</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">vector_r</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="Corr.projected-131"><a href="#Corr.projected-131"><span class="linenos">131</span></a>        <span class="sd">&quot;&quot;&quot;We need to project the Correlator with a Vector to get a single value at each timeslice.</span>
-</span><span id="Corr.projected-132"><a href="#Corr.projected-132"><span class="linenos">132</span></a>
-</span><span id="Corr.projected-133"><a href="#Corr.projected-133"><span class="linenos">133</span></a><span class="sd">        The method can use one or two vectors.</span>
-</span><span id="Corr.projected-134"><a href="#Corr.projected-134"><span class="linenos">134</span></a><span class="sd">        If two are specified it returns v1@G@v2 (the order might be very important.)</span>
-</span><span id="Corr.projected-135"><a href="#Corr.projected-135"><span class="linenos">135</span></a><span class="sd">        By default it will return the lowest source, which usually means unsmeared-unsmeared (0,0), but it does not have to</span>
-</span><span id="Corr.projected-136"><a href="#Corr.projected-136"><span class="linenos">136</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.projected-137"><a href="#Corr.projected-137"><span class="linenos">137</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.projected-138"><a href="#Corr.projected-138"><span class="linenos">138</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to project a Corr, that already has N=1.&quot;</span><span class="p">)</span>
-</span><span id="Corr.projected-139"><a href="#Corr.projected-139"><span class="linenos">139</span></a>
-</span><span id="Corr.projected-140"><a href="#Corr.projected-140"><span class="linenos">140</span></a>        <span class="k">if</span> <span class="n">vector_l</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr.projected-141"><a href="#Corr.projected-141"><span class="linenos">141</span></a>            <span class="n">vector_l</span><span class="p">,</span> <span class="n">vector_r</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="mf">1.</span><span class="p">]</span> <span class="o">+</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.</span><span class="p">]),</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="mf">1.</span><span class="p">]</span> <span class="o">+</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.</span><span class="p">])</span>
-</span><span id="Corr.projected-142"><a href="#Corr.projected-142"><span class="linenos">142</span></a>        <span class="k">elif</span><span class="p">(</span><span class="n">vector_r</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.projected-143"><a href="#Corr.projected-143"><span class="linenos">143</span></a>            <span class="n">vector_r</span> <span class="o">=</span> <span class="n">vector_l</span>
-</span><span id="Corr.projected-144"><a href="#Corr.projected-144"><span class="linenos">144</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_r</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="Corr.projected-145"><a href="#Corr.projected-145"><span class="linenos">145</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vector_l</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="Corr.projected-146"><a href="#Corr.projected-146"><span class="linenos">146</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Length of vector list must be equal to T&quot;</span><span class="p">)</span>
-</span><span id="Corr.projected-147"><a href="#Corr.projected-147"><span class="linenos">147</span></a>            <span class="n">vector_r</span> <span class="o">=</span> <span class="p">[</span><span class="n">vector_r</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
-</span><span id="Corr.projected-148"><a href="#Corr.projected-148"><span class="linenos">148</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_r</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="Corr.projected-149"><a href="#Corr.projected-149"><span class="linenos">149</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vector_r</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="Corr.projected-150"><a href="#Corr.projected-150"><span class="linenos">150</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Length of vector list must be equal to T&quot;</span><span class="p">)</span>
-</span><span id="Corr.projected-151"><a href="#Corr.projected-151"><span class="linenos">151</span></a>            <span class="n">vector_l</span> <span class="o">=</span> <span class="p">[</span><span class="n">vector_l</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
-</span><span id="Corr.projected-152"><a href="#Corr.projected-152"><span class="linenos">152</span></a>
-</span><span id="Corr.projected-153"><a href="#Corr.projected-153"><span class="linenos">153</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="Corr.projected-154"><a href="#Corr.projected-154"><span class="linenos">154</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">vector_l</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="n">vector_r</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,):</span>
-</span><span id="Corr.projected-155"><a href="#Corr.projected-155"><span class="linenos">155</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Vectors are of wrong shape!&quot;</span><span class="p">)</span>
-</span><span id="Corr.projected-156"><a href="#Corr.projected-156"><span class="linenos">156</span></a>            <span class="k">if</span> <span class="n">normalize</span><span class="p">:</span>
-</span><span id="Corr.projected-157"><a href="#Corr.projected-157"><span class="linenos">157</span></a>                <span class="n">vector_l</span><span class="p">,</span> <span class="n">vector_r</span> <span class="o">=</span> <span class="n">vector_l</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">vector_l</span> <span class="o">@</span> <span class="n">vector_l</span><span class="p">)),</span> <span class="n">vector_r</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">vector_r</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">)</span>
-</span><span id="Corr.projected-158"><a href="#Corr.projected-158"><span class="linenos">158</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">vector_l</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">item</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">])</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr.projected-159"><a href="#Corr.projected-159"><span class="linenos">159</span></a>
-</span><span id="Corr.projected-160"><a href="#Corr.projected-160"><span class="linenos">160</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.projected-161"><a href="#Corr.projected-161"><span class="linenos">161</span></a>            <span class="c1"># There are no checks here yet. There are so many possible scenarios, where this can go wrong.</span>
-</span><span id="Corr.projected-162"><a href="#Corr.projected-162"><span class="linenos">162</span></a>            <span class="k">if</span> <span class="n">normalize</span><span class="p">:</span>
-</span><span id="Corr.projected-163"><a href="#Corr.projected-163"><span class="linenos">163</span></a>                <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr.projected-164"><a href="#Corr.projected-164"><span class="linenos">164</span></a>                    <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">])),</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="Corr.projected-165"><a href="#Corr.projected-165"><span class="linenos">165</span></a>
-</span><span id="Corr.projected-166"><a href="#Corr.projected-166"><span class="linenos">166</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]])</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)]</span>
-</span><span id="Corr.projected-167"><a href="#Corr.projected-167"><span class="linenos">167</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.projected"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.projected-131"><a href="#Corr.projected-131"><span class="linenos">131</span></a>    <span class="k">def</span> <span class="nf">projected</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">vector_l</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">vector_r</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="Corr.projected-132"><a href="#Corr.projected-132"><span class="linenos">132</span></a>        <span class="sd">&quot;&quot;&quot;We need to project the Correlator with a Vector to get a single value at each timeslice.</span>
+</span><span id="Corr.projected-133"><a href="#Corr.projected-133"><span class="linenos">133</span></a>
+</span><span id="Corr.projected-134"><a href="#Corr.projected-134"><span class="linenos">134</span></a><span class="sd">        The method can use one or two vectors.</span>
+</span><span id="Corr.projected-135"><a href="#Corr.projected-135"><span class="linenos">135</span></a><span class="sd">        If two are specified it returns v1@G@v2 (the order might be very important.)</span>
+</span><span id="Corr.projected-136"><a href="#Corr.projected-136"><span class="linenos">136</span></a><span class="sd">        By default it will return the lowest source, which usually means unsmeared-unsmeared (0,0), but it does not have to</span>
+</span><span id="Corr.projected-137"><a href="#Corr.projected-137"><span class="linenos">137</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.projected-138"><a href="#Corr.projected-138"><span class="linenos">138</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.projected-139"><a href="#Corr.projected-139"><span class="linenos">139</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to project a Corr, that already has N=1.&quot;</span><span class="p">)</span>
+</span><span id="Corr.projected-140"><a href="#Corr.projected-140"><span class="linenos">140</span></a>
+</span><span id="Corr.projected-141"><a href="#Corr.projected-141"><span class="linenos">141</span></a>        <span class="k">if</span> <span class="n">vector_l</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr.projected-142"><a href="#Corr.projected-142"><span class="linenos">142</span></a>            <span class="n">vector_l</span><span class="p">,</span> <span class="n">vector_r</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="mf">1.</span><span class="p">]</span> <span class="o">+</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.</span><span class="p">]),</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="mf">1.</span><span class="p">]</span> <span class="o">+</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.</span><span class="p">])</span>
+</span><span id="Corr.projected-143"><a href="#Corr.projected-143"><span class="linenos">143</span></a>        <span class="k">elif</span><span class="p">(</span><span class="n">vector_r</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.projected-144"><a href="#Corr.projected-144"><span class="linenos">144</span></a>            <span class="n">vector_r</span> <span class="o">=</span> <span class="n">vector_l</span>
+</span><span id="Corr.projected-145"><a href="#Corr.projected-145"><span class="linenos">145</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_r</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="Corr.projected-146"><a href="#Corr.projected-146"><span class="linenos">146</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vector_l</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="Corr.projected-147"><a href="#Corr.projected-147"><span class="linenos">147</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Length of vector list must be equal to T&quot;</span><span class="p">)</span>
+</span><span id="Corr.projected-148"><a href="#Corr.projected-148"><span class="linenos">148</span></a>            <span class="n">vector_r</span> <span class="o">=</span> <span class="p">[</span><span class="n">vector_r</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
+</span><span id="Corr.projected-149"><a href="#Corr.projected-149"><span class="linenos">149</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_r</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="Corr.projected-150"><a href="#Corr.projected-150"><span class="linenos">150</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vector_r</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="Corr.projected-151"><a href="#Corr.projected-151"><span class="linenos">151</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Length of vector list must be equal to T&quot;</span><span class="p">)</span>
+</span><span id="Corr.projected-152"><a href="#Corr.projected-152"><span class="linenos">152</span></a>            <span class="n">vector_l</span> <span class="o">=</span> <span class="p">[</span><span class="n">vector_l</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
+</span><span id="Corr.projected-153"><a href="#Corr.projected-153"><span class="linenos">153</span></a>
+</span><span id="Corr.projected-154"><a href="#Corr.projected-154"><span class="linenos">154</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">vector_l</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="Corr.projected-155"><a href="#Corr.projected-155"><span class="linenos">155</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">vector_l</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="n">vector_r</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,):</span>
+</span><span id="Corr.projected-156"><a href="#Corr.projected-156"><span class="linenos">156</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Vectors are of wrong shape!&quot;</span><span class="p">)</span>
+</span><span id="Corr.projected-157"><a href="#Corr.projected-157"><span class="linenos">157</span></a>            <span class="k">if</span> <span class="n">normalize</span><span class="p">:</span>
+</span><span id="Corr.projected-158"><a href="#Corr.projected-158"><span class="linenos">158</span></a>                <span class="n">vector_l</span><span class="p">,</span> <span class="n">vector_r</span> <span class="o">=</span> <span class="n">vector_l</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">vector_l</span> <span class="o">@</span> <span class="n">vector_l</span><span class="p">)),</span> <span class="n">vector_r</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">vector_r</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">)</span>
+</span><span id="Corr.projected-159"><a href="#Corr.projected-159"><span class="linenos">159</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">vector_l</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">item</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">])</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr.projected-160"><a href="#Corr.projected-160"><span class="linenos">160</span></a>
+</span><span id="Corr.projected-161"><a href="#Corr.projected-161"><span class="linenos">161</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.projected-162"><a href="#Corr.projected-162"><span class="linenos">162</span></a>            <span class="c1"># There are no checks here yet. There are so many possible scenarios, where this can go wrong.</span>
+</span><span id="Corr.projected-163"><a href="#Corr.projected-163"><span class="linenos">163</span></a>            <span class="k">if</span> <span class="n">normalize</span><span class="p">:</span>
+</span><span id="Corr.projected-164"><a href="#Corr.projected-164"><span class="linenos">164</span></a>                <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr.projected-165"><a href="#Corr.projected-165"><span class="linenos">165</span></a>                    <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">])),</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="Corr.projected-166"><a href="#Corr.projected-166"><span class="linenos">166</span></a>
+</span><span id="Corr.projected-167"><a href="#Corr.projected-167"><span class="linenos">167</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">vector_l</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">vector_r</span><span class="p">[</span><span class="n">t</span><span class="p">]])</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)]</span>
+</span><span id="Corr.projected-168"><a href="#Corr.projected-168"><span class="linenos">168</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>We need to project the Correlator with a Vector to get a single value at each timeslice.</p>
 
@@ -2850,32 +2851,32 @@ By default it will return the lowest source, which usually means unsmeared-unsme
 
                             </div>
                             <div id="Corr.item" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.item">#&nbsp;&nbsp</a>
+                                        <input id="Corr.item-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">item</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">i</span>, </span><span class="param"><span class="n">j</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.item-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">item</span><span class="signature">(self, i, j)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.item-169"><a href="#Corr.item-169"><span class="linenos">169</span></a>    <span class="k">def</span> <span class="nf">item</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">):</span>
-</span><span id="Corr.item-170"><a href="#Corr.item-170"><span class="linenos">170</span></a>        <span class="sd">&quot;&quot;&quot;Picks the element [i,j] from every matrix and returns a correlator containing one Obs per timeslice.</span>
-</span><span id="Corr.item-171"><a href="#Corr.item-171"><span class="linenos">171</span></a>
-</span><span id="Corr.item-172"><a href="#Corr.item-172"><span class="linenos">172</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.item-173"><a href="#Corr.item-173"><span class="linenos">173</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.item-174"><a href="#Corr.item-174"><span class="linenos">174</span></a><span class="sd">        i : int</span>
-</span><span id="Corr.item-175"><a href="#Corr.item-175"><span class="linenos">175</span></a><span class="sd">            First index to be picked.</span>
-</span><span id="Corr.item-176"><a href="#Corr.item-176"><span class="linenos">176</span></a><span class="sd">        j : int</span>
-</span><span id="Corr.item-177"><a href="#Corr.item-177"><span class="linenos">177</span></a><span class="sd">            Second index to be picked.</span>
-</span><span id="Corr.item-178"><a href="#Corr.item-178"><span class="linenos">178</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.item-179"><a href="#Corr.item-179"><span class="linenos">179</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.item-180"><a href="#Corr.item-180"><span class="linenos">180</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to pick item from projected Corr&quot;</span><span class="p">)</span>
-</span><span id="Corr.item-181"><a href="#Corr.item-181"><span class="linenos">181</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span><span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">item</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr.item-182"><a href="#Corr.item-182"><span class="linenos">182</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.item"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.item-170"><a href="#Corr.item-170"><span class="linenos">170</span></a>    <span class="k">def</span> <span class="nf">item</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">):</span>
+</span><span id="Corr.item-171"><a href="#Corr.item-171"><span class="linenos">171</span></a>        <span class="sd">&quot;&quot;&quot;Picks the element [i,j] from every matrix and returns a correlator containing one Obs per timeslice.</span>
+</span><span id="Corr.item-172"><a href="#Corr.item-172"><span class="linenos">172</span></a>
+</span><span id="Corr.item-173"><a href="#Corr.item-173"><span class="linenos">173</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.item-174"><a href="#Corr.item-174"><span class="linenos">174</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.item-175"><a href="#Corr.item-175"><span class="linenos">175</span></a><span class="sd">        i : int</span>
+</span><span id="Corr.item-176"><a href="#Corr.item-176"><span class="linenos">176</span></a><span class="sd">            First index to be picked.</span>
+</span><span id="Corr.item-177"><a href="#Corr.item-177"><span class="linenos">177</span></a><span class="sd">        j : int</span>
+</span><span id="Corr.item-178"><a href="#Corr.item-178"><span class="linenos">178</span></a><span class="sd">            Second index to be picked.</span>
+</span><span id="Corr.item-179"><a href="#Corr.item-179"><span class="linenos">179</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.item-180"><a href="#Corr.item-180"><span class="linenos">180</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.item-181"><a href="#Corr.item-181"><span class="linenos">181</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to pick item from projected Corr&quot;</span><span class="p">)</span>
+</span><span id="Corr.item-182"><a href="#Corr.item-182"><span class="linenos">182</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span><span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">item</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr.item-183"><a href="#Corr.item-183"><span class="linenos">183</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Picks the element [i,j] from every matrix and returns a correlator containing one Obs per timeslice.</p>
 
@@ -2892,31 +2893,31 @@ Second index to be picked.</li>
 
                             </div>
                             <div id="Corr.plottable" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.plottable">#&nbsp;&nbsp</a>
+                                        <input id="Corr.plottable-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">plottable</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.plottable-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">plottable</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.plottable-184"><a href="#Corr.plottable-184"><span class="linenos">184</span></a>    <span class="k">def</span> <span class="nf">plottable</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.plottable-185"><a href="#Corr.plottable-185"><span class="linenos">185</span></a>        <span class="sd">&quot;&quot;&quot;Outputs the correlator in a plotable format.</span>
-</span><span id="Corr.plottable-186"><a href="#Corr.plottable-186"><span class="linenos">186</span></a>
-</span><span id="Corr.plottable-187"><a href="#Corr.plottable-187"><span class="linenos">187</span></a><span class="sd">        Outputs three lists containing the timeslice index, the value on each</span>
-</span><span id="Corr.plottable-188"><a href="#Corr.plottable-188"><span class="linenos">188</span></a><span class="sd">        timeslice and the error on each timeslice.</span>
-</span><span id="Corr.plottable-189"><a href="#Corr.plottable-189"><span class="linenos">189</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.plottable-190"><a href="#Corr.plottable-190"><span class="linenos">190</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.plottable-191"><a href="#Corr.plottable-191"><span class="linenos">191</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only make Corr[N=1] plottable&quot;</span><span class="p">)</span>
-</span><span id="Corr.plottable-192"><a href="#Corr.plottable-192"><span class="linenos">192</span></a>        <span class="n">x_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="Corr.plottable-193"><a href="#Corr.plottable-193"><span class="linenos">193</span></a>        <span class="n">y_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="Corr.plottable-194"><a href="#Corr.plottable-194"><span class="linenos">194</span></a>        <span class="n">y_err_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="Corr.plottable-195"><a href="#Corr.plottable-195"><span class="linenos">195</span></a>
-</span><span id="Corr.plottable-196"><a href="#Corr.plottable-196"><span class="linenos">196</span></a>        <span class="k">return</span> <span class="n">x_list</span><span class="p">,</span> <span class="n">y_list</span><span class="p">,</span> <span class="n">y_err_list</span>
+    <a class="headerlink" href="#Corr.plottable"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.plottable-185"><a href="#Corr.plottable-185"><span class="linenos">185</span></a>    <span class="k">def</span> <span class="nf">plottable</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.plottable-186"><a href="#Corr.plottable-186"><span class="linenos">186</span></a>        <span class="sd">&quot;&quot;&quot;Outputs the correlator in a plotable format.</span>
+</span><span id="Corr.plottable-187"><a href="#Corr.plottable-187"><span class="linenos">187</span></a>
+</span><span id="Corr.plottable-188"><a href="#Corr.plottable-188"><span class="linenos">188</span></a><span class="sd">        Outputs three lists containing the timeslice index, the value on each</span>
+</span><span id="Corr.plottable-189"><a href="#Corr.plottable-189"><span class="linenos">189</span></a><span class="sd">        timeslice and the error on each timeslice.</span>
+</span><span id="Corr.plottable-190"><a href="#Corr.plottable-190"><span class="linenos">190</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.plottable-191"><a href="#Corr.plottable-191"><span class="linenos">191</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.plottable-192"><a href="#Corr.plottable-192"><span class="linenos">192</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only make Corr[N=1] plottable&quot;</span><span class="p">)</span>
+</span><span id="Corr.plottable-193"><a href="#Corr.plottable-193"><span class="linenos">193</span></a>        <span class="n">x_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="Corr.plottable-194"><a href="#Corr.plottable-194"><span class="linenos">194</span></a>        <span class="n">y_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="Corr.plottable-195"><a href="#Corr.plottable-195"><span class="linenos">195</span></a>        <span class="n">y_err_list</span> <span class="o">=</span> <span class="p">[</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">y</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="Corr.plottable-196"><a href="#Corr.plottable-196"><span class="linenos">196</span></a>
+</span><span id="Corr.plottable-197"><a href="#Corr.plottable-197"><span class="linenos">197</span></a>        <span class="k">return</span> <span class="n">x_list</span><span class="p">,</span> <span class="n">y_list</span><span class="p">,</span> <span class="n">y_err_list</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Outputs the correlator in a plotable format.</p>
 
@@ -2927,35 +2928,35 @@ timeslice and the error on each timeslice.</p>
 
                             </div>
                             <div id="Corr.symmetric" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.symmetric">#&nbsp;&nbsp</a>
+                                        <input id="Corr.symmetric-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">symmetric</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.symmetric-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">symmetric</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.symmetric-198"><a href="#Corr.symmetric-198"><span class="linenos">198</span></a>    <span class="k">def</span> <span class="nf">symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.symmetric-199"><a href="#Corr.symmetric-199"><span class="linenos">199</span></a>        <span class="sd">&quot;&quot;&quot; Symmetrize the correlator around x0=0.&quot;&quot;&quot;</span>
-</span><span id="Corr.symmetric-200"><a href="#Corr.symmetric-200"><span class="linenos">200</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">%</span> <span class="mi">2</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Corr.symmetric-201"><a href="#Corr.symmetric-201"><span class="linenos">201</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can not symmetrize odd T&quot;</span><span class="p">)</span>
-</span><span id="Corr.symmetric-202"><a href="#Corr.symmetric-202"><span class="linenos">202</span></a>
-</span><span id="Corr.symmetric-203"><a href="#Corr.symmetric-203"><span class="linenos">203</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">))</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Corr.symmetric-204"><a href="#Corr.symmetric-204"><span class="linenos">204</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlator does not seem to be symmetric around x0=0.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="Corr.symmetric-205"><a href="#Corr.symmetric-205"><span class="linenos">205</span></a>
-</span><span id="Corr.symmetric-206"><a href="#Corr.symmetric-206"><span class="linenos">206</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
-</span><span id="Corr.symmetric-207"><a href="#Corr.symmetric-207"><span class="linenos">207</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr.symmetric-208"><a href="#Corr.symmetric-208"><span class="linenos">208</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.symmetric-209"><a href="#Corr.symmetric-209"><span class="linenos">209</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.symmetric-210"><a href="#Corr.symmetric-210"><span class="linenos">210</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.symmetric-211"><a href="#Corr.symmetric-211"><span class="linenos">211</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]))</span>
-</span><span id="Corr.symmetric-212"><a href="#Corr.symmetric-212"><span class="linenos">212</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr.symmetric-213"><a href="#Corr.symmetric-213"><span class="linenos">213</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr could not be symmetrized: No redundant values&quot;</span><span class="p">)</span>
-</span><span id="Corr.symmetric-214"><a href="#Corr.symmetric-214"><span class="linenos">214</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.symmetric"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.symmetric-199"><a href="#Corr.symmetric-199"><span class="linenos">199</span></a>    <span class="k">def</span> <span class="nf">symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.symmetric-200"><a href="#Corr.symmetric-200"><span class="linenos">200</span></a>        <span class="sd">&quot;&quot;&quot; Symmetrize the correlator around x0=0.&quot;&quot;&quot;</span>
+</span><span id="Corr.symmetric-201"><a href="#Corr.symmetric-201"><span class="linenos">201</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">%</span> <span class="mi">2</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Corr.symmetric-202"><a href="#Corr.symmetric-202"><span class="linenos">202</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can not symmetrize odd T&quot;</span><span class="p">)</span>
+</span><span id="Corr.symmetric-203"><a href="#Corr.symmetric-203"><span class="linenos">203</span></a>
+</span><span id="Corr.symmetric-204"><a href="#Corr.symmetric-204"><span class="linenos">204</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">))</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Corr.symmetric-205"><a href="#Corr.symmetric-205"><span class="linenos">205</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlator does not seem to be symmetric around x0=0.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="Corr.symmetric-206"><a href="#Corr.symmetric-206"><span class="linenos">206</span></a>
+</span><span id="Corr.symmetric-207"><a href="#Corr.symmetric-207"><span class="linenos">207</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
+</span><span id="Corr.symmetric-208"><a href="#Corr.symmetric-208"><span class="linenos">208</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr.symmetric-209"><a href="#Corr.symmetric-209"><span class="linenos">209</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.symmetric-210"><a href="#Corr.symmetric-210"><span class="linenos">210</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.symmetric-211"><a href="#Corr.symmetric-211"><span class="linenos">211</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.symmetric-212"><a href="#Corr.symmetric-212"><span class="linenos">212</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]))</span>
+</span><span id="Corr.symmetric-213"><a href="#Corr.symmetric-213"><span class="linenos">213</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr.symmetric-214"><a href="#Corr.symmetric-214"><span class="linenos">214</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr could not be symmetrized: No redundant values&quot;</span><span class="p">)</span>
+</span><span id="Corr.symmetric-215"><a href="#Corr.symmetric-215"><span class="linenos">215</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Symmetrize the correlator around x0=0.</p>
 </div>
@@ -2963,37 +2964,37 @@ timeslice and the error on each timeslice.</p>
 
                             </div>
                             <div id="Corr.anti_symmetric" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.anti_symmetric">#&nbsp;&nbsp</a>
+                                        <input id="Corr.anti_symmetric-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">anti_symmetric</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.anti_symmetric-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">anti_symmetric</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.anti_symmetric-216"><a href="#Corr.anti_symmetric-216"><span class="linenos">216</span></a>    <span class="k">def</span> <span class="nf">anti_symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.anti_symmetric-217"><a href="#Corr.anti_symmetric-217"><span class="linenos">217</span></a>        <span class="sd">&quot;&quot;&quot;Anti-symmetrize the correlator around x0=0.&quot;&quot;&quot;</span>
-</span><span id="Corr.anti_symmetric-218"><a href="#Corr.anti_symmetric-218"><span class="linenos">218</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">%</span> <span class="mi">2</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Corr.anti_symmetric-219"><a href="#Corr.anti_symmetric-219"><span class="linenos">219</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can not symmetrize odd T&quot;</span><span class="p">)</span>
-</span><span id="Corr.anti_symmetric-220"><a href="#Corr.anti_symmetric-220"><span class="linenos">220</span></a>
-</span><span id="Corr.anti_symmetric-221"><a href="#Corr.anti_symmetric-221"><span class="linenos">221</span></a>        <span class="n">test</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
-</span><span id="Corr.anti_symmetric-222"><a href="#Corr.anti_symmetric-222"><span class="linenos">222</span></a>        <span class="n">test</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="Corr.anti_symmetric-223"><a href="#Corr.anti_symmetric-223"><span class="linenos">223</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">is_zero_within_error</span><span class="p">(</span><span class="mi">3</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">test</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]):</span>
-</span><span id="Corr.anti_symmetric-224"><a href="#Corr.anti_symmetric-224"><span class="linenos">224</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlator does not seem to be anti-symmetric around x0=0.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="Corr.anti_symmetric-225"><a href="#Corr.anti_symmetric-225"><span class="linenos">225</span></a>
-</span><span id="Corr.anti_symmetric-226"><a href="#Corr.anti_symmetric-226"><span class="linenos">226</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
-</span><span id="Corr.anti_symmetric-227"><a href="#Corr.anti_symmetric-227"><span class="linenos">227</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr.anti_symmetric-228"><a href="#Corr.anti_symmetric-228"><span class="linenos">228</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.anti_symmetric-229"><a href="#Corr.anti_symmetric-229"><span class="linenos">229</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.anti_symmetric-230"><a href="#Corr.anti_symmetric-230"><span class="linenos">230</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.anti_symmetric-231"><a href="#Corr.anti_symmetric-231"><span class="linenos">231</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]))</span>
-</span><span id="Corr.anti_symmetric-232"><a href="#Corr.anti_symmetric-232"><span class="linenos">232</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr.anti_symmetric-233"><a href="#Corr.anti_symmetric-233"><span class="linenos">233</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr could not be symmetrized: No redundant values&quot;</span><span class="p">)</span>
-</span><span id="Corr.anti_symmetric-234"><a href="#Corr.anti_symmetric-234"><span class="linenos">234</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.anti_symmetric"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.anti_symmetric-217"><a href="#Corr.anti_symmetric-217"><span class="linenos">217</span></a>    <span class="k">def</span> <span class="nf">anti_symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.anti_symmetric-218"><a href="#Corr.anti_symmetric-218"><span class="linenos">218</span></a>        <span class="sd">&quot;&quot;&quot;Anti-symmetrize the correlator around x0=0.&quot;&quot;&quot;</span>
+</span><span id="Corr.anti_symmetric-219"><a href="#Corr.anti_symmetric-219"><span class="linenos">219</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">%</span> <span class="mi">2</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Corr.anti_symmetric-220"><a href="#Corr.anti_symmetric-220"><span class="linenos">220</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can not symmetrize odd T&quot;</span><span class="p">)</span>
+</span><span id="Corr.anti_symmetric-221"><a href="#Corr.anti_symmetric-221"><span class="linenos">221</span></a>
+</span><span id="Corr.anti_symmetric-222"><a href="#Corr.anti_symmetric-222"><span class="linenos">222</span></a>        <span class="n">test</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
+</span><span id="Corr.anti_symmetric-223"><a href="#Corr.anti_symmetric-223"><span class="linenos">223</span></a>        <span class="n">test</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="Corr.anti_symmetric-224"><a href="#Corr.anti_symmetric-224"><span class="linenos">224</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">is_zero_within_error</span><span class="p">(</span><span class="mi">3</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">test</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]):</span>
+</span><span id="Corr.anti_symmetric-225"><a href="#Corr.anti_symmetric-225"><span class="linenos">225</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlator does not seem to be anti-symmetric around x0=0.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="Corr.anti_symmetric-226"><a href="#Corr.anti_symmetric-226"><span class="linenos">226</span></a>
+</span><span id="Corr.anti_symmetric-227"><a href="#Corr.anti_symmetric-227"><span class="linenos">227</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
+</span><span id="Corr.anti_symmetric-228"><a href="#Corr.anti_symmetric-228"><span class="linenos">228</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr.anti_symmetric-229"><a href="#Corr.anti_symmetric-229"><span class="linenos">229</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.anti_symmetric-230"><a href="#Corr.anti_symmetric-230"><span class="linenos">230</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.anti_symmetric-231"><a href="#Corr.anti_symmetric-231"><span class="linenos">231</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.anti_symmetric-232"><a href="#Corr.anti_symmetric-232"><span class="linenos">232</span></a>                <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">t</span><span class="p">]))</span>
+</span><span id="Corr.anti_symmetric-233"><a href="#Corr.anti_symmetric-233"><span class="linenos">233</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr.anti_symmetric-234"><a href="#Corr.anti_symmetric-234"><span class="linenos">234</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr could not be symmetrized: No redundant values&quot;</span><span class="p">)</span>
+</span><span id="Corr.anti_symmetric-235"><a href="#Corr.anti_symmetric-235"><span class="linenos">235</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Anti-symmetrize the correlator around x0=0.</p>
 </div>
@@ -3001,25 +3002,25 @@ timeslice and the error on each timeslice.</p>
 
                             </div>
                             <div id="Corr.matrix_symmetric" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.matrix_symmetric">#&nbsp;&nbsp</a>
+                                        <input id="Corr.matrix_symmetric-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">matrix_symmetric</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.matrix_symmetric-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">matrix_symmetric</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.matrix_symmetric-236"><a href="#Corr.matrix_symmetric-236"><span class="linenos">236</span></a>    <span class="k">def</span> <span class="nf">matrix_symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.matrix_symmetric-237"><a href="#Corr.matrix_symmetric-237"><span class="linenos">237</span></a>        <span class="sd">&quot;&quot;&quot;Symmetrizes the correlator matrices on every timeslice.&quot;&quot;&quot;</span>
-</span><span id="Corr.matrix_symmetric-238"><a href="#Corr.matrix_symmetric-238"><span class="linenos">238</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.matrix_symmetric-239"><a href="#Corr.matrix_symmetric-239"><span class="linenos">239</span></a>            <span class="n">transposed</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">G</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">G</span><span class="o">.</span><span class="n">T</span> <span class="k">for</span> <span class="n">G</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr.matrix_symmetric-240"><a href="#Corr.matrix_symmetric-240"><span class="linenos">240</span></a>            <span class="k">return</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">transposed</span><span class="p">)</span> <span class="o">+</span> <span class="bp">self</span><span class="p">)</span>
-</span><span id="Corr.matrix_symmetric-241"><a href="#Corr.matrix_symmetric-241"><span class="linenos">241</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.matrix_symmetric-242"><a href="#Corr.matrix_symmetric-242"><span class="linenos">242</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to symmetrize a correlator matrix, that already has N=1.&quot;</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.matrix_symmetric"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.matrix_symmetric-237"><a href="#Corr.matrix_symmetric-237"><span class="linenos">237</span></a>    <span class="k">def</span> <span class="nf">matrix_symmetric</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.matrix_symmetric-238"><a href="#Corr.matrix_symmetric-238"><span class="linenos">238</span></a>        <span class="sd">&quot;&quot;&quot;Symmetrizes the correlator matrices on every timeslice.&quot;&quot;&quot;</span>
+</span><span id="Corr.matrix_symmetric-239"><a href="#Corr.matrix_symmetric-239"><span class="linenos">239</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.matrix_symmetric-240"><a href="#Corr.matrix_symmetric-240"><span class="linenos">240</span></a>            <span class="n">transposed</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">G</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">G</span><span class="o">.</span><span class="n">T</span> <span class="k">for</span> <span class="n">G</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr.matrix_symmetric-241"><a href="#Corr.matrix_symmetric-241"><span class="linenos">241</span></a>            <span class="k">return</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">transposed</span><span class="p">)</span> <span class="o">+</span> <span class="bp">self</span><span class="p">)</span>
+</span><span id="Corr.matrix_symmetric-242"><a href="#Corr.matrix_symmetric-242"><span class="linenos">242</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.matrix_symmetric-243"><a href="#Corr.matrix_symmetric-243"><span class="linenos">243</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Trying to symmetrize a correlator matrix, that already has N=1.&quot;</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Symmetrizes the correlator matrices on every timeslice.</p>
 </div>
@@ -3027,84 +3028,84 @@ timeslice and the error on each timeslice.</p>
 
                             </div>
                             <div id="Corr.GEVP" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.GEVP">#&nbsp;&nbsp</a>
+                                        <input id="Corr.GEVP-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">GEVP</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">t0</span>, </span><span class="param"><span class="n">ts</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="n">state</span><span class="o">=</span><span class="mi">0</span>, </span><span class="param"><span class="n">sorted_list</span><span class="o">=</span><span class="s1">&#39;Eigenvalue&#39;</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.GEVP-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">GEVP</span><span class="signature">(self, t0, ts=None, state=0, sorted_list=&#39;Eigenvalue&#39;)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.GEVP-244"><a href="#Corr.GEVP-244"><span class="linenos">244</span></a>    <span class="k">def</span> <span class="nf">GEVP</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="s2">&quot;Eigenvalue&quot;</span><span class="p">):</span>
-</span><span id="Corr.GEVP-245"><a href="#Corr.GEVP-245"><span class="linenos">245</span></a>        <span class="sd">&quot;&quot;&quot;Solve the general eigenvalue problem on the current correlator</span>
-</span><span id="Corr.GEVP-246"><a href="#Corr.GEVP-246"><span class="linenos">246</span></a>
-</span><span id="Corr.GEVP-247"><a href="#Corr.GEVP-247"><span class="linenos">247</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.GEVP-248"><a href="#Corr.GEVP-248"><span class="linenos">248</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.GEVP-249"><a href="#Corr.GEVP-249"><span class="linenos">249</span></a><span class="sd">        t0 : int</span>
-</span><span id="Corr.GEVP-250"><a href="#Corr.GEVP-250"><span class="linenos">250</span></a><span class="sd">            The time t0 for G(t)v= lambda G(t_0)v</span>
-</span><span id="Corr.GEVP-251"><a href="#Corr.GEVP-251"><span class="linenos">251</span></a><span class="sd">        ts : int</span>
-</span><span id="Corr.GEVP-252"><a href="#Corr.GEVP-252"><span class="linenos">252</span></a><span class="sd">            fixed time G(t_s)v= lambda G(t_0)v  if return_list=False</span>
-</span><span id="Corr.GEVP-253"><a href="#Corr.GEVP-253"><span class="linenos">253</span></a><span class="sd">            If return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</span>
-</span><span id="Corr.GEVP-254"><a href="#Corr.GEVP-254"><span class="linenos">254</span></a><span class="sd">        state : int</span>
-</span><span id="Corr.GEVP-255"><a href="#Corr.GEVP-255"><span class="linenos">255</span></a><span class="sd">            The state one is interested in, ordered by energy. The lowest state is zero.</span>
-</span><span id="Corr.GEVP-256"><a href="#Corr.GEVP-256"><span class="linenos">256</span></a><span class="sd">        sorted_list : string</span>
-</span><span id="Corr.GEVP-257"><a href="#Corr.GEVP-257"><span class="linenos">257</span></a><span class="sd">            if this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.</span>
-</span><span id="Corr.GEVP-258"><a href="#Corr.GEVP-258"><span class="linenos">258</span></a><span class="sd">             &quot;Eigenvalue&quot;  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.</span>
-</span><span id="Corr.GEVP-259"><a href="#Corr.GEVP-259"><span class="linenos">259</span></a><span class="sd">             &quot;Eigenvector&quot; -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.</span>
-</span><span id="Corr.GEVP-260"><a href="#Corr.GEVP-260"><span class="linenos">260</span></a><span class="sd">                              The reference state is identified by its eigenvalue at t=ts</span>
-</span><span id="Corr.GEVP-261"><a href="#Corr.GEVP-261"><span class="linenos">261</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.GEVP-262"><a href="#Corr.GEVP-262"><span class="linenos">262</span></a>
-</span><span id="Corr.GEVP-263"><a href="#Corr.GEVP-263"><span class="linenos">263</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.GEVP-264"><a href="#Corr.GEVP-264"><span class="linenos">264</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;GEVP methods only works on correlator matrices and not single correlators.&quot;</span><span class="p">)</span>
-</span><span id="Corr.GEVP-265"><a href="#Corr.GEVP-265"><span class="linenos">265</span></a>
-</span><span id="Corr.GEVP-266"><a href="#Corr.GEVP-266"><span class="linenos">266</span></a>        <span class="n">symmetric_corr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">matrix_symmetric</span><span class="p">()</span>
-</span><span id="Corr.GEVP-267"><a href="#Corr.GEVP-267"><span class="linenos">267</span></a>        <span class="k">if</span> <span class="n">sorted_list</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr.GEVP-268"><a href="#Corr.GEVP-268"><span class="linenos">268</span></a>            <span class="k">if</span> <span class="p">(</span><span class="n">ts</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.GEVP-269"><a href="#Corr.GEVP-269"><span class="linenos">269</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;ts is required if sorted_list=None&quot;</span><span class="p">)</span>
-</span><span id="Corr.GEVP-270"><a href="#Corr.GEVP-270"><span class="linenos">270</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t0</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">ts</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.GEVP-271"><a href="#Corr.GEVP-271"><span class="linenos">271</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr not defined at t0/ts&quot;</span><span class="p">)</span>
-</span><span id="Corr.GEVP-272"><a href="#Corr.GEVP-272"><span class="linenos">272</span></a>            <span class="n">G0</span><span class="p">,</span> <span class="n">Gt</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">)</span>
-</span><span id="Corr.GEVP-273"><a href="#Corr.GEVP-273"><span class="linenos">273</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr.GEVP-274"><a href="#Corr.GEVP-274"><span class="linenos">274</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr.GEVP-275"><a href="#Corr.GEVP-275"><span class="linenos">275</span></a>                    <span class="n">G0</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t0</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
-</span><span id="Corr.GEVP-276"><a href="#Corr.GEVP-276"><span class="linenos">276</span></a>                    <span class="n">Gt</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">ts</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
-</span><span id="Corr.GEVP-277"><a href="#Corr.GEVP-277"><span class="linenos">277</span></a>
-</span><span id="Corr.GEVP-278"><a href="#Corr.GEVP-278"><span class="linenos">278</span></a>            <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
-</span><span id="Corr.GEVP-279"><a href="#Corr.GEVP-279"><span class="linenos">279</span></a>            <span class="n">sp_vec</span> <span class="o">=</span> <span class="n">sp_vecs</span><span class="p">[</span><span class="n">state</span><span class="p">]</span>
-</span><span id="Corr.GEVP-280"><a href="#Corr.GEVP-280"><span class="linenos">280</span></a>            <span class="k">return</span> <span class="n">sp_vec</span>
-</span><span id="Corr.GEVP-281"><a href="#Corr.GEVP-281"><span class="linenos">281</span></a>        <span class="k">elif</span> <span class="n">sorted_list</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;Eigenvalue&quot;</span><span class="p">,</span> <span class="s2">&quot;Eigenvector&quot;</span><span class="p">]:</span>
-</span><span id="Corr.GEVP-282"><a href="#Corr.GEVP-282"><span class="linenos">282</span></a>            <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvalue&quot;</span> <span class="ow">and</span> <span class="n">ts</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr.GEVP-283"><a href="#Corr.GEVP-283"><span class="linenos">283</span></a>                <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;ts has no effect when sorting by eigenvalue is chosen.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="Corr.GEVP-284"><a href="#Corr.GEVP-284"><span class="linenos">284</span></a>            <span class="n">all_vecs</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.GEVP-285"><a href="#Corr.GEVP-285"><span class="linenos">285</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr.GEVP-286"><a href="#Corr.GEVP-286"><span class="linenos">286</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="Corr.GEVP-287"><a href="#Corr.GEVP-287"><span class="linenos">287</span></a>                    <span class="n">G0</span><span class="p">,</span> <span class="n">Gt</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">)</span>
-</span><span id="Corr.GEVP-288"><a href="#Corr.GEVP-288"><span class="linenos">288</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr.GEVP-289"><a href="#Corr.GEVP-289"><span class="linenos">289</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr.GEVP-290"><a href="#Corr.GEVP-290"><span class="linenos">290</span></a>                            <span class="n">G0</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t0</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
-</span><span id="Corr.GEVP-291"><a href="#Corr.GEVP-291"><span class="linenos">291</span></a>                            <span class="n">Gt</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
-</span><span id="Corr.GEVP-292"><a href="#Corr.GEVP-292"><span class="linenos">292</span></a>
-</span><span id="Corr.GEVP-293"><a href="#Corr.GEVP-293"><span class="linenos">293</span></a>                    <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
-</span><span id="Corr.GEVP-294"><a href="#Corr.GEVP-294"><span class="linenos">294</span></a>                    <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvalue&quot;</span><span class="p">:</span>
-</span><span id="Corr.GEVP-295"><a href="#Corr.GEVP-295"><span class="linenos">295</span></a>                        <span class="n">sp_vec</span> <span class="o">=</span> <span class="n">sp_vecs</span><span class="p">[</span><span class="n">state</span><span class="p">]</span>
-</span><span id="Corr.GEVP-296"><a href="#Corr.GEVP-296"><span class="linenos">296</span></a>                        <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">sp_vec</span><span class="p">)</span>
-</span><span id="Corr.GEVP-297"><a href="#Corr.GEVP-297"><span class="linenos">297</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.GEVP-298"><a href="#Corr.GEVP-298"><span class="linenos">298</span></a>                        <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">sp_vecs</span><span class="p">)</span>
-</span><span id="Corr.GEVP-299"><a href="#Corr.GEVP-299"><span class="linenos">299</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="Corr.GEVP-300"><a href="#Corr.GEVP-300"><span class="linenos">300</span></a>                    <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.GEVP-301"><a href="#Corr.GEVP-301"><span class="linenos">301</span></a>            <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvector&quot;</span><span class="p">:</span>
-</span><span id="Corr.GEVP-302"><a href="#Corr.GEVP-302"><span class="linenos">302</span></a>                <span class="k">if</span> <span class="p">(</span><span class="n">ts</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.GEVP-303"><a href="#Corr.GEVP-303"><span class="linenos">303</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;ts is required for the Eigenvector sorting method.&quot;</span><span class="p">)</span>
-</span><span id="Corr.GEVP-304"><a href="#Corr.GEVP-304"><span class="linenos">304</span></a>                <span class="n">all_vecs</span> <span class="o">=</span> <span class="n">_sort_vectors</span><span class="p">(</span><span class="n">all_vecs</span><span class="p">,</span> <span class="n">ts</span><span class="p">)</span>
-</span><span id="Corr.GEVP-305"><a href="#Corr.GEVP-305"><span class="linenos">305</span></a>                <span class="n">all_vecs</span> <span class="o">=</span> <span class="p">[</span><span class="n">a</span><span class="p">[</span><span class="n">state</span><span class="p">]</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="n">all_vecs</span><span class="p">]</span>
-</span><span id="Corr.GEVP-306"><a href="#Corr.GEVP-306"><span class="linenos">306</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.GEVP-307"><a href="#Corr.GEVP-307"><span class="linenos">307</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unkown value for &#39;sorted_list&#39;.&quot;</span><span class="p">)</span>
-</span><span id="Corr.GEVP-308"><a href="#Corr.GEVP-308"><span class="linenos">308</span></a>
-</span><span id="Corr.GEVP-309"><a href="#Corr.GEVP-309"><span class="linenos">309</span></a>        <span class="k">return</span> <span class="n">all_vecs</span>
+    <a class="headerlink" href="#Corr.GEVP"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.GEVP-245"><a href="#Corr.GEVP-245"><span class="linenos">245</span></a>    <span class="k">def</span> <span class="nf">GEVP</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="s2">&quot;Eigenvalue&quot;</span><span class="p">):</span>
+</span><span id="Corr.GEVP-246"><a href="#Corr.GEVP-246"><span class="linenos">246</span></a>        <span class="sd">&quot;&quot;&quot;Solve the general eigenvalue problem on the current correlator</span>
+</span><span id="Corr.GEVP-247"><a href="#Corr.GEVP-247"><span class="linenos">247</span></a>
+</span><span id="Corr.GEVP-248"><a href="#Corr.GEVP-248"><span class="linenos">248</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.GEVP-249"><a href="#Corr.GEVP-249"><span class="linenos">249</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.GEVP-250"><a href="#Corr.GEVP-250"><span class="linenos">250</span></a><span class="sd">        t0 : int</span>
+</span><span id="Corr.GEVP-251"><a href="#Corr.GEVP-251"><span class="linenos">251</span></a><span class="sd">            The time t0 for G(t)v= lambda G(t_0)v</span>
+</span><span id="Corr.GEVP-252"><a href="#Corr.GEVP-252"><span class="linenos">252</span></a><span class="sd">        ts : int</span>
+</span><span id="Corr.GEVP-253"><a href="#Corr.GEVP-253"><span class="linenos">253</span></a><span class="sd">            fixed time G(t_s)v= lambda G(t_0)v  if return_list=False</span>
+</span><span id="Corr.GEVP-254"><a href="#Corr.GEVP-254"><span class="linenos">254</span></a><span class="sd">            If return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</span>
+</span><span id="Corr.GEVP-255"><a href="#Corr.GEVP-255"><span class="linenos">255</span></a><span class="sd">        state : int</span>
+</span><span id="Corr.GEVP-256"><a href="#Corr.GEVP-256"><span class="linenos">256</span></a><span class="sd">            The state one is interested in, ordered by energy. The lowest state is zero.</span>
+</span><span id="Corr.GEVP-257"><a href="#Corr.GEVP-257"><span class="linenos">257</span></a><span class="sd">        sorted_list : string</span>
+</span><span id="Corr.GEVP-258"><a href="#Corr.GEVP-258"><span class="linenos">258</span></a><span class="sd">            if this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.</span>
+</span><span id="Corr.GEVP-259"><a href="#Corr.GEVP-259"><span class="linenos">259</span></a><span class="sd">             &quot;Eigenvalue&quot;  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.</span>
+</span><span id="Corr.GEVP-260"><a href="#Corr.GEVP-260"><span class="linenos">260</span></a><span class="sd">             &quot;Eigenvector&quot; -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.</span>
+</span><span id="Corr.GEVP-261"><a href="#Corr.GEVP-261"><span class="linenos">261</span></a><span class="sd">                              The reference state is identified by its eigenvalue at t=ts</span>
+</span><span id="Corr.GEVP-262"><a href="#Corr.GEVP-262"><span class="linenos">262</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.GEVP-263"><a href="#Corr.GEVP-263"><span class="linenos">263</span></a>
+</span><span id="Corr.GEVP-264"><a href="#Corr.GEVP-264"><span class="linenos">264</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.GEVP-265"><a href="#Corr.GEVP-265"><span class="linenos">265</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;GEVP methods only works on correlator matrices and not single correlators.&quot;</span><span class="p">)</span>
+</span><span id="Corr.GEVP-266"><a href="#Corr.GEVP-266"><span class="linenos">266</span></a>
+</span><span id="Corr.GEVP-267"><a href="#Corr.GEVP-267"><span class="linenos">267</span></a>        <span class="n">symmetric_corr</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">matrix_symmetric</span><span class="p">()</span>
+</span><span id="Corr.GEVP-268"><a href="#Corr.GEVP-268"><span class="linenos">268</span></a>        <span class="k">if</span> <span class="n">sorted_list</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr.GEVP-269"><a href="#Corr.GEVP-269"><span class="linenos">269</span></a>            <span class="k">if</span> <span class="p">(</span><span class="n">ts</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.GEVP-270"><a href="#Corr.GEVP-270"><span class="linenos">270</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;ts is required if sorted_list=None&quot;</span><span class="p">)</span>
+</span><span id="Corr.GEVP-271"><a href="#Corr.GEVP-271"><span class="linenos">271</span></a>            <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t0</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">ts</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.GEVP-272"><a href="#Corr.GEVP-272"><span class="linenos">272</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Corr not defined at t0/ts&quot;</span><span class="p">)</span>
+</span><span id="Corr.GEVP-273"><a href="#Corr.GEVP-273"><span class="linenos">273</span></a>            <span class="n">G0</span><span class="p">,</span> <span class="n">Gt</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">)</span>
+</span><span id="Corr.GEVP-274"><a href="#Corr.GEVP-274"><span class="linenos">274</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr.GEVP-275"><a href="#Corr.GEVP-275"><span class="linenos">275</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr.GEVP-276"><a href="#Corr.GEVP-276"><span class="linenos">276</span></a>                    <span class="n">G0</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t0</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
+</span><span id="Corr.GEVP-277"><a href="#Corr.GEVP-277"><span class="linenos">277</span></a>                    <span class="n">Gt</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">ts</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
+</span><span id="Corr.GEVP-278"><a href="#Corr.GEVP-278"><span class="linenos">278</span></a>
+</span><span id="Corr.GEVP-279"><a href="#Corr.GEVP-279"><span class="linenos">279</span></a>            <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
+</span><span id="Corr.GEVP-280"><a href="#Corr.GEVP-280"><span class="linenos">280</span></a>            <span class="n">sp_vec</span> <span class="o">=</span> <span class="n">sp_vecs</span><span class="p">[</span><span class="n">state</span><span class="p">]</span>
+</span><span id="Corr.GEVP-281"><a href="#Corr.GEVP-281"><span class="linenos">281</span></a>            <span class="k">return</span> <span class="n">sp_vec</span>
+</span><span id="Corr.GEVP-282"><a href="#Corr.GEVP-282"><span class="linenos">282</span></a>        <span class="k">elif</span> <span class="n">sorted_list</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;Eigenvalue&quot;</span><span class="p">,</span> <span class="s2">&quot;Eigenvector&quot;</span><span class="p">]:</span>
+</span><span id="Corr.GEVP-283"><a href="#Corr.GEVP-283"><span class="linenos">283</span></a>            <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvalue&quot;</span> <span class="ow">and</span> <span class="n">ts</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr.GEVP-284"><a href="#Corr.GEVP-284"><span class="linenos">284</span></a>                <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;ts has no effect when sorting by eigenvalue is chosen.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="Corr.GEVP-285"><a href="#Corr.GEVP-285"><span class="linenos">285</span></a>            <span class="n">all_vecs</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.GEVP-286"><a href="#Corr.GEVP-286"><span class="linenos">286</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr.GEVP-287"><a href="#Corr.GEVP-287"><span class="linenos">287</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="Corr.GEVP-288"><a href="#Corr.GEVP-288"><span class="linenos">288</span></a>                    <span class="n">G0</span><span class="p">,</span> <span class="n">Gt</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;double&quot;</span><span class="p">)</span>
+</span><span id="Corr.GEVP-289"><a href="#Corr.GEVP-289"><span class="linenos">289</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr.GEVP-290"><a href="#Corr.GEVP-290"><span class="linenos">290</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr.GEVP-291"><a href="#Corr.GEVP-291"><span class="linenos">291</span></a>                            <span class="n">G0</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t0</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
+</span><span id="Corr.GEVP-292"><a href="#Corr.GEVP-292"><span class="linenos">292</span></a>                            <span class="n">Gt</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">symmetric_corr</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span><span class="o">.</span><span class="n">value</span>
+</span><span id="Corr.GEVP-293"><a href="#Corr.GEVP-293"><span class="linenos">293</span></a>
+</span><span id="Corr.GEVP-294"><a href="#Corr.GEVP-294"><span class="linenos">294</span></a>                    <span class="n">sp_vecs</span> <span class="o">=</span> <span class="n">_GEVP_solver</span><span class="p">(</span><span class="n">Gt</span><span class="p">,</span> <span class="n">G0</span><span class="p">)</span>
+</span><span id="Corr.GEVP-295"><a href="#Corr.GEVP-295"><span class="linenos">295</span></a>                    <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvalue&quot;</span><span class="p">:</span>
+</span><span id="Corr.GEVP-296"><a href="#Corr.GEVP-296"><span class="linenos">296</span></a>                        <span class="n">sp_vec</span> <span class="o">=</span> <span class="n">sp_vecs</span><span class="p">[</span><span class="n">state</span><span class="p">]</span>
+</span><span id="Corr.GEVP-297"><a href="#Corr.GEVP-297"><span class="linenos">297</span></a>                        <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">sp_vec</span><span class="p">)</span>
+</span><span id="Corr.GEVP-298"><a href="#Corr.GEVP-298"><span class="linenos">298</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.GEVP-299"><a href="#Corr.GEVP-299"><span class="linenos">299</span></a>                        <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">sp_vecs</span><span class="p">)</span>
+</span><span id="Corr.GEVP-300"><a href="#Corr.GEVP-300"><span class="linenos">300</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="Corr.GEVP-301"><a href="#Corr.GEVP-301"><span class="linenos">301</span></a>                    <span class="n">all_vecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.GEVP-302"><a href="#Corr.GEVP-302"><span class="linenos">302</span></a>            <span class="k">if</span> <span class="n">sorted_list</span> <span class="o">==</span> <span class="s2">&quot;Eigenvector&quot;</span><span class="p">:</span>
+</span><span id="Corr.GEVP-303"><a href="#Corr.GEVP-303"><span class="linenos">303</span></a>                <span class="k">if</span> <span class="p">(</span><span class="n">ts</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.GEVP-304"><a href="#Corr.GEVP-304"><span class="linenos">304</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;ts is required for the Eigenvector sorting method.&quot;</span><span class="p">)</span>
+</span><span id="Corr.GEVP-305"><a href="#Corr.GEVP-305"><span class="linenos">305</span></a>                <span class="n">all_vecs</span> <span class="o">=</span> <span class="n">_sort_vectors</span><span class="p">(</span><span class="n">all_vecs</span><span class="p">,</span> <span class="n">ts</span><span class="p">)</span>
+</span><span id="Corr.GEVP-306"><a href="#Corr.GEVP-306"><span class="linenos">306</span></a>                <span class="n">all_vecs</span> <span class="o">=</span> <span class="p">[</span><span class="n">a</span><span class="p">[</span><span class="n">state</span><span class="p">]</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="n">all_vecs</span><span class="p">]</span>
+</span><span id="Corr.GEVP-307"><a href="#Corr.GEVP-307"><span class="linenos">307</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.GEVP-308"><a href="#Corr.GEVP-308"><span class="linenos">308</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unkown value for &#39;sorted_list&#39;.&quot;</span><span class="p">)</span>
+</span><span id="Corr.GEVP-309"><a href="#Corr.GEVP-309"><span class="linenos">309</span></a>
+</span><span id="Corr.GEVP-310"><a href="#Corr.GEVP-310"><span class="linenos">310</span></a>        <span class="k">return</span> <span class="n">all_vecs</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Solve the general eigenvalue problem on the current correlator</p>
 
@@ -3129,38 +3130,38 @@ if this argument is set, a list of vectors (len=self.T) is returned. If it is le
 
                             </div>
                             <div id="Corr.Eigenvalue" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.Eigenvalue">#&nbsp;&nbsp</a>
+                                        <input id="Corr.Eigenvalue-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">Eigenvalue</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">t0</span>, </span><span class="param"><span class="n">ts</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="n">state</span><span class="o">=</span><span class="mi">0</span>, </span><span class="param"><span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.Eigenvalue-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">Eigenvalue</span><span class="signature">(self, t0, ts=None, state=0, sorted_list=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.Eigenvalue-311"><a href="#Corr.Eigenvalue-311"><span class="linenos">311</span></a>    <span class="k">def</span> <span class="nf">Eigenvalue</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.Eigenvalue-312"><a href="#Corr.Eigenvalue-312"><span class="linenos">312</span></a>        <span class="sd">&quot;&quot;&quot;Determines the eigenvalue of the GEVP by solving and projecting the correlator</span>
-</span><span id="Corr.Eigenvalue-313"><a href="#Corr.Eigenvalue-313"><span class="linenos">313</span></a>
-</span><span id="Corr.Eigenvalue-314"><a href="#Corr.Eigenvalue-314"><span class="linenos">314</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.Eigenvalue-315"><a href="#Corr.Eigenvalue-315"><span class="linenos">315</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.Eigenvalue-316"><a href="#Corr.Eigenvalue-316"><span class="linenos">316</span></a><span class="sd">        t0 : int</span>
-</span><span id="Corr.Eigenvalue-317"><a href="#Corr.Eigenvalue-317"><span class="linenos">317</span></a><span class="sd">            The time t0 for G(t)v= lambda G(t_0)v</span>
-</span><span id="Corr.Eigenvalue-318"><a href="#Corr.Eigenvalue-318"><span class="linenos">318</span></a><span class="sd">        ts : int</span>
-</span><span id="Corr.Eigenvalue-319"><a href="#Corr.Eigenvalue-319"><span class="linenos">319</span></a><span class="sd">            fixed time G(t_s)v= lambda G(t_0)v  if return_list=False</span>
-</span><span id="Corr.Eigenvalue-320"><a href="#Corr.Eigenvalue-320"><span class="linenos">320</span></a><span class="sd">            If return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</span>
-</span><span id="Corr.Eigenvalue-321"><a href="#Corr.Eigenvalue-321"><span class="linenos">321</span></a><span class="sd">        state : int</span>
-</span><span id="Corr.Eigenvalue-322"><a href="#Corr.Eigenvalue-322"><span class="linenos">322</span></a><span class="sd">            The state one is interested in ordered by energy. The lowest state is zero.</span>
-</span><span id="Corr.Eigenvalue-323"><a href="#Corr.Eigenvalue-323"><span class="linenos">323</span></a><span class="sd">        sorted_list : string</span>
-</span><span id="Corr.Eigenvalue-324"><a href="#Corr.Eigenvalue-324"><span class="linenos">324</span></a><span class="sd">            if this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.</span>
-</span><span id="Corr.Eigenvalue-325"><a href="#Corr.Eigenvalue-325"><span class="linenos">325</span></a><span class="sd">             &quot;Eigenvalue&quot;  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.</span>
-</span><span id="Corr.Eigenvalue-326"><a href="#Corr.Eigenvalue-326"><span class="linenos">326</span></a><span class="sd">             &quot;Eigenvector&quot; -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.</span>
-</span><span id="Corr.Eigenvalue-327"><a href="#Corr.Eigenvalue-327"><span class="linenos">327</span></a><span class="sd">                              The reference state is identified by its eigenvalue at t=ts</span>
-</span><span id="Corr.Eigenvalue-328"><a href="#Corr.Eigenvalue-328"><span class="linenos">328</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.Eigenvalue-329"><a href="#Corr.Eigenvalue-329"><span class="linenos">329</span></a>        <span class="n">vec</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">GEVP</span><span class="p">(</span><span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="n">ts</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="n">state</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="n">sorted_list</span><span class="p">)</span>
-</span><span id="Corr.Eigenvalue-330"><a href="#Corr.Eigenvalue-330"><span class="linenos">330</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">projected</span><span class="p">(</span><span class="n">vec</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.Eigenvalue"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.Eigenvalue-312"><a href="#Corr.Eigenvalue-312"><span class="linenos">312</span></a>    <span class="k">def</span> <span class="nf">Eigenvalue</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.Eigenvalue-313"><a href="#Corr.Eigenvalue-313"><span class="linenos">313</span></a>        <span class="sd">&quot;&quot;&quot;Determines the eigenvalue of the GEVP by solving and projecting the correlator</span>
+</span><span id="Corr.Eigenvalue-314"><a href="#Corr.Eigenvalue-314"><span class="linenos">314</span></a>
+</span><span id="Corr.Eigenvalue-315"><a href="#Corr.Eigenvalue-315"><span class="linenos">315</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.Eigenvalue-316"><a href="#Corr.Eigenvalue-316"><span class="linenos">316</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.Eigenvalue-317"><a href="#Corr.Eigenvalue-317"><span class="linenos">317</span></a><span class="sd">        t0 : int</span>
+</span><span id="Corr.Eigenvalue-318"><a href="#Corr.Eigenvalue-318"><span class="linenos">318</span></a><span class="sd">            The time t0 for G(t)v= lambda G(t_0)v</span>
+</span><span id="Corr.Eigenvalue-319"><a href="#Corr.Eigenvalue-319"><span class="linenos">319</span></a><span class="sd">        ts : int</span>
+</span><span id="Corr.Eigenvalue-320"><a href="#Corr.Eigenvalue-320"><span class="linenos">320</span></a><span class="sd">            fixed time G(t_s)v= lambda G(t_0)v  if return_list=False</span>
+</span><span id="Corr.Eigenvalue-321"><a href="#Corr.Eigenvalue-321"><span class="linenos">321</span></a><span class="sd">            If return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</span>
+</span><span id="Corr.Eigenvalue-322"><a href="#Corr.Eigenvalue-322"><span class="linenos">322</span></a><span class="sd">        state : int</span>
+</span><span id="Corr.Eigenvalue-323"><a href="#Corr.Eigenvalue-323"><span class="linenos">323</span></a><span class="sd">            The state one is interested in ordered by energy. The lowest state is zero.</span>
+</span><span id="Corr.Eigenvalue-324"><a href="#Corr.Eigenvalue-324"><span class="linenos">324</span></a><span class="sd">        sorted_list : string</span>
+</span><span id="Corr.Eigenvalue-325"><a href="#Corr.Eigenvalue-325"><span class="linenos">325</span></a><span class="sd">            if this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.</span>
+</span><span id="Corr.Eigenvalue-326"><a href="#Corr.Eigenvalue-326"><span class="linenos">326</span></a><span class="sd">             &quot;Eigenvalue&quot;  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.</span>
+</span><span id="Corr.Eigenvalue-327"><a href="#Corr.Eigenvalue-327"><span class="linenos">327</span></a><span class="sd">             &quot;Eigenvector&quot; -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.</span>
+</span><span id="Corr.Eigenvalue-328"><a href="#Corr.Eigenvalue-328"><span class="linenos">328</span></a><span class="sd">                              The reference state is identified by its eigenvalue at t=ts</span>
+</span><span id="Corr.Eigenvalue-329"><a href="#Corr.Eigenvalue-329"><span class="linenos">329</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.Eigenvalue-330"><a href="#Corr.Eigenvalue-330"><span class="linenos">330</span></a>        <span class="n">vec</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">GEVP</span><span class="p">(</span><span class="n">t0</span><span class="p">,</span> <span class="n">ts</span><span class="o">=</span><span class="n">ts</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="n">state</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="n">sorted_list</span><span class="p">)</span>
+</span><span id="Corr.Eigenvalue-331"><a href="#Corr.Eigenvalue-331"><span class="linenos">331</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">projected</span><span class="p">(</span><span class="n">vec</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Determines the eigenvalue of the GEVP by solving and projecting the correlator</p>
 
@@ -3185,58 +3186,58 @@ if this argument is set, a list of vectors (len=self.T) is returned. If it is le
 
                             </div>
                             <div id="Corr.Hankel" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.Hankel">#&nbsp;&nbsp</a>
+                                        <input id="Corr.Hankel-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">Hankel</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">N</span>, </span><span class="param"><span class="n">periodic</span><span class="o">=</span><span class="kc">False</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.Hankel-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">Hankel</span><span class="signature">(self, N, periodic=False)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.Hankel-332"><a href="#Corr.Hankel-332"><span class="linenos">332</span></a>    <span class="k">def</span> <span class="nf">Hankel</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">N</span><span class="p">,</span> <span class="n">periodic</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="Corr.Hankel-333"><a href="#Corr.Hankel-333"><span class="linenos">333</span></a>        <span class="sd">&quot;&quot;&quot;Constructs an NxN Hankel matrix</span>
-</span><span id="Corr.Hankel-334"><a href="#Corr.Hankel-334"><span class="linenos">334</span></a>
-</span><span id="Corr.Hankel-335"><a href="#Corr.Hankel-335"><span class="linenos">335</span></a><span class="sd">        C(t) c(t+1) ... c(t+n-1)</span>
-</span><span id="Corr.Hankel-336"><a href="#Corr.Hankel-336"><span class="linenos">336</span></a><span class="sd">        C(t+1) c(t+2) ... c(t+n)</span>
-</span><span id="Corr.Hankel-337"><a href="#Corr.Hankel-337"><span class="linenos">337</span></a><span class="sd">        .................</span>
-</span><span id="Corr.Hankel-338"><a href="#Corr.Hankel-338"><span class="linenos">338</span></a><span class="sd">        C(t+(n-1)) c(t+n) ... c(t+2(n-1))</span>
-</span><span id="Corr.Hankel-339"><a href="#Corr.Hankel-339"><span class="linenos">339</span></a>
-</span><span id="Corr.Hankel-340"><a href="#Corr.Hankel-340"><span class="linenos">340</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.Hankel-341"><a href="#Corr.Hankel-341"><span class="linenos">341</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.Hankel-342"><a href="#Corr.Hankel-342"><span class="linenos">342</span></a><span class="sd">        N : int</span>
-</span><span id="Corr.Hankel-343"><a href="#Corr.Hankel-343"><span class="linenos">343</span></a><span class="sd">            Dimension of the Hankel matrix</span>
-</span><span id="Corr.Hankel-344"><a href="#Corr.Hankel-344"><span class="linenos">344</span></a><span class="sd">        periodic : bool, optional</span>
-</span><span id="Corr.Hankel-345"><a href="#Corr.Hankel-345"><span class="linenos">345</span></a><span class="sd">            determines whether the matrix is extended periodically</span>
-</span><span id="Corr.Hankel-346"><a href="#Corr.Hankel-346"><span class="linenos">346</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.Hankel-347"><a href="#Corr.Hankel-347"><span class="linenos">347</span></a>
-</span><span id="Corr.Hankel-348"><a href="#Corr.Hankel-348"><span class="linenos">348</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.Hankel-349"><a href="#Corr.Hankel-349"><span class="linenos">349</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multi-operator Prony not implemented!&quot;</span><span class="p">)</span>
-</span><span id="Corr.Hankel-350"><a href="#Corr.Hankel-350"><span class="linenos">350</span></a>
-</span><span id="Corr.Hankel-351"><a href="#Corr.Hankel-351"><span class="linenos">351</span></a>        <span class="n">array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;object&quot;</span><span class="p">)</span>
-</span><span id="Corr.Hankel-352"><a href="#Corr.Hankel-352"><span class="linenos">352</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.Hankel-353"><a href="#Corr.Hankel-353"><span class="linenos">353</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr.Hankel-354"><a href="#Corr.Hankel-354"><span class="linenos">354</span></a>            <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">array</span><span class="o">.</span><span class="n">copy</span><span class="p">())</span>
-</span><span id="Corr.Hankel-355"><a href="#Corr.Hankel-355"><span class="linenos">355</span></a>
-</span><span id="Corr.Hankel-356"><a href="#Corr.Hankel-356"><span class="linenos">356</span></a>        <span class="k">def</span> <span class="nf">wrap</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
-</span><span id="Corr.Hankel-357"><a href="#Corr.Hankel-357"><span class="linenos">357</span></a>            <span class="k">while</span> <span class="n">i</span> <span class="o">&gt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="Corr.Hankel-358"><a href="#Corr.Hankel-358"><span class="linenos">358</span></a>                <span class="n">i</span> <span class="o">-=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
-</span><span id="Corr.Hankel-359"><a href="#Corr.Hankel-359"><span class="linenos">359</span></a>            <span class="k">return</span> <span class="n">i</span>
-</span><span id="Corr.Hankel-360"><a href="#Corr.Hankel-360"><span class="linenos">360</span></a>
-</span><span id="Corr.Hankel-361"><a href="#Corr.Hankel-361"><span class="linenos">361</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr.Hankel-362"><a href="#Corr.Hankel-362"><span class="linenos">362</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr.Hankel-363"><a href="#Corr.Hankel-363"><span class="linenos">363</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Corr.Hankel-364"><a href="#Corr.Hankel-364"><span class="linenos">364</span></a>                    <span class="k">if</span> <span class="n">periodic</span><span class="p">:</span>
-</span><span id="Corr.Hankel-365"><a href="#Corr.Hankel-365"><span class="linenos">365</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">wrap</span><span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">)][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr.Hankel-366"><a href="#Corr.Hankel-366"><span class="linenos">366</span></a>                    <span class="k">elif</span> <span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">)</span> <span class="o">&gt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="Corr.Hankel-367"><a href="#Corr.Hankel-367"><span class="linenos">367</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="Corr.Hankel-368"><a href="#Corr.Hankel-368"><span class="linenos">368</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.Hankel-369"><a href="#Corr.Hankel-369"><span class="linenos">369</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr.Hankel-370"><a href="#Corr.Hankel-370"><span class="linenos">370</span></a>
-</span><span id="Corr.Hankel-371"><a href="#Corr.Hankel-371"><span class="linenos">371</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.Hankel"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.Hankel-333"><a href="#Corr.Hankel-333"><span class="linenos">333</span></a>    <span class="k">def</span> <span class="nf">Hankel</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">N</span><span class="p">,</span> <span class="n">periodic</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="Corr.Hankel-334"><a href="#Corr.Hankel-334"><span class="linenos">334</span></a>        <span class="sd">&quot;&quot;&quot;Constructs an NxN Hankel matrix</span>
+</span><span id="Corr.Hankel-335"><a href="#Corr.Hankel-335"><span class="linenos">335</span></a>
+</span><span id="Corr.Hankel-336"><a href="#Corr.Hankel-336"><span class="linenos">336</span></a><span class="sd">        C(t) c(t+1) ... c(t+n-1)</span>
+</span><span id="Corr.Hankel-337"><a href="#Corr.Hankel-337"><span class="linenos">337</span></a><span class="sd">        C(t+1) c(t+2) ... c(t+n)</span>
+</span><span id="Corr.Hankel-338"><a href="#Corr.Hankel-338"><span class="linenos">338</span></a><span class="sd">        .................</span>
+</span><span id="Corr.Hankel-339"><a href="#Corr.Hankel-339"><span class="linenos">339</span></a><span class="sd">        C(t+(n-1)) c(t+n) ... c(t+2(n-1))</span>
+</span><span id="Corr.Hankel-340"><a href="#Corr.Hankel-340"><span class="linenos">340</span></a>
+</span><span id="Corr.Hankel-341"><a href="#Corr.Hankel-341"><span class="linenos">341</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.Hankel-342"><a href="#Corr.Hankel-342"><span class="linenos">342</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.Hankel-343"><a href="#Corr.Hankel-343"><span class="linenos">343</span></a><span class="sd">        N : int</span>
+</span><span id="Corr.Hankel-344"><a href="#Corr.Hankel-344"><span class="linenos">344</span></a><span class="sd">            Dimension of the Hankel matrix</span>
+</span><span id="Corr.Hankel-345"><a href="#Corr.Hankel-345"><span class="linenos">345</span></a><span class="sd">        periodic : bool, optional</span>
+</span><span id="Corr.Hankel-346"><a href="#Corr.Hankel-346"><span class="linenos">346</span></a><span class="sd">            determines whether the matrix is extended periodically</span>
+</span><span id="Corr.Hankel-347"><a href="#Corr.Hankel-347"><span class="linenos">347</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.Hankel-348"><a href="#Corr.Hankel-348"><span class="linenos">348</span></a>
+</span><span id="Corr.Hankel-349"><a href="#Corr.Hankel-349"><span class="linenos">349</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.Hankel-350"><a href="#Corr.Hankel-350"><span class="linenos">350</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Multi-operator Prony not implemented!&quot;</span><span class="p">)</span>
+</span><span id="Corr.Hankel-351"><a href="#Corr.Hankel-351"><span class="linenos">351</span></a>
+</span><span id="Corr.Hankel-352"><a href="#Corr.Hankel-352"><span class="linenos">352</span></a>        <span class="n">array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">([</span><span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="s2">&quot;object&quot;</span><span class="p">)</span>
+</span><span id="Corr.Hankel-353"><a href="#Corr.Hankel-353"><span class="linenos">353</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.Hankel-354"><a href="#Corr.Hankel-354"><span class="linenos">354</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr.Hankel-355"><a href="#Corr.Hankel-355"><span class="linenos">355</span></a>            <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">array</span><span class="o">.</span><span class="n">copy</span><span class="p">())</span>
+</span><span id="Corr.Hankel-356"><a href="#Corr.Hankel-356"><span class="linenos">356</span></a>
+</span><span id="Corr.Hankel-357"><a href="#Corr.Hankel-357"><span class="linenos">357</span></a>        <span class="k">def</span> <span class="nf">wrap</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+</span><span id="Corr.Hankel-358"><a href="#Corr.Hankel-358"><span class="linenos">358</span></a>            <span class="k">while</span> <span class="n">i</span> <span class="o">&gt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="Corr.Hankel-359"><a href="#Corr.Hankel-359"><span class="linenos">359</span></a>                <span class="n">i</span> <span class="o">-=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span>
+</span><span id="Corr.Hankel-360"><a href="#Corr.Hankel-360"><span class="linenos">360</span></a>            <span class="k">return</span> <span class="n">i</span>
+</span><span id="Corr.Hankel-361"><a href="#Corr.Hankel-361"><span class="linenos">361</span></a>
+</span><span id="Corr.Hankel-362"><a href="#Corr.Hankel-362"><span class="linenos">362</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr.Hankel-363"><a href="#Corr.Hankel-363"><span class="linenos">363</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr.Hankel-364"><a href="#Corr.Hankel-364"><span class="linenos">364</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Corr.Hankel-365"><a href="#Corr.Hankel-365"><span class="linenos">365</span></a>                    <span class="k">if</span> <span class="n">periodic</span><span class="p">:</span>
+</span><span id="Corr.Hankel-366"><a href="#Corr.Hankel-366"><span class="linenos">366</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">wrap</span><span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">)][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr.Hankel-367"><a href="#Corr.Hankel-367"><span class="linenos">367</span></a>                    <span class="k">elif</span> <span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">)</span> <span class="o">&gt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="Corr.Hankel-368"><a href="#Corr.Hankel-368"><span class="linenos">368</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="Corr.Hankel-369"><a href="#Corr.Hankel-369"><span class="linenos">369</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.Hankel-370"><a href="#Corr.Hankel-370"><span class="linenos">370</span></a>                        <span class="n">new_content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="n">i</span> <span class="o">+</span> <span class="n">j</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr.Hankel-371"><a href="#Corr.Hankel-371"><span class="linenos">371</span></a>
+</span><span id="Corr.Hankel-372"><a href="#Corr.Hankel-372"><span class="linenos">372</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Constructs an NxN Hankel matrix</p>
 
@@ -3258,27 +3259,27 @@ determines whether the matrix is extended periodically</li>
 
                             </div>
                             <div id="Corr.roll" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.roll">#&nbsp;&nbsp</a>
+                                        <input id="Corr.roll-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">roll</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">dt</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.roll-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">roll</span><span class="signature">(self, dt)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.roll-373"><a href="#Corr.roll-373"><span class="linenos">373</span></a>    <span class="k">def</span> <span class="nf">roll</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">dt</span><span class="p">):</span>
-</span><span id="Corr.roll-374"><a href="#Corr.roll-374"><span class="linenos">374</span></a>        <span class="sd">&quot;&quot;&quot;Periodically shift the correlator by dt timeslices</span>
-</span><span id="Corr.roll-375"><a href="#Corr.roll-375"><span class="linenos">375</span></a>
-</span><span id="Corr.roll-376"><a href="#Corr.roll-376"><span class="linenos">376</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.roll-377"><a href="#Corr.roll-377"><span class="linenos">377</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.roll-378"><a href="#Corr.roll-378"><span class="linenos">378</span></a><span class="sd">        dt : int</span>
-</span><span id="Corr.roll-379"><a href="#Corr.roll-379"><span class="linenos">379</span></a><span class="sd">            number of timeslices</span>
-</span><span id="Corr.roll-380"><a href="#Corr.roll-380"><span class="linenos">380</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.roll-381"><a href="#Corr.roll-381"><span class="linenos">381</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">roll</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">),</span> <span class="n">dt</span><span class="p">)))</span>
+    <a class="headerlink" href="#Corr.roll"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.roll-374"><a href="#Corr.roll-374"><span class="linenos">374</span></a>    <span class="k">def</span> <span class="nf">roll</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">dt</span><span class="p">):</span>
+</span><span id="Corr.roll-375"><a href="#Corr.roll-375"><span class="linenos">375</span></a>        <span class="sd">&quot;&quot;&quot;Periodically shift the correlator by dt timeslices</span>
+</span><span id="Corr.roll-376"><a href="#Corr.roll-376"><span class="linenos">376</span></a>
+</span><span id="Corr.roll-377"><a href="#Corr.roll-377"><span class="linenos">377</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.roll-378"><a href="#Corr.roll-378"><span class="linenos">378</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.roll-379"><a href="#Corr.roll-379"><span class="linenos">379</span></a><span class="sd">        dt : int</span>
+</span><span id="Corr.roll-380"><a href="#Corr.roll-380"><span class="linenos">380</span></a><span class="sd">            number of timeslices</span>
+</span><span id="Corr.roll-381"><a href="#Corr.roll-381"><span class="linenos">381</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.roll-382"><a href="#Corr.roll-382"><span class="linenos">382</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">roll</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">),</span> <span class="n">dt</span><span class="p">)))</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Periodically shift the correlator by dt timeslices</p>
 
@@ -3293,21 +3294,21 @@ number of timeslices</li>
 
                             </div>
                             <div id="Corr.reverse" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.reverse">#&nbsp;&nbsp</a>
+                                        <input id="Corr.reverse-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">reverse</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.reverse-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">reverse</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.reverse-383"><a href="#Corr.reverse-383"><span class="linenos">383</span></a>    <span class="k">def</span> <span class="nf">reverse</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.reverse-384"><a href="#Corr.reverse-384"><span class="linenos">384</span></a>        <span class="sd">&quot;&quot;&quot;Reverse the time ordering of the Corr&quot;&quot;&quot;</span>
-</span><span id="Corr.reverse-385"><a href="#Corr.reverse-385"><span class="linenos">385</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[::</span> <span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+    <a class="headerlink" href="#Corr.reverse"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.reverse-384"><a href="#Corr.reverse-384"><span class="linenos">384</span></a>    <span class="k">def</span> <span class="nf">reverse</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.reverse-385"><a href="#Corr.reverse-385"><span class="linenos">385</span></a>        <span class="sd">&quot;&quot;&quot;Reverse the time ordering of the Corr&quot;&quot;&quot;</span>
+</span><span id="Corr.reverse-386"><a href="#Corr.reverse-386"><span class="linenos">386</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[::</span> <span class="o">-</span><span class="mi">1</span><span class="p">])</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Reverse the time ordering of the Corr</p>
 </div>
@@ -3315,35 +3316,35 @@ number of timeslices</li>
 
                             </div>
                             <div id="Corr.thin" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.thin">#&nbsp;&nbsp</a>
+                                        <input id="Corr.thin-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">thin</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">spacing</span><span class="o">=</span><span class="mi">2</span>, </span><span class="param"><span class="n">offset</span><span class="o">=</span><span class="mi">0</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.thin-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">thin</span><span class="signature">(self, spacing=2, offset=0)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.thin-387"><a href="#Corr.thin-387"><span class="linenos">387</span></a>    <span class="k">def</span> <span class="nf">thin</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">spacing</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">offset</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span>
-</span><span id="Corr.thin-388"><a href="#Corr.thin-388"><span class="linenos">388</span></a>        <span class="sd">&quot;&quot;&quot;Thin out a correlator to suppress correlations</span>
-</span><span id="Corr.thin-389"><a href="#Corr.thin-389"><span class="linenos">389</span></a>
-</span><span id="Corr.thin-390"><a href="#Corr.thin-390"><span class="linenos">390</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.thin-391"><a href="#Corr.thin-391"><span class="linenos">391</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.thin-392"><a href="#Corr.thin-392"><span class="linenos">392</span></a><span class="sd">        spacing : int</span>
-</span><span id="Corr.thin-393"><a href="#Corr.thin-393"><span class="linenos">393</span></a><span class="sd">            Keep only every &#39;spacing&#39;th entry of the correlator</span>
-</span><span id="Corr.thin-394"><a href="#Corr.thin-394"><span class="linenos">394</span></a><span class="sd">        offset : int</span>
-</span><span id="Corr.thin-395"><a href="#Corr.thin-395"><span class="linenos">395</span></a><span class="sd">            Offset the equal spacing</span>
-</span><span id="Corr.thin-396"><a href="#Corr.thin-396"><span class="linenos">396</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.thin-397"><a href="#Corr.thin-397"><span class="linenos">397</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.thin-398"><a href="#Corr.thin-398"><span class="linenos">398</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr.thin-399"><a href="#Corr.thin-399"><span class="linenos">399</span></a>            <span class="k">if</span> <span class="p">(</span><span class="n">offset</span> <span class="o">+</span> <span class="n">t</span><span class="p">)</span> <span class="o">%</span> <span class="n">spacing</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Corr.thin-400"><a href="#Corr.thin-400"><span class="linenos">400</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.thin-401"><a href="#Corr.thin-401"><span class="linenos">401</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.thin-402"><a href="#Corr.thin-402"><span class="linenos">402</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="Corr.thin-403"><a href="#Corr.thin-403"><span class="linenos">403</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.thin"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.thin-388"><a href="#Corr.thin-388"><span class="linenos">388</span></a>    <span class="k">def</span> <span class="nf">thin</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">spacing</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">offset</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span>
+</span><span id="Corr.thin-389"><a href="#Corr.thin-389"><span class="linenos">389</span></a>        <span class="sd">&quot;&quot;&quot;Thin out a correlator to suppress correlations</span>
+</span><span id="Corr.thin-390"><a href="#Corr.thin-390"><span class="linenos">390</span></a>
+</span><span id="Corr.thin-391"><a href="#Corr.thin-391"><span class="linenos">391</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.thin-392"><a href="#Corr.thin-392"><span class="linenos">392</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.thin-393"><a href="#Corr.thin-393"><span class="linenos">393</span></a><span class="sd">        spacing : int</span>
+</span><span id="Corr.thin-394"><a href="#Corr.thin-394"><span class="linenos">394</span></a><span class="sd">            Keep only every &#39;spacing&#39;th entry of the correlator</span>
+</span><span id="Corr.thin-395"><a href="#Corr.thin-395"><span class="linenos">395</span></a><span class="sd">        offset : int</span>
+</span><span id="Corr.thin-396"><a href="#Corr.thin-396"><span class="linenos">396</span></a><span class="sd">            Offset the equal spacing</span>
+</span><span id="Corr.thin-397"><a href="#Corr.thin-397"><span class="linenos">397</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.thin-398"><a href="#Corr.thin-398"><span class="linenos">398</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.thin-399"><a href="#Corr.thin-399"><span class="linenos">399</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr.thin-400"><a href="#Corr.thin-400"><span class="linenos">400</span></a>            <span class="k">if</span> <span class="p">(</span><span class="n">offset</span> <span class="o">+</span> <span class="n">t</span><span class="p">)</span> <span class="o">%</span> <span class="n">spacing</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Corr.thin-401"><a href="#Corr.thin-401"><span class="linenos">401</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.thin-402"><a href="#Corr.thin-402"><span class="linenos">402</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.thin-403"><a href="#Corr.thin-403"><span class="linenos">403</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="Corr.thin-404"><a href="#Corr.thin-404"><span class="linenos">404</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Thin out a correlator to suppress correlations</p>
 
@@ -3360,44 +3361,44 @@ Offset the equal spacing</li>
 
                             </div>
                             <div id="Corr.correlate" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.correlate">#&nbsp;&nbsp</a>
+                                        <input id="Corr.correlate-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">correlate</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">partner</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.correlate-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">correlate</span><span class="signature">(self, partner)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.correlate-405"><a href="#Corr.correlate-405"><span class="linenos">405</span></a>    <span class="k">def</span> <span class="nf">correlate</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">partner</span><span class="p">):</span>
-</span><span id="Corr.correlate-406"><a href="#Corr.correlate-406"><span class="linenos">406</span></a>        <span class="sd">&quot;&quot;&quot;Correlate the correlator with another correlator or Obs</span>
-</span><span id="Corr.correlate-407"><a href="#Corr.correlate-407"><span class="linenos">407</span></a>
-</span><span id="Corr.correlate-408"><a href="#Corr.correlate-408"><span class="linenos">408</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.correlate-409"><a href="#Corr.correlate-409"><span class="linenos">409</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.correlate-410"><a href="#Corr.correlate-410"><span class="linenos">410</span></a><span class="sd">        partner : Obs or Corr</span>
-</span><span id="Corr.correlate-411"><a href="#Corr.correlate-411"><span class="linenos">411</span></a><span class="sd">            partner to correlate the correlator with.</span>
-</span><span id="Corr.correlate-412"><a href="#Corr.correlate-412"><span class="linenos">412</span></a><span class="sd">            Can either be an Obs which is correlated with all entries of the</span>
-</span><span id="Corr.correlate-413"><a href="#Corr.correlate-413"><span class="linenos">413</span></a><span class="sd">            correlator or a Corr of same length.</span>
-</span><span id="Corr.correlate-414"><a href="#Corr.correlate-414"><span class="linenos">414</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.correlate-415"><a href="#Corr.correlate-415"><span class="linenos">415</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.correlate-416"><a href="#Corr.correlate-416"><span class="linenos">416</span></a>        <span class="k">for</span> <span class="n">x0</span><span class="p">,</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">):</span>
-</span><span id="Corr.correlate-417"><a href="#Corr.correlate-417"><span class="linenos">417</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr.correlate-418"><a href="#Corr.correlate-418"><span class="linenos">418</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.correlate-419"><a href="#Corr.correlate-419"><span class="linenos">419</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.correlate-420"><a href="#Corr.correlate-420"><span class="linenos">420</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="Corr.correlate-421"><a href="#Corr.correlate-421"><span class="linenos">421</span></a>                    <span class="k">if</span> <span class="n">partner</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x0</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr.correlate-422"><a href="#Corr.correlate-422"><span class="linenos">422</span></a>                        <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.correlate-423"><a href="#Corr.correlate-423"><span class="linenos">423</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.correlate-424"><a href="#Corr.correlate-424"><span class="linenos">424</span></a>                        <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">correlate</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">partner</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x0</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t_slice</span><span class="p">]))</span>
-</span><span id="Corr.correlate-425"><a href="#Corr.correlate-425"><span class="linenos">425</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>  <span class="c1"># Should this include CObs?</span>
-</span><span id="Corr.correlate-426"><a href="#Corr.correlate-426"><span class="linenos">426</span></a>                    <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">correlate</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">partner</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t_slice</span><span class="p">]))</span>
-</span><span id="Corr.correlate-427"><a href="#Corr.correlate-427"><span class="linenos">427</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.correlate-428"><a href="#Corr.correlate-428"><span class="linenos">428</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only correlate with an Obs or a Corr.&quot;</span><span class="p">)</span>
-</span><span id="Corr.correlate-429"><a href="#Corr.correlate-429"><span class="linenos">429</span></a>
-</span><span id="Corr.correlate-430"><a href="#Corr.correlate-430"><span class="linenos">430</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.correlate"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.correlate-406"><a href="#Corr.correlate-406"><span class="linenos">406</span></a>    <span class="k">def</span> <span class="nf">correlate</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">partner</span><span class="p">):</span>
+</span><span id="Corr.correlate-407"><a href="#Corr.correlate-407"><span class="linenos">407</span></a>        <span class="sd">&quot;&quot;&quot;Correlate the correlator with another correlator or Obs</span>
+</span><span id="Corr.correlate-408"><a href="#Corr.correlate-408"><span class="linenos">408</span></a>
+</span><span id="Corr.correlate-409"><a href="#Corr.correlate-409"><span class="linenos">409</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.correlate-410"><a href="#Corr.correlate-410"><span class="linenos">410</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.correlate-411"><a href="#Corr.correlate-411"><span class="linenos">411</span></a><span class="sd">        partner : Obs or Corr</span>
+</span><span id="Corr.correlate-412"><a href="#Corr.correlate-412"><span class="linenos">412</span></a><span class="sd">            partner to correlate the correlator with.</span>
+</span><span id="Corr.correlate-413"><a href="#Corr.correlate-413"><span class="linenos">413</span></a><span class="sd">            Can either be an Obs which is correlated with all entries of the</span>
+</span><span id="Corr.correlate-414"><a href="#Corr.correlate-414"><span class="linenos">414</span></a><span class="sd">            correlator or a Corr of same length.</span>
+</span><span id="Corr.correlate-415"><a href="#Corr.correlate-415"><span class="linenos">415</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.correlate-416"><a href="#Corr.correlate-416"><span class="linenos">416</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.correlate-417"><a href="#Corr.correlate-417"><span class="linenos">417</span></a>        <span class="k">for</span> <span class="n">x0</span><span class="p">,</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">):</span>
+</span><span id="Corr.correlate-418"><a href="#Corr.correlate-418"><span class="linenos">418</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr.correlate-419"><a href="#Corr.correlate-419"><span class="linenos">419</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.correlate-420"><a href="#Corr.correlate-420"><span class="linenos">420</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.correlate-421"><a href="#Corr.correlate-421"><span class="linenos">421</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="Corr.correlate-422"><a href="#Corr.correlate-422"><span class="linenos">422</span></a>                    <span class="k">if</span> <span class="n">partner</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x0</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr.correlate-423"><a href="#Corr.correlate-423"><span class="linenos">423</span></a>                        <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.correlate-424"><a href="#Corr.correlate-424"><span class="linenos">424</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.correlate-425"><a href="#Corr.correlate-425"><span class="linenos">425</span></a>                        <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">correlate</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">partner</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x0</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t_slice</span><span class="p">]))</span>
+</span><span id="Corr.correlate-426"><a href="#Corr.correlate-426"><span class="linenos">426</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>  <span class="c1"># Should this include CObs?</span>
+</span><span id="Corr.correlate-427"><a href="#Corr.correlate-427"><span class="linenos">427</span></a>                    <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">correlate</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">partner</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t_slice</span><span class="p">]))</span>
+</span><span id="Corr.correlate-428"><a href="#Corr.correlate-428"><span class="linenos">428</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.correlate-429"><a href="#Corr.correlate-429"><span class="linenos">429</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Can only correlate with an Obs or a Corr.&quot;</span><span class="p">)</span>
+</span><span id="Corr.correlate-430"><a href="#Corr.correlate-430"><span class="linenos">430</span></a>
+</span><span id="Corr.correlate-431"><a href="#Corr.correlate-431"><span class="linenos">431</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Correlate the correlator with another correlator or Obs</p>
 
@@ -3414,38 +3415,38 @@ correlator or a Corr of same length.</li>
 
                             </div>
                             <div id="Corr.reweight" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.reweight">#&nbsp;&nbsp</a>
+                                        <input id="Corr.reweight-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">reweight</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">weight</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.reweight-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">reweight</span><span class="signature">(self, weight, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.reweight-432"><a href="#Corr.reweight-432"><span class="linenos">432</span></a>    <span class="k">def</span> <span class="nf">reweight</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">weight</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Corr.reweight-433"><a href="#Corr.reweight-433"><span class="linenos">433</span></a>        <span class="sd">&quot;&quot;&quot;Reweight the correlator.</span>
-</span><span id="Corr.reweight-434"><a href="#Corr.reweight-434"><span class="linenos">434</span></a>
-</span><span id="Corr.reweight-435"><a href="#Corr.reweight-435"><span class="linenos">435</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.reweight-436"><a href="#Corr.reweight-436"><span class="linenos">436</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.reweight-437"><a href="#Corr.reweight-437"><span class="linenos">437</span></a><span class="sd">        weight : Obs</span>
-</span><span id="Corr.reweight-438"><a href="#Corr.reweight-438"><span class="linenos">438</span></a><span class="sd">            Reweighting factor. An Observable that has to be defined on a superset of the</span>
-</span><span id="Corr.reweight-439"><a href="#Corr.reweight-439"><span class="linenos">439</span></a><span class="sd">            configurations in obs[i].idl for all i.</span>
-</span><span id="Corr.reweight-440"><a href="#Corr.reweight-440"><span class="linenos">440</span></a><span class="sd">        all_configs : bool</span>
-</span><span id="Corr.reweight-441"><a href="#Corr.reweight-441"><span class="linenos">441</span></a><span class="sd">            if True, the reweighted observables are normalized by the average of</span>
-</span><span id="Corr.reweight-442"><a href="#Corr.reweight-442"><span class="linenos">442</span></a><span class="sd">            the reweighting factor on all configurations in weight.idl and not</span>
-</span><span id="Corr.reweight-443"><a href="#Corr.reweight-443"><span class="linenos">443</span></a><span class="sd">            on the configurations in obs[i].idl.</span>
-</span><span id="Corr.reweight-444"><a href="#Corr.reweight-444"><span class="linenos">444</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.reweight-445"><a href="#Corr.reweight-445"><span class="linenos">445</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.reweight-446"><a href="#Corr.reweight-446"><span class="linenos">446</span></a>        <span class="k">for</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">:</span>
-</span><span id="Corr.reweight-447"><a href="#Corr.reweight-447"><span class="linenos">447</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr.reweight-448"><a href="#Corr.reweight-448"><span class="linenos">448</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.reweight-449"><a href="#Corr.reweight-449"><span class="linenos">449</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.reweight-450"><a href="#Corr.reweight-450"><span class="linenos">450</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">reweight</span><span class="p">(</span><span class="n">weight</span><span class="p">,</span> <span class="n">t_slice</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)))</span>
-</span><span id="Corr.reweight-451"><a href="#Corr.reweight-451"><span class="linenos">451</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.reweight"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.reweight-433"><a href="#Corr.reweight-433"><span class="linenos">433</span></a>    <span class="k">def</span> <span class="nf">reweight</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">weight</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Corr.reweight-434"><a href="#Corr.reweight-434"><span class="linenos">434</span></a>        <span class="sd">&quot;&quot;&quot;Reweight the correlator.</span>
+</span><span id="Corr.reweight-435"><a href="#Corr.reweight-435"><span class="linenos">435</span></a>
+</span><span id="Corr.reweight-436"><a href="#Corr.reweight-436"><span class="linenos">436</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.reweight-437"><a href="#Corr.reweight-437"><span class="linenos">437</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.reweight-438"><a href="#Corr.reweight-438"><span class="linenos">438</span></a><span class="sd">        weight : Obs</span>
+</span><span id="Corr.reweight-439"><a href="#Corr.reweight-439"><span class="linenos">439</span></a><span class="sd">            Reweighting factor. An Observable that has to be defined on a superset of the</span>
+</span><span id="Corr.reweight-440"><a href="#Corr.reweight-440"><span class="linenos">440</span></a><span class="sd">            configurations in obs[i].idl for all i.</span>
+</span><span id="Corr.reweight-441"><a href="#Corr.reweight-441"><span class="linenos">441</span></a><span class="sd">        all_configs : bool</span>
+</span><span id="Corr.reweight-442"><a href="#Corr.reweight-442"><span class="linenos">442</span></a><span class="sd">            if True, the reweighted observables are normalized by the average of</span>
+</span><span id="Corr.reweight-443"><a href="#Corr.reweight-443"><span class="linenos">443</span></a><span class="sd">            the reweighting factor on all configurations in weight.idl and not</span>
+</span><span id="Corr.reweight-444"><a href="#Corr.reweight-444"><span class="linenos">444</span></a><span class="sd">            on the configurations in obs[i].idl.</span>
+</span><span id="Corr.reweight-445"><a href="#Corr.reweight-445"><span class="linenos">445</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.reweight-446"><a href="#Corr.reweight-446"><span class="linenos">446</span></a>        <span class="n">new_content</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.reweight-447"><a href="#Corr.reweight-447"><span class="linenos">447</span></a>        <span class="k">for</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">:</span>
+</span><span id="Corr.reweight-448"><a href="#Corr.reweight-448"><span class="linenos">448</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr.reweight-449"><a href="#Corr.reweight-449"><span class="linenos">449</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.reweight-450"><a href="#Corr.reweight-450"><span class="linenos">450</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.reweight-451"><a href="#Corr.reweight-451"><span class="linenos">451</span></a>                <span class="n">new_content</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">reweight</span><span class="p">(</span><span class="n">weight</span><span class="p">,</span> <span class="n">t_slice</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)))</span>
+</span><span id="Corr.reweight-452"><a href="#Corr.reweight-452"><span class="linenos">452</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">new_content</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Reweight the correlator.</p>
 
@@ -3465,45 +3466,45 @@ on the configurations in obs[i].idl.</li>
 
                             </div>
                             <div id="Corr.T_symmetry" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.T_symmetry">#&nbsp;&nbsp</a>
+                                        <input id="Corr.T_symmetry-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">T_symmetry</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">partner</span>, </span><span class="param"><span class="n">parity</span><span class="o">=</span><span class="mi">1</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.T_symmetry-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">T_symmetry</span><span class="signature">(self, partner, parity=1)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.T_symmetry-453"><a href="#Corr.T_symmetry-453"><span class="linenos">453</span></a>    <span class="k">def</span> <span class="nf">T_symmetry</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">partner</span><span class="p">,</span> <span class="n">parity</span><span class="o">=+</span><span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr.T_symmetry-454"><a href="#Corr.T_symmetry-454"><span class="linenos">454</span></a>        <span class="sd">&quot;&quot;&quot;Return the time symmetry average of the correlator and its partner</span>
-</span><span id="Corr.T_symmetry-455"><a href="#Corr.T_symmetry-455"><span class="linenos">455</span></a>
-</span><span id="Corr.T_symmetry-456"><a href="#Corr.T_symmetry-456"><span class="linenos">456</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.T_symmetry-457"><a href="#Corr.T_symmetry-457"><span class="linenos">457</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.T_symmetry-458"><a href="#Corr.T_symmetry-458"><span class="linenos">458</span></a><span class="sd">        partner : Corr</span>
-</span><span id="Corr.T_symmetry-459"><a href="#Corr.T_symmetry-459"><span class="linenos">459</span></a><span class="sd">            Time symmetry partner of the Corr</span>
-</span><span id="Corr.T_symmetry-460"><a href="#Corr.T_symmetry-460"><span class="linenos">460</span></a><span class="sd">        partity : int</span>
-</span><span id="Corr.T_symmetry-461"><a href="#Corr.T_symmetry-461"><span class="linenos">461</span></a><span class="sd">            Parity quantum number of the correlator, can be +1 or -1</span>
-</span><span id="Corr.T_symmetry-462"><a href="#Corr.T_symmetry-462"><span class="linenos">462</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.T_symmetry-463"><a href="#Corr.T_symmetry-463"><span class="linenos">463</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="Corr.T_symmetry-464"><a href="#Corr.T_symmetry-464"><span class="linenos">464</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;T partner has to be a Corr object.&quot;</span><span class="p">)</span>
-</span><span id="Corr.T_symmetry-465"><a href="#Corr.T_symmetry-465"><span class="linenos">465</span></a>        <span class="k">if</span> <span class="n">parity</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="o">+</span><span class="mi">1</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">]:</span>
-</span><span id="Corr.T_symmetry-466"><a href="#Corr.T_symmetry-466"><span class="linenos">466</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Parity has to be +1 or -1.&quot;</span><span class="p">)</span>
-</span><span id="Corr.T_symmetry-467"><a href="#Corr.T_symmetry-467"><span class="linenos">467</span></a>        <span class="n">T_partner</span> <span class="o">=</span> <span class="n">parity</span> <span class="o">*</span> <span class="n">partner</span><span class="o">.</span><span class="n">reverse</span><span class="p">()</span>
-</span><span id="Corr.T_symmetry-468"><a href="#Corr.T_symmetry-468"><span class="linenos">468</span></a>
-</span><span id="Corr.T_symmetry-469"><a href="#Corr.T_symmetry-469"><span class="linenos">469</span></a>        <span class="n">t_slices</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.T_symmetry-470"><a href="#Corr.T_symmetry-470"><span class="linenos">470</span></a>        <span class="n">test</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">T_partner</span><span class="p">)</span>
-</span><span id="Corr.T_symmetry-471"><a href="#Corr.T_symmetry-471"><span class="linenos">471</span></a>        <span class="n">test</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="Corr.T_symmetry-472"><a href="#Corr.T_symmetry-472"><span class="linenos">472</span></a>        <span class="k">for</span> <span class="n">x0</span><span class="p">,</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">test</span><span class="o">.</span><span class="n">content</span><span class="p">):</span>
-</span><span id="Corr.T_symmetry-473"><a href="#Corr.T_symmetry-473"><span class="linenos">473</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr.T_symmetry-474"><a href="#Corr.T_symmetry-474"><span class="linenos">474</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">t_slice</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">is_zero_within_error</span><span class="p">(</span><span class="mi">5</span><span class="p">):</span>
-</span><span id="Corr.T_symmetry-475"><a href="#Corr.T_symmetry-475"><span class="linenos">475</span></a>                    <span class="n">t_slices</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span>
-</span><span id="Corr.T_symmetry-476"><a href="#Corr.T_symmetry-476"><span class="linenos">476</span></a>        <span class="k">if</span> <span class="n">t_slices</span><span class="p">:</span>
-</span><span id="Corr.T_symmetry-477"><a href="#Corr.T_symmetry-477"><span class="linenos">477</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;T symmetry partners do not agree within 5 sigma on time slices &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">t_slices</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="Corr.T_symmetry-478"><a href="#Corr.T_symmetry-478"><span class="linenos">478</span></a>
-</span><span id="Corr.T_symmetry-479"><a href="#Corr.T_symmetry-479"><span class="linenos">479</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">+</span> <span class="n">T_partner</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span>
+    <a class="headerlink" href="#Corr.T_symmetry"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.T_symmetry-454"><a href="#Corr.T_symmetry-454"><span class="linenos">454</span></a>    <span class="k">def</span> <span class="nf">T_symmetry</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">partner</span><span class="p">,</span> <span class="n">parity</span><span class="o">=+</span><span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr.T_symmetry-455"><a href="#Corr.T_symmetry-455"><span class="linenos">455</span></a>        <span class="sd">&quot;&quot;&quot;Return the time symmetry average of the correlator and its partner</span>
+</span><span id="Corr.T_symmetry-456"><a href="#Corr.T_symmetry-456"><span class="linenos">456</span></a>
+</span><span id="Corr.T_symmetry-457"><a href="#Corr.T_symmetry-457"><span class="linenos">457</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.T_symmetry-458"><a href="#Corr.T_symmetry-458"><span class="linenos">458</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.T_symmetry-459"><a href="#Corr.T_symmetry-459"><span class="linenos">459</span></a><span class="sd">        partner : Corr</span>
+</span><span id="Corr.T_symmetry-460"><a href="#Corr.T_symmetry-460"><span class="linenos">460</span></a><span class="sd">            Time symmetry partner of the Corr</span>
+</span><span id="Corr.T_symmetry-461"><a href="#Corr.T_symmetry-461"><span class="linenos">461</span></a><span class="sd">        partity : int</span>
+</span><span id="Corr.T_symmetry-462"><a href="#Corr.T_symmetry-462"><span class="linenos">462</span></a><span class="sd">            Parity quantum number of the correlator, can be +1 or -1</span>
+</span><span id="Corr.T_symmetry-463"><a href="#Corr.T_symmetry-463"><span class="linenos">463</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.T_symmetry-464"><a href="#Corr.T_symmetry-464"><span class="linenos">464</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">partner</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="Corr.T_symmetry-465"><a href="#Corr.T_symmetry-465"><span class="linenos">465</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;T partner has to be a Corr object.&quot;</span><span class="p">)</span>
+</span><span id="Corr.T_symmetry-466"><a href="#Corr.T_symmetry-466"><span class="linenos">466</span></a>        <span class="k">if</span> <span class="n">parity</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="o">+</span><span class="mi">1</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">]:</span>
+</span><span id="Corr.T_symmetry-467"><a href="#Corr.T_symmetry-467"><span class="linenos">467</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Parity has to be +1 or -1.&quot;</span><span class="p">)</span>
+</span><span id="Corr.T_symmetry-468"><a href="#Corr.T_symmetry-468"><span class="linenos">468</span></a>        <span class="n">T_partner</span> <span class="o">=</span> <span class="n">parity</span> <span class="o">*</span> <span class="n">partner</span><span class="o">.</span><span class="n">reverse</span><span class="p">()</span>
+</span><span id="Corr.T_symmetry-469"><a href="#Corr.T_symmetry-469"><span class="linenos">469</span></a>
+</span><span id="Corr.T_symmetry-470"><a href="#Corr.T_symmetry-470"><span class="linenos">470</span></a>        <span class="n">t_slices</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.T_symmetry-471"><a href="#Corr.T_symmetry-471"><span class="linenos">471</span></a>        <span class="n">test</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">T_partner</span><span class="p">)</span>
+</span><span id="Corr.T_symmetry-472"><a href="#Corr.T_symmetry-472"><span class="linenos">472</span></a>        <span class="n">test</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="Corr.T_symmetry-473"><a href="#Corr.T_symmetry-473"><span class="linenos">473</span></a>        <span class="k">for</span> <span class="n">x0</span><span class="p">,</span> <span class="n">t_slice</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">test</span><span class="o">.</span><span class="n">content</span><span class="p">):</span>
+</span><span id="Corr.T_symmetry-474"><a href="#Corr.T_symmetry-474"><span class="linenos">474</span></a>            <span class="k">if</span> <span class="n">t_slice</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr.T_symmetry-475"><a href="#Corr.T_symmetry-475"><span class="linenos">475</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">t_slice</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">is_zero_within_error</span><span class="p">(</span><span class="mi">5</span><span class="p">):</span>
+</span><span id="Corr.T_symmetry-476"><a href="#Corr.T_symmetry-476"><span class="linenos">476</span></a>                    <span class="n">t_slices</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span>
+</span><span id="Corr.T_symmetry-477"><a href="#Corr.T_symmetry-477"><span class="linenos">477</span></a>        <span class="k">if</span> <span class="n">t_slices</span><span class="p">:</span>
+</span><span id="Corr.T_symmetry-478"><a href="#Corr.T_symmetry-478"><span class="linenos">478</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;T symmetry partners do not agree within 5 sigma on time slices &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">t_slices</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="Corr.T_symmetry-479"><a href="#Corr.T_symmetry-479"><span class="linenos">479</span></a>
+</span><span id="Corr.T_symmetry-480"><a href="#Corr.T_symmetry-480"><span class="linenos">480</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">+</span> <span class="n">T_partner</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Return the time symmetry average of the correlator and its partner</p>
 
@@ -3520,69 +3521,69 @@ Parity quantum number of the correlator, can be +1 or -1</li>
 
                             </div>
                             <div id="Corr.deriv" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.deriv">#&nbsp;&nbsp</a>
+                                        <input id="Corr.deriv-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">deriv</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">variant</span><span class="o">=</span><span class="s1">&#39;symmetric&#39;</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.deriv-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">deriv</span><span class="signature">(self, variant=&#39;symmetric&#39;)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.deriv-481"><a href="#Corr.deriv-481"><span class="linenos">481</span></a>    <span class="k">def</span> <span class="nf">deriv</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s2">&quot;symmetric&quot;</span><span class="p">):</span>
-</span><span id="Corr.deriv-482"><a href="#Corr.deriv-482"><span class="linenos">482</span></a>        <span class="sd">&quot;&quot;&quot;Return the first derivative of the correlator with respect to x0.</span>
-</span><span id="Corr.deriv-483"><a href="#Corr.deriv-483"><span class="linenos">483</span></a>
-</span><span id="Corr.deriv-484"><a href="#Corr.deriv-484"><span class="linenos">484</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.deriv-485"><a href="#Corr.deriv-485"><span class="linenos">485</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.deriv-486"><a href="#Corr.deriv-486"><span class="linenos">486</span></a><span class="sd">        variant : str</span>
-</span><span id="Corr.deriv-487"><a href="#Corr.deriv-487"><span class="linenos">487</span></a><span class="sd">            decides which definition of the finite differences derivative is used.</span>
-</span><span id="Corr.deriv-488"><a href="#Corr.deriv-488"><span class="linenos">488</span></a><span class="sd">            Available choice: symmetric, forward, backward, improved, default: symmetric</span>
-</span><span id="Corr.deriv-489"><a href="#Corr.deriv-489"><span class="linenos">489</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.deriv-490"><a href="#Corr.deriv-490"><span class="linenos">490</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;symmetric&quot;</span><span class="p">:</span>
-</span><span id="Corr.deriv-491"><a href="#Corr.deriv-491"><span class="linenos">491</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.deriv-492"><a href="#Corr.deriv-492"><span class="linenos">492</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr.deriv-493"><a href="#Corr.deriv-493"><span class="linenos">493</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.deriv-494"><a href="#Corr.deriv-494"><span class="linenos">494</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.deriv-495"><a href="#Corr.deriv-495"><span class="linenos">495</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.deriv-496"><a href="#Corr.deriv-496"><span class="linenos">496</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]))</span>
-</span><span id="Corr.deriv-497"><a href="#Corr.deriv-497"><span class="linenos">497</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr.deriv-498"><a href="#Corr.deriv-498"><span class="linenos">498</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Derivative is undefined at all timeslices&#39;</span><span class="p">)</span>
-</span><span id="Corr.deriv-499"><a href="#Corr.deriv-499"><span class="linenos">499</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr.deriv-500"><a href="#Corr.deriv-500"><span class="linenos">500</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;forward&quot;</span><span class="p">:</span>
-</span><span id="Corr.deriv-501"><a href="#Corr.deriv-501"><span class="linenos">501</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.deriv-502"><a href="#Corr.deriv-502"><span class="linenos">502</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr.deriv-503"><a href="#Corr.deriv-503"><span class="linenos">503</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.deriv-504"><a href="#Corr.deriv-504"><span class="linenos">504</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.deriv-505"><a href="#Corr.deriv-505"><span class="linenos">505</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.deriv-506"><a href="#Corr.deriv-506"><span class="linenos">506</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
-</span><span id="Corr.deriv-507"><a href="#Corr.deriv-507"><span class="linenos">507</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr.deriv-508"><a href="#Corr.deriv-508"><span class="linenos">508</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="Corr.deriv-509"><a href="#Corr.deriv-509"><span class="linenos">509</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr.deriv-510"><a href="#Corr.deriv-510"><span class="linenos">510</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;backward&quot;</span><span class="p">:</span>
-</span><span id="Corr.deriv-511"><a href="#Corr.deriv-511"><span class="linenos">511</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.deriv-512"><a href="#Corr.deriv-512"><span class="linenos">512</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr.deriv-513"><a href="#Corr.deriv-513"><span class="linenos">513</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.deriv-514"><a href="#Corr.deriv-514"><span class="linenos">514</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.deriv-515"><a href="#Corr.deriv-515"><span class="linenos">515</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.deriv-516"><a href="#Corr.deriv-516"><span class="linenos">516</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr.deriv-517"><a href="#Corr.deriv-517"><span class="linenos">517</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr.deriv-518"><a href="#Corr.deriv-518"><span class="linenos">518</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="Corr.deriv-519"><a href="#Corr.deriv-519"><span class="linenos">519</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">])</span>
-</span><span id="Corr.deriv-520"><a href="#Corr.deriv-520"><span class="linenos">520</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;improved&quot;</span><span class="p">:</span>
-</span><span id="Corr.deriv-521"><a href="#Corr.deriv-521"><span class="linenos">521</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.deriv-522"><a href="#Corr.deriv-522"><span class="linenos">522</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="Corr.deriv-523"><a href="#Corr.deriv-523"><span class="linenos">523</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.deriv-524"><a href="#Corr.deriv-524"><span class="linenos">524</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.deriv-525"><a href="#Corr.deriv-525"><span class="linenos">525</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.deriv-526"><a href="#Corr.deriv-526"><span class="linenos">526</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="mi">8</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">8</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]))</span>
-</span><span id="Corr.deriv-527"><a href="#Corr.deriv-527"><span class="linenos">527</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr.deriv-528"><a href="#Corr.deriv-528"><span class="linenos">528</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Derivative is undefined at all timeslices&#39;</span><span class="p">)</span>
-</span><span id="Corr.deriv-529"><a href="#Corr.deriv-529"><span class="linenos">529</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="Corr.deriv-530"><a href="#Corr.deriv-530"><span class="linenos">530</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.deriv-531"><a href="#Corr.deriv-531"><span class="linenos">531</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown variant.&quot;</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.deriv"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.deriv-482"><a href="#Corr.deriv-482"><span class="linenos">482</span></a>    <span class="k">def</span> <span class="nf">deriv</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s2">&quot;symmetric&quot;</span><span class="p">):</span>
+</span><span id="Corr.deriv-483"><a href="#Corr.deriv-483"><span class="linenos">483</span></a>        <span class="sd">&quot;&quot;&quot;Return the first derivative of the correlator with respect to x0.</span>
+</span><span id="Corr.deriv-484"><a href="#Corr.deriv-484"><span class="linenos">484</span></a>
+</span><span id="Corr.deriv-485"><a href="#Corr.deriv-485"><span class="linenos">485</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.deriv-486"><a href="#Corr.deriv-486"><span class="linenos">486</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.deriv-487"><a href="#Corr.deriv-487"><span class="linenos">487</span></a><span class="sd">        variant : str</span>
+</span><span id="Corr.deriv-488"><a href="#Corr.deriv-488"><span class="linenos">488</span></a><span class="sd">            decides which definition of the finite differences derivative is used.</span>
+</span><span id="Corr.deriv-489"><a href="#Corr.deriv-489"><span class="linenos">489</span></a><span class="sd">            Available choice: symmetric, forward, backward, improved, default: symmetric</span>
+</span><span id="Corr.deriv-490"><a href="#Corr.deriv-490"><span class="linenos">490</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.deriv-491"><a href="#Corr.deriv-491"><span class="linenos">491</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;symmetric&quot;</span><span class="p">:</span>
+</span><span id="Corr.deriv-492"><a href="#Corr.deriv-492"><span class="linenos">492</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.deriv-493"><a href="#Corr.deriv-493"><span class="linenos">493</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr.deriv-494"><a href="#Corr.deriv-494"><span class="linenos">494</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.deriv-495"><a href="#Corr.deriv-495"><span class="linenos">495</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.deriv-496"><a href="#Corr.deriv-496"><span class="linenos">496</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.deriv-497"><a href="#Corr.deriv-497"><span class="linenos">497</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]))</span>
+</span><span id="Corr.deriv-498"><a href="#Corr.deriv-498"><span class="linenos">498</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr.deriv-499"><a href="#Corr.deriv-499"><span class="linenos">499</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Derivative is undefined at all timeslices&#39;</span><span class="p">)</span>
+</span><span id="Corr.deriv-500"><a href="#Corr.deriv-500"><span class="linenos">500</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr.deriv-501"><a href="#Corr.deriv-501"><span class="linenos">501</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;forward&quot;</span><span class="p">:</span>
+</span><span id="Corr.deriv-502"><a href="#Corr.deriv-502"><span class="linenos">502</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.deriv-503"><a href="#Corr.deriv-503"><span class="linenos">503</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr.deriv-504"><a href="#Corr.deriv-504"><span class="linenos">504</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.deriv-505"><a href="#Corr.deriv-505"><span class="linenos">505</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.deriv-506"><a href="#Corr.deriv-506"><span class="linenos">506</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.deriv-507"><a href="#Corr.deriv-507"><span class="linenos">507</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">])</span>
+</span><span id="Corr.deriv-508"><a href="#Corr.deriv-508"><span class="linenos">508</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr.deriv-509"><a href="#Corr.deriv-509"><span class="linenos">509</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="Corr.deriv-510"><a href="#Corr.deriv-510"><span class="linenos">510</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr.deriv-511"><a href="#Corr.deriv-511"><span class="linenos">511</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;backward&quot;</span><span class="p">:</span>
+</span><span id="Corr.deriv-512"><a href="#Corr.deriv-512"><span class="linenos">512</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.deriv-513"><a href="#Corr.deriv-513"><span class="linenos">513</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr.deriv-514"><a href="#Corr.deriv-514"><span class="linenos">514</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.deriv-515"><a href="#Corr.deriv-515"><span class="linenos">515</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.deriv-516"><a href="#Corr.deriv-516"><span class="linenos">516</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.deriv-517"><a href="#Corr.deriv-517"><span class="linenos">517</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr.deriv-518"><a href="#Corr.deriv-518"><span class="linenos">518</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr.deriv-519"><a href="#Corr.deriv-519"><span class="linenos">519</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="Corr.deriv-520"><a href="#Corr.deriv-520"><span class="linenos">520</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">])</span>
+</span><span id="Corr.deriv-521"><a href="#Corr.deriv-521"><span class="linenos">521</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;improved&quot;</span><span class="p">:</span>
+</span><span id="Corr.deriv-522"><a href="#Corr.deriv-522"><span class="linenos">522</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.deriv-523"><a href="#Corr.deriv-523"><span class="linenos">523</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="Corr.deriv-524"><a href="#Corr.deriv-524"><span class="linenos">524</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.deriv-525"><a href="#Corr.deriv-525"><span class="linenos">525</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.deriv-526"><a href="#Corr.deriv-526"><span class="linenos">526</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.deriv-527"><a href="#Corr.deriv-527"><span class="linenos">527</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="mi">8</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">8</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]))</span>
+</span><span id="Corr.deriv-528"><a href="#Corr.deriv-528"><span class="linenos">528</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr.deriv-529"><a href="#Corr.deriv-529"><span class="linenos">529</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Derivative is undefined at all timeslices&#39;</span><span class="p">)</span>
+</span><span id="Corr.deriv-530"><a href="#Corr.deriv-530"><span class="linenos">530</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="Corr.deriv-531"><a href="#Corr.deriv-531"><span class="linenos">531</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.deriv-532"><a href="#Corr.deriv-532"><span class="linenos">532</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown variant.&quot;</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Return the first derivative of the correlator with respect to x0.</p>
 
@@ -3598,49 +3599,49 @@ Available choice: symmetric, forward, backward, improved, default: symmetric</li
 
                             </div>
                             <div id="Corr.second_deriv" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.second_deriv">#&nbsp;&nbsp</a>
+                                        <input id="Corr.second_deriv-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">second_deriv</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">variant</span><span class="o">=</span><span class="s1">&#39;symmetric&#39;</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.second_deriv-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">second_deriv</span><span class="signature">(self, variant=&#39;symmetric&#39;)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.second_deriv-533"><a href="#Corr.second_deriv-533"><span class="linenos">533</span></a>    <span class="k">def</span> <span class="nf">second_deriv</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s2">&quot;symmetric&quot;</span><span class="p">):</span>
-</span><span id="Corr.second_deriv-534"><a href="#Corr.second_deriv-534"><span class="linenos">534</span></a>        <span class="sd">&quot;&quot;&quot;Return the second derivative of the correlator with respect to x0.</span>
-</span><span id="Corr.second_deriv-535"><a href="#Corr.second_deriv-535"><span class="linenos">535</span></a>
-</span><span id="Corr.second_deriv-536"><a href="#Corr.second_deriv-536"><span class="linenos">536</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.second_deriv-537"><a href="#Corr.second_deriv-537"><span class="linenos">537</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.second_deriv-538"><a href="#Corr.second_deriv-538"><span class="linenos">538</span></a><span class="sd">        variant : str</span>
-</span><span id="Corr.second_deriv-539"><a href="#Corr.second_deriv-539"><span class="linenos">539</span></a><span class="sd">            decides which definition of the finite differences derivative is used.</span>
-</span><span id="Corr.second_deriv-540"><a href="#Corr.second_deriv-540"><span class="linenos">540</span></a><span class="sd">            Available choice: symmetric, improved, default: symmetric</span>
-</span><span id="Corr.second_deriv-541"><a href="#Corr.second_deriv-541"><span class="linenos">541</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.second_deriv-542"><a href="#Corr.second_deriv-542"><span class="linenos">542</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;symmetric&quot;</span><span class="p">:</span>
-</span><span id="Corr.second_deriv-543"><a href="#Corr.second_deriv-543"><span class="linenos">543</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.second_deriv-544"><a href="#Corr.second_deriv-544"><span class="linenos">544</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr.second_deriv-545"><a href="#Corr.second_deriv-545"><span class="linenos">545</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.second_deriv-546"><a href="#Corr.second_deriv-546"><span class="linenos">546</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.second_deriv-547"><a href="#Corr.second_deriv-547"><span class="linenos">547</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.second_deriv-548"><a href="#Corr.second_deriv-548"><span class="linenos">548</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]))</span>
-</span><span id="Corr.second_deriv-549"><a href="#Corr.second_deriv-549"><span class="linenos">549</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr.second_deriv-550"><a href="#Corr.second_deriv-550"><span class="linenos">550</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="Corr.second_deriv-551"><a href="#Corr.second_deriv-551"><span class="linenos">551</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr.second_deriv-552"><a href="#Corr.second_deriv-552"><span class="linenos">552</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;improved&quot;</span><span class="p">:</span>
-</span><span id="Corr.second_deriv-553"><a href="#Corr.second_deriv-553"><span class="linenos">553</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.second_deriv-554"><a href="#Corr.second_deriv-554"><span class="linenos">554</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="Corr.second_deriv-555"><a href="#Corr.second_deriv-555"><span class="linenos">555</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.second_deriv-556"><a href="#Corr.second_deriv-556"><span class="linenos">556</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.second_deriv-557"><a href="#Corr.second_deriv-557"><span class="linenos">557</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.second_deriv-558"><a href="#Corr.second_deriv-558"><span class="linenos">558</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="o">+</span> <span class="mi">16</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="mi">30</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="mi">16</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]))</span>
-</span><span id="Corr.second_deriv-559"><a href="#Corr.second_deriv-559"><span class="linenos">559</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr.second_deriv-560"><a href="#Corr.second_deriv-560"><span class="linenos">560</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="Corr.second_deriv-561"><a href="#Corr.second_deriv-561"><span class="linenos">561</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="Corr.second_deriv-562"><a href="#Corr.second_deriv-562"><span class="linenos">562</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.second_deriv-563"><a href="#Corr.second_deriv-563"><span class="linenos">563</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown variant.&quot;</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.second_deriv"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.second_deriv-534"><a href="#Corr.second_deriv-534"><span class="linenos">534</span></a>    <span class="k">def</span> <span class="nf">second_deriv</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s2">&quot;symmetric&quot;</span><span class="p">):</span>
+</span><span id="Corr.second_deriv-535"><a href="#Corr.second_deriv-535"><span class="linenos">535</span></a>        <span class="sd">&quot;&quot;&quot;Return the second derivative of the correlator with respect to x0.</span>
+</span><span id="Corr.second_deriv-536"><a href="#Corr.second_deriv-536"><span class="linenos">536</span></a>
+</span><span id="Corr.second_deriv-537"><a href="#Corr.second_deriv-537"><span class="linenos">537</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.second_deriv-538"><a href="#Corr.second_deriv-538"><span class="linenos">538</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.second_deriv-539"><a href="#Corr.second_deriv-539"><span class="linenos">539</span></a><span class="sd">        variant : str</span>
+</span><span id="Corr.second_deriv-540"><a href="#Corr.second_deriv-540"><span class="linenos">540</span></a><span class="sd">            decides which definition of the finite differences derivative is used.</span>
+</span><span id="Corr.second_deriv-541"><a href="#Corr.second_deriv-541"><span class="linenos">541</span></a><span class="sd">            Available choice: symmetric, improved, default: symmetric</span>
+</span><span id="Corr.second_deriv-542"><a href="#Corr.second_deriv-542"><span class="linenos">542</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.second_deriv-543"><a href="#Corr.second_deriv-543"><span class="linenos">543</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;symmetric&quot;</span><span class="p">:</span>
+</span><span id="Corr.second_deriv-544"><a href="#Corr.second_deriv-544"><span class="linenos">544</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.second_deriv-545"><a href="#Corr.second_deriv-545"><span class="linenos">545</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr.second_deriv-546"><a href="#Corr.second_deriv-546"><span class="linenos">546</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.second_deriv-547"><a href="#Corr.second_deriv-547"><span class="linenos">547</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.second_deriv-548"><a href="#Corr.second_deriv-548"><span class="linenos">548</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.second_deriv-549"><a href="#Corr.second_deriv-549"><span class="linenos">549</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]))</span>
+</span><span id="Corr.second_deriv-550"><a href="#Corr.second_deriv-550"><span class="linenos">550</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr.second_deriv-551"><a href="#Corr.second_deriv-551"><span class="linenos">551</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="Corr.second_deriv-552"><a href="#Corr.second_deriv-552"><span class="linenos">552</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr.second_deriv-553"><a href="#Corr.second_deriv-553"><span class="linenos">553</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s2">&quot;improved&quot;</span><span class="p">:</span>
+</span><span id="Corr.second_deriv-554"><a href="#Corr.second_deriv-554"><span class="linenos">554</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.second_deriv-555"><a href="#Corr.second_deriv-555"><span class="linenos">555</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="Corr.second_deriv-556"><a href="#Corr.second_deriv-556"><span class="linenos">556</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.second_deriv-557"><a href="#Corr.second_deriv-557"><span class="linenos">557</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.second_deriv-558"><a href="#Corr.second_deriv-558"><span class="linenos">558</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.second_deriv-559"><a href="#Corr.second_deriv-559"><span class="linenos">559</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span> <span class="o">+</span> <span class="mi">16</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="mi">30</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">+</span> <span class="mi">16</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">2</span><span class="p">]))</span>
+</span><span id="Corr.second_deriv-560"><a href="#Corr.second_deriv-560"><span class="linenos">560</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr.second_deriv-561"><a href="#Corr.second_deriv-561"><span class="linenos">561</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Derivative is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="Corr.second_deriv-562"><a href="#Corr.second_deriv-562"><span class="linenos">562</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="Corr.second_deriv-563"><a href="#Corr.second_deriv-563"><span class="linenos">563</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.second_deriv-564"><a href="#Corr.second_deriv-564"><span class="linenos">564</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown variant.&quot;</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Return the second derivative of the correlator with respect to x0.</p>
 
@@ -3656,82 +3657,82 @@ Available choice: symmetric, improved, default: symmetric</li>
 
                             </div>
                             <div id="Corr.m_eff" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.m_eff">#&nbsp;&nbsp</a>
+                                        <input id="Corr.m_eff-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">m_eff</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">variant</span><span class="o">=</span><span class="s1">&#39;log&#39;</span>, </span><span class="param"><span class="n">guess</span><span class="o">=</span><span class="mf">1.0</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.m_eff-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">m_eff</span><span class="signature">(self, variant=&#39;log&#39;, guess=1.0)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.m_eff-565"><a href="#Corr.m_eff-565"><span class="linenos">565</span></a>    <span class="k">def</span> <span class="nf">m_eff</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s1">&#39;log&#39;</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="mf">1.0</span><span class="p">):</span>
-</span><span id="Corr.m_eff-566"><a href="#Corr.m_eff-566"><span class="linenos">566</span></a>        <span class="sd">&quot;&quot;&quot;Returns the effective mass of the correlator as correlator object</span>
-</span><span id="Corr.m_eff-567"><a href="#Corr.m_eff-567"><span class="linenos">567</span></a>
-</span><span id="Corr.m_eff-568"><a href="#Corr.m_eff-568"><span class="linenos">568</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.m_eff-569"><a href="#Corr.m_eff-569"><span class="linenos">569</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.m_eff-570"><a href="#Corr.m_eff-570"><span class="linenos">570</span></a><span class="sd">        variant : str</span>
-</span><span id="Corr.m_eff-571"><a href="#Corr.m_eff-571"><span class="linenos">571</span></a><span class="sd">            log : uses the standard effective mass log(C(t) / C(t+1))</span>
-</span><span id="Corr.m_eff-572"><a href="#Corr.m_eff-572"><span class="linenos">572</span></a><span class="sd">            cosh, periodic : Use periodicitiy of the correlator by solving C(t) / C(t+1) = cosh(m * (t - T/2)) / cosh(m * (t + 1 - T/2)) for m.</span>
-</span><span id="Corr.m_eff-573"><a href="#Corr.m_eff-573"><span class="linenos">573</span></a><span class="sd">            sinh : Use anti-periodicitiy of the correlator by solving C(t) / C(t+1) = sinh(m * (t - T/2)) / sinh(m * (t + 1 - T/2)) for m.</span>
-</span><span id="Corr.m_eff-574"><a href="#Corr.m_eff-574"><span class="linenos">574</span></a><span class="sd">            See, e.g., arXiv:1205.5380</span>
-</span><span id="Corr.m_eff-575"><a href="#Corr.m_eff-575"><span class="linenos">575</span></a><span class="sd">            arccosh : Uses the explicit form of the symmetrized correlator (not recommended)</span>
-</span><span id="Corr.m_eff-576"><a href="#Corr.m_eff-576"><span class="linenos">576</span></a><span class="sd">        guess : float</span>
-</span><span id="Corr.m_eff-577"><a href="#Corr.m_eff-577"><span class="linenos">577</span></a><span class="sd">            guess for the root finder, only relevant for the root variant</span>
-</span><span id="Corr.m_eff-578"><a href="#Corr.m_eff-578"><span class="linenos">578</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.m_eff-579"><a href="#Corr.m_eff-579"><span class="linenos">579</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.m_eff-580"><a href="#Corr.m_eff-580"><span class="linenos">580</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Correlator must be projected before getting m_eff&#39;</span><span class="p">)</span>
-</span><span id="Corr.m_eff-581"><a href="#Corr.m_eff-581"><span class="linenos">581</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;log&#39;</span><span class="p">:</span>
-</span><span id="Corr.m_eff-582"><a href="#Corr.m_eff-582"><span class="linenos">582</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.m_eff-583"><a href="#Corr.m_eff-583"><span class="linenos">583</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr.m_eff-584"><a href="#Corr.m_eff-584"><span class="linenos">584</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.m_eff-585"><a href="#Corr.m_eff-585"><span class="linenos">585</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.m_eff-586"><a href="#Corr.m_eff-586"><span class="linenos">586</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.m_eff-587"><a href="#Corr.m_eff-587"><span class="linenos">587</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr.m_eff-588"><a href="#Corr.m_eff-588"><span class="linenos">588</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr.m_eff-589"><a href="#Corr.m_eff-589"><span class="linenos">589</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;m_eff is undefined at all timeslices&#39;</span><span class="p">)</span>
-</span><span id="Corr.m_eff-590"><a href="#Corr.m_eff-590"><span class="linenos">590</span></a>
-</span><span id="Corr.m_eff-591"><a href="#Corr.m_eff-591"><span class="linenos">591</span></a>            <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">]))</span>
-</span><span id="Corr.m_eff-592"><a href="#Corr.m_eff-592"><span class="linenos">592</span></a>
-</span><span id="Corr.m_eff-593"><a href="#Corr.m_eff-593"><span class="linenos">593</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;periodic&#39;</span><span class="p">,</span> <span class="s1">&#39;cosh&#39;</span><span class="p">,</span> <span class="s1">&#39;sinh&#39;</span><span class="p">]:</span>
-</span><span id="Corr.m_eff-594"><a href="#Corr.m_eff-594"><span class="linenos">594</span></a>            <span class="k">if</span> <span class="n">variant</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;periodic&#39;</span><span class="p">,</span> <span class="s1">&#39;cosh&#39;</span><span class="p">]:</span>
-</span><span id="Corr.m_eff-595"><a href="#Corr.m_eff-595"><span class="linenos">595</span></a>                <span class="n">func</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">cosh</span>
-</span><span id="Corr.m_eff-596"><a href="#Corr.m_eff-596"><span class="linenos">596</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.m_eff-597"><a href="#Corr.m_eff-597"><span class="linenos">597</span></a>                <span class="n">func</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sinh</span>
-</span><span id="Corr.m_eff-598"><a href="#Corr.m_eff-598"><span class="linenos">598</span></a>
-</span><span id="Corr.m_eff-599"><a href="#Corr.m_eff-599"><span class="linenos">599</span></a>            <span class="k">def</span> <span class="nf">root_function</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">d</span><span class="p">):</span>
-</span><span id="Corr.m_eff-600"><a href="#Corr.m_eff-600"><span class="linenos">600</span></a>                <span class="k">return</span> <span class="n">func</span><span class="p">(</span><span class="n">x</span> <span class="o">*</span> <span class="p">(</span><span class="n">t</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">))</span> <span class="o">/</span> <span class="n">func</span><span class="p">(</span><span class="n">x</span> <span class="o">*</span> <span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">))</span> <span class="o">-</span> <span class="n">d</span>
-</span><span id="Corr.m_eff-601"><a href="#Corr.m_eff-601"><span class="linenos">601</span></a>
-</span><span id="Corr.m_eff-602"><a href="#Corr.m_eff-602"><span class="linenos">602</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.m_eff-603"><a href="#Corr.m_eff-603"><span class="linenos">603</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr.m_eff-604"><a href="#Corr.m_eff-604"><span class="linenos">604</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.m_eff-605"><a href="#Corr.m_eff-605"><span class="linenos">605</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.m_eff-606"><a href="#Corr.m_eff-606"><span class="linenos">606</span></a>                <span class="c1"># Fill the two timeslices in the middle of the lattice with their predecessors</span>
-</span><span id="Corr.m_eff-607"><a href="#Corr.m_eff-607"><span class="linenos">607</span></a>                <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;sinh&#39;</span> <span class="ow">and</span> <span class="n">t</span> <span class="ow">in</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]:</span>
-</span><span id="Corr.m_eff-608"><a href="#Corr.m_eff-608"><span class="linenos">608</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr.m_eff-609"><a href="#Corr.m_eff-609"><span class="linenos">609</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.m_eff-610"><a href="#Corr.m_eff-610"><span class="linenos">610</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">find_root</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">root_function</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="n">guess</span><span class="p">)))</span>
-</span><span id="Corr.m_eff-611"><a href="#Corr.m_eff-611"><span class="linenos">611</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr.m_eff-612"><a href="#Corr.m_eff-612"><span class="linenos">612</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;m_eff is undefined at all timeslices&#39;</span><span class="p">)</span>
-</span><span id="Corr.m_eff-613"><a href="#Corr.m_eff-613"><span class="linenos">613</span></a>
-</span><span id="Corr.m_eff-614"><a href="#Corr.m_eff-614"><span class="linenos">614</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Corr.m_eff-615"><a href="#Corr.m_eff-615"><span class="linenos">615</span></a>
-</span><span id="Corr.m_eff-616"><a href="#Corr.m_eff-616"><span class="linenos">616</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;arccosh&#39;</span><span class="p">:</span>
-</span><span id="Corr.m_eff-617"><a href="#Corr.m_eff-617"><span class="linenos">617</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.m_eff-618"><a href="#Corr.m_eff-618"><span class="linenos">618</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="Corr.m_eff-619"><a href="#Corr.m_eff-619"><span class="linenos">619</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.m_eff-620"><a href="#Corr.m_eff-620"><span class="linenos">620</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="Corr.m_eff-621"><a href="#Corr.m_eff-621"><span class="linenos">621</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.m_eff-622"><a href="#Corr.m_eff-622"><span class="linenos">622</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]))</span>
-</span><span id="Corr.m_eff-623"><a href="#Corr.m_eff-623"><span class="linenos">623</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
-</span><span id="Corr.m_eff-624"><a href="#Corr.m_eff-624"><span class="linenos">624</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;m_eff is undefined at all timeslices&quot;</span><span class="p">)</span>
-</span><span id="Corr.m_eff-625"><a href="#Corr.m_eff-625"><span class="linenos">625</span></a>            <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">arccosh</span><span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">]))</span>
-</span><span id="Corr.m_eff-626"><a href="#Corr.m_eff-626"><span class="linenos">626</span></a>
-</span><span id="Corr.m_eff-627"><a href="#Corr.m_eff-627"><span class="linenos">627</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.m_eff-628"><a href="#Corr.m_eff-628"><span class="linenos">628</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown variant.&#39;</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.m_eff"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.m_eff-566"><a href="#Corr.m_eff-566"><span class="linenos">566</span></a>    <span class="k">def</span> <span class="nf">m_eff</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">variant</span><span class="o">=</span><span class="s1">&#39;log&#39;</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="mf">1.0</span><span class="p">):</span>
+</span><span id="Corr.m_eff-567"><a href="#Corr.m_eff-567"><span class="linenos">567</span></a>        <span class="sd">&quot;&quot;&quot;Returns the effective mass of the correlator as correlator object</span>
+</span><span id="Corr.m_eff-568"><a href="#Corr.m_eff-568"><span class="linenos">568</span></a>
+</span><span id="Corr.m_eff-569"><a href="#Corr.m_eff-569"><span class="linenos">569</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.m_eff-570"><a href="#Corr.m_eff-570"><span class="linenos">570</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.m_eff-571"><a href="#Corr.m_eff-571"><span class="linenos">571</span></a><span class="sd">        variant : str</span>
+</span><span id="Corr.m_eff-572"><a href="#Corr.m_eff-572"><span class="linenos">572</span></a><span class="sd">            log : uses the standard effective mass log(C(t) / C(t+1))</span>
+</span><span id="Corr.m_eff-573"><a href="#Corr.m_eff-573"><span class="linenos">573</span></a><span class="sd">            cosh, periodic : Use periodicitiy of the correlator by solving C(t) / C(t+1) = cosh(m * (t - T/2)) / cosh(m * (t + 1 - T/2)) for m.</span>
+</span><span id="Corr.m_eff-574"><a href="#Corr.m_eff-574"><span class="linenos">574</span></a><span class="sd">            sinh : Use anti-periodicitiy of the correlator by solving C(t) / C(t+1) = sinh(m * (t - T/2)) / sinh(m * (t + 1 - T/2)) for m.</span>
+</span><span id="Corr.m_eff-575"><a href="#Corr.m_eff-575"><span class="linenos">575</span></a><span class="sd">            See, e.g., arXiv:1205.5380</span>
+</span><span id="Corr.m_eff-576"><a href="#Corr.m_eff-576"><span class="linenos">576</span></a><span class="sd">            arccosh : Uses the explicit form of the symmetrized correlator (not recommended)</span>
+</span><span id="Corr.m_eff-577"><a href="#Corr.m_eff-577"><span class="linenos">577</span></a><span class="sd">        guess : float</span>
+</span><span id="Corr.m_eff-578"><a href="#Corr.m_eff-578"><span class="linenos">578</span></a><span class="sd">            guess for the root finder, only relevant for the root variant</span>
+</span><span id="Corr.m_eff-579"><a href="#Corr.m_eff-579"><span class="linenos">579</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.m_eff-580"><a href="#Corr.m_eff-580"><span class="linenos">580</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.m_eff-581"><a href="#Corr.m_eff-581"><span class="linenos">581</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Correlator must be projected before getting m_eff&#39;</span><span class="p">)</span>
+</span><span id="Corr.m_eff-582"><a href="#Corr.m_eff-582"><span class="linenos">582</span></a>        <span class="k">if</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;log&#39;</span><span class="p">:</span>
+</span><span id="Corr.m_eff-583"><a href="#Corr.m_eff-583"><span class="linenos">583</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.m_eff-584"><a href="#Corr.m_eff-584"><span class="linenos">584</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr.m_eff-585"><a href="#Corr.m_eff-585"><span class="linenos">585</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.m_eff-586"><a href="#Corr.m_eff-586"><span class="linenos">586</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.m_eff-587"><a href="#Corr.m_eff-587"><span class="linenos">587</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.m_eff-588"><a href="#Corr.m_eff-588"><span class="linenos">588</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr.m_eff-589"><a href="#Corr.m_eff-589"><span class="linenos">589</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr.m_eff-590"><a href="#Corr.m_eff-590"><span class="linenos">590</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;m_eff is undefined at all timeslices&#39;</span><span class="p">)</span>
+</span><span id="Corr.m_eff-591"><a href="#Corr.m_eff-591"><span class="linenos">591</span></a>
+</span><span id="Corr.m_eff-592"><a href="#Corr.m_eff-592"><span class="linenos">592</span></a>            <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">]))</span>
+</span><span id="Corr.m_eff-593"><a href="#Corr.m_eff-593"><span class="linenos">593</span></a>
+</span><span id="Corr.m_eff-594"><a href="#Corr.m_eff-594"><span class="linenos">594</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;periodic&#39;</span><span class="p">,</span> <span class="s1">&#39;cosh&#39;</span><span class="p">,</span> <span class="s1">&#39;sinh&#39;</span><span class="p">]:</span>
+</span><span id="Corr.m_eff-595"><a href="#Corr.m_eff-595"><span class="linenos">595</span></a>            <span class="k">if</span> <span class="n">variant</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;periodic&#39;</span><span class="p">,</span> <span class="s1">&#39;cosh&#39;</span><span class="p">]:</span>
+</span><span id="Corr.m_eff-596"><a href="#Corr.m_eff-596"><span class="linenos">596</span></a>                <span class="n">func</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">cosh</span>
+</span><span id="Corr.m_eff-597"><a href="#Corr.m_eff-597"><span class="linenos">597</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.m_eff-598"><a href="#Corr.m_eff-598"><span class="linenos">598</span></a>                <span class="n">func</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sinh</span>
+</span><span id="Corr.m_eff-599"><a href="#Corr.m_eff-599"><span class="linenos">599</span></a>
+</span><span id="Corr.m_eff-600"><a href="#Corr.m_eff-600"><span class="linenos">600</span></a>            <span class="k">def</span> <span class="nf">root_function</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">d</span><span class="p">):</span>
+</span><span id="Corr.m_eff-601"><a href="#Corr.m_eff-601"><span class="linenos">601</span></a>                <span class="k">return</span> <span class="n">func</span><span class="p">(</span><span class="n">x</span> <span class="o">*</span> <span class="p">(</span><span class="n">t</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">))</span> <span class="o">/</span> <span class="n">func</span><span class="p">(</span><span class="n">x</span> <span class="o">*</span> <span class="p">(</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">))</span> <span class="o">-</span> <span class="n">d</span>
+</span><span id="Corr.m_eff-602"><a href="#Corr.m_eff-602"><span class="linenos">602</span></a>
+</span><span id="Corr.m_eff-603"><a href="#Corr.m_eff-603"><span class="linenos">603</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.m_eff-604"><a href="#Corr.m_eff-604"><span class="linenos">604</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr.m_eff-605"><a href="#Corr.m_eff-605"><span class="linenos">605</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.m_eff-606"><a href="#Corr.m_eff-606"><span class="linenos">606</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.m_eff-607"><a href="#Corr.m_eff-607"><span class="linenos">607</span></a>                <span class="c1"># Fill the two timeslices in the middle of the lattice with their predecessors</span>
+</span><span id="Corr.m_eff-608"><a href="#Corr.m_eff-608"><span class="linenos">608</span></a>                <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;sinh&#39;</span> <span class="ow">and</span> <span class="n">t</span> <span class="ow">in</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]:</span>
+</span><span id="Corr.m_eff-609"><a href="#Corr.m_eff-609"><span class="linenos">609</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">newcontent</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr.m_eff-610"><a href="#Corr.m_eff-610"><span class="linenos">610</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.m_eff-611"><a href="#Corr.m_eff-611"><span class="linenos">611</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">find_root</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">root_function</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="n">guess</span><span class="p">)))</span>
+</span><span id="Corr.m_eff-612"><a href="#Corr.m_eff-612"><span class="linenos">612</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr.m_eff-613"><a href="#Corr.m_eff-613"><span class="linenos">613</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;m_eff is undefined at all timeslices&#39;</span><span class="p">)</span>
+</span><span id="Corr.m_eff-614"><a href="#Corr.m_eff-614"><span class="linenos">614</span></a>
+</span><span id="Corr.m_eff-615"><a href="#Corr.m_eff-615"><span class="linenos">615</span></a>            <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Corr.m_eff-616"><a href="#Corr.m_eff-616"><span class="linenos">616</span></a>
+</span><span id="Corr.m_eff-617"><a href="#Corr.m_eff-617"><span class="linenos">617</span></a>        <span class="k">elif</span> <span class="n">variant</span> <span class="o">==</span> <span class="s1">&#39;arccosh&#39;</span><span class="p">:</span>
+</span><span id="Corr.m_eff-618"><a href="#Corr.m_eff-618"><span class="linenos">618</span></a>            <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.m_eff-619"><a href="#Corr.m_eff-619"><span class="linenos">619</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="Corr.m_eff-620"><a href="#Corr.m_eff-620"><span class="linenos">620</span></a>                <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">or</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.m_eff-621"><a href="#Corr.m_eff-621"><span class="linenos">621</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="Corr.m_eff-622"><a href="#Corr.m_eff-622"><span class="linenos">622</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.m_eff-623"><a href="#Corr.m_eff-623"><span class="linenos">623</span></a>                    <span class="n">newcontent</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]))</span>
+</span><span id="Corr.m_eff-624"><a href="#Corr.m_eff-624"><span class="linenos">624</span></a>            <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="n">x</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">newcontent</span><span class="p">])):</span>
+</span><span id="Corr.m_eff-625"><a href="#Corr.m_eff-625"><span class="linenos">625</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;m_eff is undefined at all timeslices&quot;</span><span class="p">)</span>
+</span><span id="Corr.m_eff-626"><a href="#Corr.m_eff-626"><span class="linenos">626</span></a>            <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">arccosh</span><span class="p">(</span><span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">padding</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">]))</span>
+</span><span id="Corr.m_eff-627"><a href="#Corr.m_eff-627"><span class="linenos">627</span></a>
+</span><span id="Corr.m_eff-628"><a href="#Corr.m_eff-628"><span class="linenos">628</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.m_eff-629"><a href="#Corr.m_eff-629"><span class="linenos">629</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown variant.&#39;</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Returns the effective mass of the correlator as correlator object</p>
 
@@ -3752,51 +3753,51 @@ guess for the root finder, only relevant for the root variant</li>
 
                             </div>
                             <div id="Corr.fit" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.fit">#&nbsp;&nbsp</a>
+                                        <input id="Corr.fit-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">fit</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">function</span>, </span><span class="param"><span class="n">fitrange</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="n">silent</span><span class="o">=</span><span class="kc">False</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.fit-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">fit</span><span class="signature">(self, function, fitrange=None, silent=False, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.fit-630"><a href="#Corr.fit-630"><span class="linenos">630</span></a>    <span class="k">def</span> <span class="nf">fit</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">function</span><span class="p">,</span> <span class="n">fitrange</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Corr.fit-631"><a href="#Corr.fit-631"><span class="linenos">631</span></a>        <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Fits function to the data</span>
-</span><span id="Corr.fit-632"><a href="#Corr.fit-632"><span class="linenos">632</span></a>
-</span><span id="Corr.fit-633"><a href="#Corr.fit-633"><span class="linenos">633</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.fit-634"><a href="#Corr.fit-634"><span class="linenos">634</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.fit-635"><a href="#Corr.fit-635"><span class="linenos">635</span></a><span class="sd">        function : obj</span>
-</span><span id="Corr.fit-636"><a href="#Corr.fit-636"><span class="linenos">636</span></a><span class="sd">            function to fit to the data. See fits.least_squares for details.</span>
-</span><span id="Corr.fit-637"><a href="#Corr.fit-637"><span class="linenos">637</span></a><span class="sd">        fitrange : list</span>
-</span><span id="Corr.fit-638"><a href="#Corr.fit-638"><span class="linenos">638</span></a><span class="sd">            Two element list containing the timeslices on which the fit is supposed to start and stop.</span>
-</span><span id="Corr.fit-639"><a href="#Corr.fit-639"><span class="linenos">639</span></a><span class="sd">            Caution: This range is inclusive as opposed to standard python indexing.</span>
-</span><span id="Corr.fit-640"><a href="#Corr.fit-640"><span class="linenos">640</span></a><span class="sd">            `fitrange=[4, 6]` corresponds to the three entries 4, 5 and 6.</span>
-</span><span id="Corr.fit-641"><a href="#Corr.fit-641"><span class="linenos">641</span></a><span class="sd">            If not specified, self.prange or all timeslices are used.</span>
-</span><span id="Corr.fit-642"><a href="#Corr.fit-642"><span class="linenos">642</span></a><span class="sd">        silent : bool</span>
-</span><span id="Corr.fit-643"><a href="#Corr.fit-643"><span class="linenos">643</span></a><span class="sd">            Decides whether output is printed to the standard output.</span>
-</span><span id="Corr.fit-644"><a href="#Corr.fit-644"><span class="linenos">644</span></a><span class="sd">        &#39;&#39;&#39;</span>
-</span><span id="Corr.fit-645"><a href="#Corr.fit-645"><span class="linenos">645</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.fit-646"><a href="#Corr.fit-646"><span class="linenos">646</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before fitting&quot;</span><span class="p">)</span>
-</span><span id="Corr.fit-647"><a href="#Corr.fit-647"><span class="linenos">647</span></a>
-</span><span id="Corr.fit-648"><a href="#Corr.fit-648"><span class="linenos">648</span></a>        <span class="k">if</span> <span class="n">fitrange</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr.fit-649"><a href="#Corr.fit-649"><span class="linenos">649</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
-</span><span id="Corr.fit-650"><a href="#Corr.fit-650"><span class="linenos">650</span></a>                <span class="n">fitrange</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span>
-</span><span id="Corr.fit-651"><a href="#Corr.fit-651"><span class="linenos">651</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.fit-652"><a href="#Corr.fit-652"><span class="linenos">652</span></a>                <span class="n">fitrange</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
-</span><span id="Corr.fit-653"><a href="#Corr.fit-653"><span class="linenos">653</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.fit-654"><a href="#Corr.fit-654"><span class="linenos">654</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">fitrange</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="Corr.fit-655"><a href="#Corr.fit-655"><span class="linenos">655</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;fitrange has to be a list with two elements&quot;</span><span class="p">)</span>
-</span><span id="Corr.fit-656"><a href="#Corr.fit-656"><span class="linenos">656</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">fitrange</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="Corr.fit-657"><a href="#Corr.fit-657"><span class="linenos">657</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;fitrange has to have exactly two elements [fit_start, fit_stop]&quot;</span><span class="p">)</span>
-</span><span id="Corr.fit-658"><a href="#Corr.fit-658"><span class="linenos">658</span></a>
-</span><span id="Corr.fit-659"><a href="#Corr.fit-659"><span class="linenos">659</span></a>        <span class="n">xs</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">fitrange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">fitrange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="Corr.fit-660"><a href="#Corr.fit-660"><span class="linenos">660</span></a>        <span class="n">ys</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">fitrange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">fitrange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="Corr.fit-661"><a href="#Corr.fit-661"><span class="linenos">661</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">least_squares</span><span class="p">(</span><span class="n">xs</span><span class="p">,</span> <span class="n">ys</span><span class="p">,</span> <span class="n">function</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="Corr.fit-662"><a href="#Corr.fit-662"><span class="linenos">662</span></a>        <span class="k">return</span> <span class="n">result</span>
+    <a class="headerlink" href="#Corr.fit"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.fit-631"><a href="#Corr.fit-631"><span class="linenos">631</span></a>    <span class="k">def</span> <span class="nf">fit</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">function</span><span class="p">,</span> <span class="n">fitrange</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Corr.fit-632"><a href="#Corr.fit-632"><span class="linenos">632</span></a>        <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Fits function to the data</span>
+</span><span id="Corr.fit-633"><a href="#Corr.fit-633"><span class="linenos">633</span></a>
+</span><span id="Corr.fit-634"><a href="#Corr.fit-634"><span class="linenos">634</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.fit-635"><a href="#Corr.fit-635"><span class="linenos">635</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.fit-636"><a href="#Corr.fit-636"><span class="linenos">636</span></a><span class="sd">        function : obj</span>
+</span><span id="Corr.fit-637"><a href="#Corr.fit-637"><span class="linenos">637</span></a><span class="sd">            function to fit to the data. See fits.least_squares for details.</span>
+</span><span id="Corr.fit-638"><a href="#Corr.fit-638"><span class="linenos">638</span></a><span class="sd">        fitrange : list</span>
+</span><span id="Corr.fit-639"><a href="#Corr.fit-639"><span class="linenos">639</span></a><span class="sd">            Two element list containing the timeslices on which the fit is supposed to start and stop.</span>
+</span><span id="Corr.fit-640"><a href="#Corr.fit-640"><span class="linenos">640</span></a><span class="sd">            Caution: This range is inclusive as opposed to standard python indexing.</span>
+</span><span id="Corr.fit-641"><a href="#Corr.fit-641"><span class="linenos">641</span></a><span class="sd">            `fitrange=[4, 6]` corresponds to the three entries 4, 5 and 6.</span>
+</span><span id="Corr.fit-642"><a href="#Corr.fit-642"><span class="linenos">642</span></a><span class="sd">            If not specified, self.prange or all timeslices are used.</span>
+</span><span id="Corr.fit-643"><a href="#Corr.fit-643"><span class="linenos">643</span></a><span class="sd">        silent : bool</span>
+</span><span id="Corr.fit-644"><a href="#Corr.fit-644"><span class="linenos">644</span></a><span class="sd">            Decides whether output is printed to the standard output.</span>
+</span><span id="Corr.fit-645"><a href="#Corr.fit-645"><span class="linenos">645</span></a><span class="sd">        &#39;&#39;&#39;</span>
+</span><span id="Corr.fit-646"><a href="#Corr.fit-646"><span class="linenos">646</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.fit-647"><a href="#Corr.fit-647"><span class="linenos">647</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before fitting&quot;</span><span class="p">)</span>
+</span><span id="Corr.fit-648"><a href="#Corr.fit-648"><span class="linenos">648</span></a>
+</span><span id="Corr.fit-649"><a href="#Corr.fit-649"><span class="linenos">649</span></a>        <span class="k">if</span> <span class="n">fitrange</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr.fit-650"><a href="#Corr.fit-650"><span class="linenos">650</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
+</span><span id="Corr.fit-651"><a href="#Corr.fit-651"><span class="linenos">651</span></a>                <span class="n">fitrange</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span>
+</span><span id="Corr.fit-652"><a href="#Corr.fit-652"><span class="linenos">652</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.fit-653"><a href="#Corr.fit-653"><span class="linenos">653</span></a>                <span class="n">fitrange</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
+</span><span id="Corr.fit-654"><a href="#Corr.fit-654"><span class="linenos">654</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.fit-655"><a href="#Corr.fit-655"><span class="linenos">655</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">fitrange</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="Corr.fit-656"><a href="#Corr.fit-656"><span class="linenos">656</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;fitrange has to be a list with two elements&quot;</span><span class="p">)</span>
+</span><span id="Corr.fit-657"><a href="#Corr.fit-657"><span class="linenos">657</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">fitrange</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="Corr.fit-658"><a href="#Corr.fit-658"><span class="linenos">658</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;fitrange has to have exactly two elements [fit_start, fit_stop]&quot;</span><span class="p">)</span>
+</span><span id="Corr.fit-659"><a href="#Corr.fit-659"><span class="linenos">659</span></a>
+</span><span id="Corr.fit-660"><a href="#Corr.fit-660"><span class="linenos">660</span></a>        <span class="n">xs</span> <span class="o">=</span> <span class="p">[</span><span class="n">x</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">fitrange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">fitrange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="Corr.fit-661"><a href="#Corr.fit-661"><span class="linenos">661</span></a>        <span class="n">ys</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">fitrange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">fitrange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="Corr.fit-662"><a href="#Corr.fit-662"><span class="linenos">662</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">least_squares</span><span class="p">(</span><span class="n">xs</span><span class="p">,</span> <span class="n">ys</span><span class="p">,</span> <span class="n">function</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="Corr.fit-663"><a href="#Corr.fit-663"><span class="linenos">663</span></a>        <span class="k">return</span> <span class="n">result</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Fits function to the data</p>
 
@@ -3818,54 +3819,54 @@ Decides whether output is printed to the standard output.</li>
 
                             </div>
                             <div id="Corr.plateau" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.plateau">#&nbsp;&nbsp</a>
+                                        <input id="Corr.plateau-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">plateau</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">plateau_range</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="n">method</span><span class="o">=</span><span class="s1">&#39;fit&#39;</span>, </span><span class="param"><span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.plateau-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">plateau</span><span class="signature">(self, plateau_range=None, method=&#39;fit&#39;, auto_gamma=False)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.plateau-664"><a href="#Corr.plateau-664"><span class="linenos">664</span></a>    <span class="k">def</span> <span class="nf">plateau</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">plateau_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">method</span><span class="o">=</span><span class="s2">&quot;fit&quot;</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="Corr.plateau-665"><a href="#Corr.plateau-665"><span class="linenos">665</span></a>        <span class="sd">&quot;&quot;&quot; Extract a plateau value from a Corr object</span>
-</span><span id="Corr.plateau-666"><a href="#Corr.plateau-666"><span class="linenos">666</span></a>
-</span><span id="Corr.plateau-667"><a href="#Corr.plateau-667"><span class="linenos">667</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.plateau-668"><a href="#Corr.plateau-668"><span class="linenos">668</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.plateau-669"><a href="#Corr.plateau-669"><span class="linenos">669</span></a><span class="sd">        plateau_range : list</span>
-</span><span id="Corr.plateau-670"><a href="#Corr.plateau-670"><span class="linenos">670</span></a><span class="sd">            list with two entries, indicating the first and the last timeslice</span>
-</span><span id="Corr.plateau-671"><a href="#Corr.plateau-671"><span class="linenos">671</span></a><span class="sd">            of the plateau region.</span>
-</span><span id="Corr.plateau-672"><a href="#Corr.plateau-672"><span class="linenos">672</span></a><span class="sd">        method : str</span>
-</span><span id="Corr.plateau-673"><a href="#Corr.plateau-673"><span class="linenos">673</span></a><span class="sd">            method to extract the plateau.</span>
-</span><span id="Corr.plateau-674"><a href="#Corr.plateau-674"><span class="linenos">674</span></a><span class="sd">                &#39;fit&#39; fits a constant to the plateau region</span>
-</span><span id="Corr.plateau-675"><a href="#Corr.plateau-675"><span class="linenos">675</span></a><span class="sd">                &#39;avg&#39;, &#39;average&#39; or &#39;mean&#39; just average over the given timeslices.</span>
-</span><span id="Corr.plateau-676"><a href="#Corr.plateau-676"><span class="linenos">676</span></a><span class="sd">        auto_gamma : bool</span>
-</span><span id="Corr.plateau-677"><a href="#Corr.plateau-677"><span class="linenos">677</span></a><span class="sd">            apply gamma_method with default parameters to the Corr. Defaults to None</span>
-</span><span id="Corr.plateau-678"><a href="#Corr.plateau-678"><span class="linenos">678</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.plateau-679"><a href="#Corr.plateau-679"><span class="linenos">679</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">plateau_range</span><span class="p">:</span>
-</span><span id="Corr.plateau-680"><a href="#Corr.plateau-680"><span class="linenos">680</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
-</span><span id="Corr.plateau-681"><a href="#Corr.plateau-681"><span class="linenos">681</span></a>                <span class="n">plateau_range</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span>
-</span><span id="Corr.plateau-682"><a href="#Corr.plateau-682"><span class="linenos">682</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.plateau-683"><a href="#Corr.plateau-683"><span class="linenos">683</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;no plateau range provided&quot;</span><span class="p">)</span>
-</span><span id="Corr.plateau-684"><a href="#Corr.plateau-684"><span class="linenos">684</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.plateau-685"><a href="#Corr.plateau-685"><span class="linenos">685</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before getting a plateau.&quot;</span><span class="p">)</span>
-</span><span id="Corr.plateau-686"><a href="#Corr.plateau-686"><span class="linenos">686</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">plateau_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)])):</span>
-</span><span id="Corr.plateau-687"><a href="#Corr.plateau-687"><span class="linenos">687</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;plateau is undefined at all timeslices in plateaurange.&quot;</span><span class="p">)</span>
-</span><span id="Corr.plateau-688"><a href="#Corr.plateau-688"><span class="linenos">688</span></a>        <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
-</span><span id="Corr.plateau-689"><a href="#Corr.plateau-689"><span class="linenos">689</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="Corr.plateau-690"><a href="#Corr.plateau-690"><span class="linenos">690</span></a>        <span class="k">if</span> <span class="n">method</span> <span class="o">==</span> <span class="s2">&quot;fit&quot;</span><span class="p">:</span>
-</span><span id="Corr.plateau-691"><a href="#Corr.plateau-691"><span class="linenos">691</span></a>            <span class="k">def</span> <span class="nf">const_func</span><span class="p">(</span><span class="n">a</span><span class="p">,</span> <span class="n">t</span><span class="p">):</span>
-</span><span id="Corr.plateau-692"><a href="#Corr.plateau-692"><span class="linenos">692</span></a>                <span class="k">return</span> <span class="n">a</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr.plateau-693"><a href="#Corr.plateau-693"><span class="linenos">693</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit</span><span class="p">(</span><span class="n">const_func</span><span class="p">,</span> <span class="n">plateau_range</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Corr.plateau-694"><a href="#Corr.plateau-694"><span class="linenos">694</span></a>        <span class="k">elif</span> <span class="n">method</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;avg&quot;</span><span class="p">,</span> <span class="s2">&quot;average&quot;</span><span class="p">,</span> <span class="s2">&quot;mean&quot;</span><span class="p">]:</span>
-</span><span id="Corr.plateau-695"><a href="#Corr.plateau-695"><span class="linenos">695</span></a>            <span class="n">returnvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">([</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="n">item</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span>
-</span><span id="Corr.plateau-696"><a href="#Corr.plateau-696"><span class="linenos">696</span></a>            <span class="k">return</span> <span class="n">returnvalue</span>
-</span><span id="Corr.plateau-697"><a href="#Corr.plateau-697"><span class="linenos">697</span></a>
-</span><span id="Corr.plateau-698"><a href="#Corr.plateau-698"><span class="linenos">698</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.plateau-699"><a href="#Corr.plateau-699"><span class="linenos">699</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsupported plateau method: &quot;</span> <span class="o">+</span> <span class="n">method</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.plateau"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.plateau-665"><a href="#Corr.plateau-665"><span class="linenos">665</span></a>    <span class="k">def</span> <span class="nf">plateau</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">plateau_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">method</span><span class="o">=</span><span class="s2">&quot;fit&quot;</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="Corr.plateau-666"><a href="#Corr.plateau-666"><span class="linenos">666</span></a>        <span class="sd">&quot;&quot;&quot; Extract a plateau value from a Corr object</span>
+</span><span id="Corr.plateau-667"><a href="#Corr.plateau-667"><span class="linenos">667</span></a>
+</span><span id="Corr.plateau-668"><a href="#Corr.plateau-668"><span class="linenos">668</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.plateau-669"><a href="#Corr.plateau-669"><span class="linenos">669</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.plateau-670"><a href="#Corr.plateau-670"><span class="linenos">670</span></a><span class="sd">        plateau_range : list</span>
+</span><span id="Corr.plateau-671"><a href="#Corr.plateau-671"><span class="linenos">671</span></a><span class="sd">            list with two entries, indicating the first and the last timeslice</span>
+</span><span id="Corr.plateau-672"><a href="#Corr.plateau-672"><span class="linenos">672</span></a><span class="sd">            of the plateau region.</span>
+</span><span id="Corr.plateau-673"><a href="#Corr.plateau-673"><span class="linenos">673</span></a><span class="sd">        method : str</span>
+</span><span id="Corr.plateau-674"><a href="#Corr.plateau-674"><span class="linenos">674</span></a><span class="sd">            method to extract the plateau.</span>
+</span><span id="Corr.plateau-675"><a href="#Corr.plateau-675"><span class="linenos">675</span></a><span class="sd">                &#39;fit&#39; fits a constant to the plateau region</span>
+</span><span id="Corr.plateau-676"><a href="#Corr.plateau-676"><span class="linenos">676</span></a><span class="sd">                &#39;avg&#39;, &#39;average&#39; or &#39;mean&#39; just average over the given timeslices.</span>
+</span><span id="Corr.plateau-677"><a href="#Corr.plateau-677"><span class="linenos">677</span></a><span class="sd">        auto_gamma : bool</span>
+</span><span id="Corr.plateau-678"><a href="#Corr.plateau-678"><span class="linenos">678</span></a><span class="sd">            apply gamma_method with default parameters to the Corr. Defaults to None</span>
+</span><span id="Corr.plateau-679"><a href="#Corr.plateau-679"><span class="linenos">679</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.plateau-680"><a href="#Corr.plateau-680"><span class="linenos">680</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">plateau_range</span><span class="p">:</span>
+</span><span id="Corr.plateau-681"><a href="#Corr.plateau-681"><span class="linenos">681</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
+</span><span id="Corr.plateau-682"><a href="#Corr.plateau-682"><span class="linenos">682</span></a>                <span class="n">plateau_range</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span>
+</span><span id="Corr.plateau-683"><a href="#Corr.plateau-683"><span class="linenos">683</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.plateau-684"><a href="#Corr.plateau-684"><span class="linenos">684</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;no plateau range provided&quot;</span><span class="p">)</span>
+</span><span id="Corr.plateau-685"><a href="#Corr.plateau-685"><span class="linenos">685</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.plateau-686"><a href="#Corr.plateau-686"><span class="linenos">686</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before getting a plateau.&quot;</span><span class="p">)</span>
+</span><span id="Corr.plateau-687"><a href="#Corr.plateau-687"><span class="linenos">687</span></a>        <span class="k">if</span><span class="p">(</span><span class="nb">all</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">plateau_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)])):</span>
+</span><span id="Corr.plateau-688"><a href="#Corr.plateau-688"><span class="linenos">688</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;plateau is undefined at all timeslices in plateaurange.&quot;</span><span class="p">)</span>
+</span><span id="Corr.plateau-689"><a href="#Corr.plateau-689"><span class="linenos">689</span></a>        <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
+</span><span id="Corr.plateau-690"><a href="#Corr.plateau-690"><span class="linenos">690</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="Corr.plateau-691"><a href="#Corr.plateau-691"><span class="linenos">691</span></a>        <span class="k">if</span> <span class="n">method</span> <span class="o">==</span> <span class="s2">&quot;fit&quot;</span><span class="p">:</span>
+</span><span id="Corr.plateau-692"><a href="#Corr.plateau-692"><span class="linenos">692</span></a>            <span class="k">def</span> <span class="nf">const_func</span><span class="p">(</span><span class="n">a</span><span class="p">,</span> <span class="n">t</span><span class="p">):</span>
+</span><span id="Corr.plateau-693"><a href="#Corr.plateau-693"><span class="linenos">693</span></a>                <span class="k">return</span> <span class="n">a</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr.plateau-694"><a href="#Corr.plateau-694"><span class="linenos">694</span></a>            <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit</span><span class="p">(</span><span class="n">const_func</span><span class="p">,</span> <span class="n">plateau_range</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Corr.plateau-695"><a href="#Corr.plateau-695"><span class="linenos">695</span></a>        <span class="k">elif</span> <span class="n">method</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;avg&quot;</span><span class="p">,</span> <span class="s2">&quot;average&quot;</span><span class="p">,</span> <span class="s2">&quot;mean&quot;</span><span class="p">]:</span>
+</span><span id="Corr.plateau-696"><a href="#Corr.plateau-696"><span class="linenos">696</span></a>            <span class="n">returnvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">([</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span><span class="n">plateau_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="n">item</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span>
+</span><span id="Corr.plateau-697"><a href="#Corr.plateau-697"><span class="linenos">697</span></a>            <span class="k">return</span> <span class="n">returnvalue</span>
+</span><span id="Corr.plateau-698"><a href="#Corr.plateau-698"><span class="linenos">698</span></a>
+</span><span id="Corr.plateau-699"><a href="#Corr.plateau-699"><span class="linenos">699</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.plateau-700"><a href="#Corr.plateau-700"><span class="linenos">700</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsupported plateau method: &quot;</span> <span class="o">+</span> <span class="n">method</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Extract a plateau value from a Corr object</p>
 
@@ -3887,29 +3888,29 @@ apply gamma_method with default parameters to the Corr. Defaults to None</li>
 
                             </div>
                             <div id="Corr.set_prange" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.set_prange">#&nbsp;&nbsp</a>
+                                        <input id="Corr.set_prange-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">set_prange</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">prange</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.set_prange-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">set_prange</span><span class="signature">(self, prange)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.set_prange-701"><a href="#Corr.set_prange-701"><span class="linenos">701</span></a>    <span class="k">def</span> <span class="nf">set_prange</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">prange</span><span class="p">):</span>
-</span><span id="Corr.set_prange-702"><a href="#Corr.set_prange-702"><span class="linenos">702</span></a>        <span class="sd">&quot;&quot;&quot;Sets the attribute prange of the Corr object.&quot;&quot;&quot;</span>
-</span><span id="Corr.set_prange-703"><a href="#Corr.set_prange-703"><span class="linenos">703</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">prange</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="Corr.set_prange-704"><a href="#Corr.set_prange-704"><span class="linenos">704</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;prange must be a list or array with two values&quot;</span><span class="p">)</span>
-</span><span id="Corr.set_prange-705"><a href="#Corr.set_prange-705"><span class="linenos">705</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">((</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">int</span><span class="p">))</span> <span class="ow">and</span> <span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="nb">int</span><span class="p">))):</span>
-</span><span id="Corr.set_prange-706"><a href="#Corr.set_prange-706"><span class="linenos">706</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Start and end point must be integers&quot;</span><span class="p">)</span>
-</span><span id="Corr.set_prange-707"><a href="#Corr.set_prange-707"><span class="linenos">707</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="mi">0</span> <span class="o">&lt;=</span> <span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="ow">and</span> <span class="mi">0</span> <span class="o">&lt;=</span> <span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="ow">and</span> <span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&lt;</span> <span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="Corr.set_prange-708"><a href="#Corr.set_prange-708"><span class="linenos">708</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Start and end point must define a range in the interval 0,T&quot;</span><span class="p">)</span>
-</span><span id="Corr.set_prange-709"><a href="#Corr.set_prange-709"><span class="linenos">709</span></a>
-</span><span id="Corr.set_prange-710"><a href="#Corr.set_prange-710"><span class="linenos">710</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">prange</span>
-</span><span id="Corr.set_prange-711"><a href="#Corr.set_prange-711"><span class="linenos">711</span></a>        <span class="k">return</span>
+    <a class="headerlink" href="#Corr.set_prange"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.set_prange-702"><a href="#Corr.set_prange-702"><span class="linenos">702</span></a>    <span class="k">def</span> <span class="nf">set_prange</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">prange</span><span class="p">):</span>
+</span><span id="Corr.set_prange-703"><a href="#Corr.set_prange-703"><span class="linenos">703</span></a>        <span class="sd">&quot;&quot;&quot;Sets the attribute prange of the Corr object.&quot;&quot;&quot;</span>
+</span><span id="Corr.set_prange-704"><a href="#Corr.set_prange-704"><span class="linenos">704</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">prange</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="Corr.set_prange-705"><a href="#Corr.set_prange-705"><span class="linenos">705</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;prange must be a list or array with two values&quot;</span><span class="p">)</span>
+</span><span id="Corr.set_prange-706"><a href="#Corr.set_prange-706"><span class="linenos">706</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">((</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">int</span><span class="p">))</span> <span class="ow">and</span> <span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="nb">int</span><span class="p">))):</span>
+</span><span id="Corr.set_prange-707"><a href="#Corr.set_prange-707"><span class="linenos">707</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Start and end point must be integers&quot;</span><span class="p">)</span>
+</span><span id="Corr.set_prange-708"><a href="#Corr.set_prange-708"><span class="linenos">708</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="mi">0</span> <span class="o">&lt;=</span> <span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="ow">and</span> <span class="mi">0</span> <span class="o">&lt;=</span> <span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="ow">and</span> <span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">&lt;</span> <span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="Corr.set_prange-709"><a href="#Corr.set_prange-709"><span class="linenos">709</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Start and end point must define a range in the interval 0,T&quot;</span><span class="p">)</span>
+</span><span id="Corr.set_prange-710"><a href="#Corr.set_prange-710"><span class="linenos">710</span></a>
+</span><span id="Corr.set_prange-711"><a href="#Corr.set_prange-711"><span class="linenos">711</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">prange</span>
+</span><span id="Corr.set_prange-712"><a href="#Corr.set_prange-712"><span class="linenos">712</span></a>        <span class="k">return</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Sets the attribute prange of the Corr object.</p>
 </div>
@@ -3917,143 +3918,130 @@ apply gamma_method with default parameters to the Corr. Defaults to None</li>
 
                             </div>
                             <div id="Corr.show" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.show">#&nbsp;&nbsp</a>
+                                        <input id="Corr.show-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">show</span><span class="signature pdoc-code multiline">(<span class="param">	<span class="bp">self</span>,</span><span class="param">	<span class="n">x_range</span><span class="o">=</span><span class="kc">None</span>,</span><span class="param">	<span class="n">comp</span><span class="o">=</span><span class="kc">None</span>,</span><span class="param">	<span class="n">y_range</span><span class="o">=</span><span class="kc">None</span>,</span><span class="param">	<span class="n">logscale</span><span class="o">=</span><span class="kc">False</span>,</span><span class="param">	<span class="n">plateau</span><span class="o">=</span><span class="kc">None</span>,</span><span class="param">	<span class="n">fit_res</span><span class="o">=</span><span class="kc">None</span>,</span><span class="param">	<span class="n">ylabel</span><span class="o">=</span><span class="kc">None</span>,</span><span class="param">	<span class="n">save</span><span class="o">=</span><span class="kc">None</span>,</span><span class="param">	<span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span>,</span><span class="param">	<span class="n">hide_sigma</span><span class="o">=</span><span class="kc">None</span>,</span><span class="param">	<span class="n">references</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.show-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">show</span><span class="signature">(
-    self,
-    x_range=None,
-    comp=None,
-    y_range=None,
-    logscale=False,
-    plateau=None,
-    fit_res=None,
-    ylabel=None,
-    save=None,
-    auto_gamma=False,
-    hide_sigma=None,
-    references=None
-)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.show-713"><a href="#Corr.show-713"><span class="linenos">713</span></a>    <span class="k">def</span> <span class="nf">show</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">comp</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">y_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">logscale</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">plateau</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">fit_res</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">ylabel</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">hide_sigma</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">references</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.show-714"><a href="#Corr.show-714"><span class="linenos">714</span></a>        <span class="sd">&quot;&quot;&quot;Plots the correlator using the tag of the correlator as label if available.</span>
-</span><span id="Corr.show-715"><a href="#Corr.show-715"><span class="linenos">715</span></a>
-</span><span id="Corr.show-716"><a href="#Corr.show-716"><span class="linenos">716</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.show-717"><a href="#Corr.show-717"><span class="linenos">717</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.show-718"><a href="#Corr.show-718"><span class="linenos">718</span></a><span class="sd">        x_range : list</span>
-</span><span id="Corr.show-719"><a href="#Corr.show-719"><span class="linenos">719</span></a><span class="sd">            list of two values, determining the range of the x-axis e.g. [4, 8]</span>
-</span><span id="Corr.show-720"><a href="#Corr.show-720"><span class="linenos">720</span></a><span class="sd">        comp : Corr or list of Corr</span>
-</span><span id="Corr.show-721"><a href="#Corr.show-721"><span class="linenos">721</span></a><span class="sd">            Correlator or list of correlators which are plotted for comparison.</span>
-</span><span id="Corr.show-722"><a href="#Corr.show-722"><span class="linenos">722</span></a><span class="sd">            The tags of these correlators are used as labels if available.</span>
-</span><span id="Corr.show-723"><a href="#Corr.show-723"><span class="linenos">723</span></a><span class="sd">        logscale : bool</span>
-</span><span id="Corr.show-724"><a href="#Corr.show-724"><span class="linenos">724</span></a><span class="sd">            Sets y-axis to logscale</span>
-</span><span id="Corr.show-725"><a href="#Corr.show-725"><span class="linenos">725</span></a><span class="sd">        plateau : Obs</span>
-</span><span id="Corr.show-726"><a href="#Corr.show-726"><span class="linenos">726</span></a><span class="sd">            Plateau value to be visualized in the figure</span>
-</span><span id="Corr.show-727"><a href="#Corr.show-727"><span class="linenos">727</span></a><span class="sd">        fit_res : Fit_result</span>
-</span><span id="Corr.show-728"><a href="#Corr.show-728"><span class="linenos">728</span></a><span class="sd">            Fit_result object to be visualized</span>
-</span><span id="Corr.show-729"><a href="#Corr.show-729"><span class="linenos">729</span></a><span class="sd">        ylabel : str</span>
-</span><span id="Corr.show-730"><a href="#Corr.show-730"><span class="linenos">730</span></a><span class="sd">            Label for the y-axis</span>
-</span><span id="Corr.show-731"><a href="#Corr.show-731"><span class="linenos">731</span></a><span class="sd">        save : str</span>
-</span><span id="Corr.show-732"><a href="#Corr.show-732"><span class="linenos">732</span></a><span class="sd">            path to file in which the figure should be saved</span>
-</span><span id="Corr.show-733"><a href="#Corr.show-733"><span class="linenos">733</span></a><span class="sd">        auto_gamma : bool</span>
-</span><span id="Corr.show-734"><a href="#Corr.show-734"><span class="linenos">734</span></a><span class="sd">            Apply the gamma method with standard parameters to all correlators and plateau values before plotting.</span>
-</span><span id="Corr.show-735"><a href="#Corr.show-735"><span class="linenos">735</span></a><span class="sd">        hide_sigma : float</span>
-</span><span id="Corr.show-736"><a href="#Corr.show-736"><span class="linenos">736</span></a><span class="sd">            Hides data points from the first value on which is consistent with zero within &#39;hide_sigma&#39; standard errors.</span>
-</span><span id="Corr.show-737"><a href="#Corr.show-737"><span class="linenos">737</span></a><span class="sd">        references : list</span>
-</span><span id="Corr.show-738"><a href="#Corr.show-738"><span class="linenos">738</span></a><span class="sd">            List of floating point values that are displayed as horizontal lines for reference.</span>
-</span><span id="Corr.show-739"><a href="#Corr.show-739"><span class="linenos">739</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.show-740"><a href="#Corr.show-740"><span class="linenos">740</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.show-741"><a href="#Corr.show-741"><span class="linenos">741</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before plotting&quot;</span><span class="p">)</span>
-</span><span id="Corr.show-742"><a href="#Corr.show-742"><span class="linenos">742</span></a>
-</span><span id="Corr.show-743"><a href="#Corr.show-743"><span class="linenos">743</span></a>        <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
-</span><span id="Corr.show-744"><a href="#Corr.show-744"><span class="linenos">744</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="Corr.show-745"><a href="#Corr.show-745"><span class="linenos">745</span></a>
-</span><span id="Corr.show-746"><a href="#Corr.show-746"><span class="linenos">746</span></a>        <span class="k">if</span> <span class="n">x_range</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr.show-747"><a href="#Corr.show-747"><span class="linenos">747</span></a>            <span class="n">x_range</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
-</span><span id="Corr.show-748"><a href="#Corr.show-748"><span class="linenos">748</span></a>
-</span><span id="Corr.show-749"><a href="#Corr.show-749"><span class="linenos">749</span></a>        <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="Corr.show-750"><a href="#Corr.show-750"><span class="linenos">750</span></a>        <span class="n">ax1</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">111</span><span class="p">)</span>
-</span><span id="Corr.show-751"><a href="#Corr.show-751"><span class="linenos">751</span></a>
-</span><span id="Corr.show-752"><a href="#Corr.show-752"><span class="linenos">752</span></a>        <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">y_err</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">plottable</span><span class="p">()</span>
-</span><span id="Corr.show-753"><a href="#Corr.show-753"><span class="linenos">753</span></a>        <span class="k">if</span> <span class="n">hide_sigma</span><span class="p">:</span>
-</span><span id="Corr.show-754"><a href="#Corr.show-754"><span class="linenos">754</span></a>            <span class="n">hide_from</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">((</span><span class="n">hide_sigma</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">y_err</span><span class="p">))</span> <span class="o">&gt;</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="Corr.show-755"><a href="#Corr.show-755"><span class="linenos">755</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.show-756"><a href="#Corr.show-756"><span class="linenos">756</span></a>            <span class="n">hide_from</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="Corr.show-757"><a href="#Corr.show-757"><span class="linenos">757</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y_err</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">label</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
-</span><span id="Corr.show-758"><a href="#Corr.show-758"><span class="linenos">758</span></a>        <span class="k">if</span> <span class="n">logscale</span><span class="p">:</span>
-</span><span id="Corr.show-759"><a href="#Corr.show-759"><span class="linenos">759</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">set_yscale</span><span class="p">(</span><span class="s1">&#39;log&#39;</span><span class="p">)</span>
-</span><span id="Corr.show-760"><a href="#Corr.show-760"><span class="linenos">760</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.show-761"><a href="#Corr.show-761"><span class="linenos">761</span></a>            <span class="k">if</span> <span class="n">y_range</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr.show-762"><a href="#Corr.show-762"><span class="linenos">762</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="Corr.show-763"><a href="#Corr.show-763"><span class="linenos">763</span></a>                    <span class="n">y_min</span> <span class="o">=</span> <span class="nb">min</span><span class="p">([(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="p">(</span><span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">and</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">&lt;</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="Corr.show-764"><a href="#Corr.show-764"><span class="linenos">764</span></a>                    <span class="n">y_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="p">(</span><span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">and</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">&lt;</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="Corr.show-765"><a href="#Corr.show-765"><span class="linenos">765</span></a>                    <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">([</span><span class="n">y_min</span> <span class="o">-</span> <span class="mf">0.1</span> <span class="o">*</span> <span class="p">(</span><span class="n">y_max</span> <span class="o">-</span> <span class="n">y_min</span><span class="p">),</span> <span class="n">y_max</span> <span class="o">+</span> <span class="mf">0.1</span> <span class="o">*</span> <span class="p">(</span><span class="n">y_max</span> <span class="o">-</span> <span class="n">y_min</span><span class="p">)])</span>
-</span><span id="Corr.show-766"><a href="#Corr.show-766"><span class="linenos">766</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="Corr.show-767"><a href="#Corr.show-767"><span class="linenos">767</span></a>                    <span class="k">pass</span>
-</span><span id="Corr.show-768"><a href="#Corr.show-768"><span class="linenos">768</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.show-769"><a href="#Corr.show-769"><span class="linenos">769</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">(</span><span class="n">y_range</span><span class="p">)</span>
-</span><span id="Corr.show-770"><a href="#Corr.show-770"><span class="linenos">770</span></a>        <span class="k">if</span> <span class="n">comp</span><span class="p">:</span>
-</span><span id="Corr.show-771"><a href="#Corr.show-771"><span class="linenos">771</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">comp</span><span class="p">,</span> <span class="p">(</span><span class="n">Corr</span><span class="p">,</span> <span class="nb">list</span><span class="p">)):</span>
-</span><span id="Corr.show-772"><a href="#Corr.show-772"><span class="linenos">772</span></a>                <span class="k">for</span> <span class="n">corr</span> <span class="ow">in</span> <span class="n">comp</span> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">comp</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="k">else</span> <span class="p">[</span><span class="n">comp</span><span class="p">]:</span>
-</span><span id="Corr.show-773"><a href="#Corr.show-773"><span class="linenos">773</span></a>                    <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
-</span><span id="Corr.show-774"><a href="#Corr.show-774"><span class="linenos">774</span></a>                        <span class="n">corr</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="Corr.show-775"><a href="#Corr.show-775"><span class="linenos">775</span></a>                    <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">y_err</span> <span class="o">=</span> <span class="n">corr</span><span class="o">.</span><span class="n">plottable</span><span class="p">()</span>
-</span><span id="Corr.show-776"><a href="#Corr.show-776"><span class="linenos">776</span></a>                    <span class="k">if</span> <span class="n">hide_sigma</span><span class="p">:</span>
-</span><span id="Corr.show-777"><a href="#Corr.show-777"><span class="linenos">777</span></a>                        <span class="n">hide_from</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">((</span><span class="n">hide_sigma</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">y_err</span><span class="p">))</span> <span class="o">&gt;</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="Corr.show-778"><a href="#Corr.show-778"><span class="linenos">778</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.show-779"><a href="#Corr.show-779"><span class="linenos">779</span></a>                        <span class="n">hide_from</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="Corr.show-780"><a href="#Corr.show-780"><span class="linenos">780</span></a>                    <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y_err</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">label</span><span class="o">=</span><span class="n">corr</span><span class="o">.</span><span class="n">tag</span><span class="p">,</span> <span class="n">mfc</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;axes.facecolor&#39;</span><span class="p">])</span>
-</span><span id="Corr.show-781"><a href="#Corr.show-781"><span class="linenos">781</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.show-782"><a href="#Corr.show-782"><span class="linenos">782</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;comp&#39; must be a correlator or a list of correlators.&quot;</span><span class="p">)</span>
-</span><span id="Corr.show-783"><a href="#Corr.show-783"><span class="linenos">783</span></a>
-</span><span id="Corr.show-784"><a href="#Corr.show-784"><span class="linenos">784</span></a>        <span class="k">if</span> <span class="n">plateau</span><span class="p">:</span>
-</span><span id="Corr.show-785"><a href="#Corr.show-785"><span class="linenos">785</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">plateau</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="Corr.show-786"><a href="#Corr.show-786"><span class="linenos">786</span></a>                <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
-</span><span id="Corr.show-787"><a href="#Corr.show-787"><span class="linenos">787</span></a>                    <span class="n">plateau</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="Corr.show-788"><a href="#Corr.show-788"><span class="linenos">788</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="n">plateau</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="nb">str</span><span class="p">(</span><span class="n">plateau</span><span class="p">))</span>
-</span><span id="Corr.show-789"><a href="#Corr.show-789"><span class="linenos">789</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">axhspan</span><span class="p">(</span><span class="n">plateau</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">plateau</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">plateau</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">plateau</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.25</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">)</span>
-</span><span id="Corr.show-790"><a href="#Corr.show-790"><span class="linenos">790</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.show-791"><a href="#Corr.show-791"><span class="linenos">791</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;plateau&#39; must be an Obs&quot;</span><span class="p">)</span>
-</span><span id="Corr.show-792"><a href="#Corr.show-792"><span class="linenos">792</span></a>
-</span><span id="Corr.show-793"><a href="#Corr.show-793"><span class="linenos">793</span></a>        <span class="k">if</span> <span class="n">references</span><span class="p">:</span>
-</span><span id="Corr.show-794"><a href="#Corr.show-794"><span class="linenos">794</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">references</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="Corr.show-795"><a href="#Corr.show-795"><span class="linenos">795</span></a>                <span class="k">for</span> <span class="n">ref</span> <span class="ow">in</span> <span class="n">references</span><span class="p">:</span>
-</span><span id="Corr.show-796"><a href="#Corr.show-796"><span class="linenos">796</span></a>                    <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="n">ref</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">)</span>
-</span><span id="Corr.show-797"><a href="#Corr.show-797"><span class="linenos">797</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.show-798"><a href="#Corr.show-798"><span class="linenos">798</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;references&#39; must be a list of floating pint values.&quot;</span><span class="p">)</span>
-</span><span id="Corr.show-799"><a href="#Corr.show-799"><span class="linenos">799</span></a>
-</span><span id="Corr.show-800"><a href="#Corr.show-800"><span class="linenos">800</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
-</span><span id="Corr.show-801"><a href="#Corr.show-801"><span class="linenos">801</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="Corr.show-802"><a href="#Corr.show-802"><span class="linenos">802</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="Corr.show-803"><a href="#Corr.show-803"><span class="linenos">803</span></a>
-</span><span id="Corr.show-804"><a href="#Corr.show-804"><span class="linenos">804</span></a>        <span class="k">if</span> <span class="n">fit_res</span><span class="p">:</span>
-</span><span id="Corr.show-805"><a href="#Corr.show-805"><span class="linenos">805</span></a>            <span class="n">x_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mf">0.05</span><span class="p">)</span>
-</span><span id="Corr.show-806"><a href="#Corr.show-806"><span class="linenos">806</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span>
-</span><span id="Corr.show-807"><a href="#Corr.show-807"><span class="linenos">807</span></a>                     <span class="n">fit_res</span><span class="o">.</span><span class="n">fit_function</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">],</span> <span class="n">x_samples</span><span class="p">),</span>
-</span><span id="Corr.show-808"><a href="#Corr.show-808"><span class="linenos">808</span></a>                     <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
-</span><span id="Corr.show-809"><a href="#Corr.show-809"><span class="linenos">809</span></a>
-</span><span id="Corr.show-810"><a href="#Corr.show-810"><span class="linenos">810</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$x_0 / a$&#39;</span><span class="p">)</span>
-</span><span id="Corr.show-811"><a href="#Corr.show-811"><span class="linenos">811</span></a>        <span class="k">if</span> <span class="n">ylabel</span><span class="p">:</span>
-</span><span id="Corr.show-812"><a href="#Corr.show-812"><span class="linenos">812</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="n">ylabel</span><span class="p">)</span>
-</span><span id="Corr.show-813"><a href="#Corr.show-813"><span class="linenos">813</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">,</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">])</span>
-</span><span id="Corr.show-814"><a href="#Corr.show-814"><span class="linenos">814</span></a>
-</span><span id="Corr.show-815"><a href="#Corr.show-815"><span class="linenos">815</span></a>        <span class="n">handles</span><span class="p">,</span> <span class="n">labels</span> <span class="o">=</span> <span class="n">ax1</span><span class="o">.</span><span class="n">get_legend_handles_labels</span><span class="p">()</span>
-</span><span id="Corr.show-816"><a href="#Corr.show-816"><span class="linenos">816</span></a>        <span class="k">if</span> <span class="n">labels</span><span class="p">:</span>
-</span><span id="Corr.show-817"><a href="#Corr.show-817"><span class="linenos">817</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
-</span><span id="Corr.show-818"><a href="#Corr.show-818"><span class="linenos">818</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="Corr.show-819"><a href="#Corr.show-819"><span class="linenos">819</span></a>
-</span><span id="Corr.show-820"><a href="#Corr.show-820"><span class="linenos">820</span></a>        <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
-</span><span id="Corr.show-821"><a href="#Corr.show-821"><span class="linenos">821</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">save</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="Corr.show-822"><a href="#Corr.show-822"><span class="linenos">822</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span><span class="p">)</span>
-</span><span id="Corr.show-823"><a href="#Corr.show-823"><span class="linenos">823</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.show-824"><a href="#Corr.show-824"><span class="linenos">824</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;save&#39; has to be a string.&quot;</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.show"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.show-714"><a href="#Corr.show-714"><span class="linenos">714</span></a>    <span class="k">def</span> <span class="nf">show</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">comp</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">y_range</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">logscale</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">plateau</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">fit_res</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">ylabel</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">auto_gamma</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">hide_sigma</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">references</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.show-715"><a href="#Corr.show-715"><span class="linenos">715</span></a>        <span class="sd">&quot;&quot;&quot;Plots the correlator using the tag of the correlator as label if available.</span>
+</span><span id="Corr.show-716"><a href="#Corr.show-716"><span class="linenos">716</span></a>
+</span><span id="Corr.show-717"><a href="#Corr.show-717"><span class="linenos">717</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.show-718"><a href="#Corr.show-718"><span class="linenos">718</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.show-719"><a href="#Corr.show-719"><span class="linenos">719</span></a><span class="sd">        x_range : list</span>
+</span><span id="Corr.show-720"><a href="#Corr.show-720"><span class="linenos">720</span></a><span class="sd">            list of two values, determining the range of the x-axis e.g. [4, 8]</span>
+</span><span id="Corr.show-721"><a href="#Corr.show-721"><span class="linenos">721</span></a><span class="sd">        comp : Corr or list of Corr</span>
+</span><span id="Corr.show-722"><a href="#Corr.show-722"><span class="linenos">722</span></a><span class="sd">            Correlator or list of correlators which are plotted for comparison.</span>
+</span><span id="Corr.show-723"><a href="#Corr.show-723"><span class="linenos">723</span></a><span class="sd">            The tags of these correlators are used as labels if available.</span>
+</span><span id="Corr.show-724"><a href="#Corr.show-724"><span class="linenos">724</span></a><span class="sd">        logscale : bool</span>
+</span><span id="Corr.show-725"><a href="#Corr.show-725"><span class="linenos">725</span></a><span class="sd">            Sets y-axis to logscale</span>
+</span><span id="Corr.show-726"><a href="#Corr.show-726"><span class="linenos">726</span></a><span class="sd">        plateau : Obs</span>
+</span><span id="Corr.show-727"><a href="#Corr.show-727"><span class="linenos">727</span></a><span class="sd">            Plateau value to be visualized in the figure</span>
+</span><span id="Corr.show-728"><a href="#Corr.show-728"><span class="linenos">728</span></a><span class="sd">        fit_res : Fit_result</span>
+</span><span id="Corr.show-729"><a href="#Corr.show-729"><span class="linenos">729</span></a><span class="sd">            Fit_result object to be visualized</span>
+</span><span id="Corr.show-730"><a href="#Corr.show-730"><span class="linenos">730</span></a><span class="sd">        ylabel : str</span>
+</span><span id="Corr.show-731"><a href="#Corr.show-731"><span class="linenos">731</span></a><span class="sd">            Label for the y-axis</span>
+</span><span id="Corr.show-732"><a href="#Corr.show-732"><span class="linenos">732</span></a><span class="sd">        save : str</span>
+</span><span id="Corr.show-733"><a href="#Corr.show-733"><span class="linenos">733</span></a><span class="sd">            path to file in which the figure should be saved</span>
+</span><span id="Corr.show-734"><a href="#Corr.show-734"><span class="linenos">734</span></a><span class="sd">        auto_gamma : bool</span>
+</span><span id="Corr.show-735"><a href="#Corr.show-735"><span class="linenos">735</span></a><span class="sd">            Apply the gamma method with standard parameters to all correlators and plateau values before plotting.</span>
+</span><span id="Corr.show-736"><a href="#Corr.show-736"><span class="linenos">736</span></a><span class="sd">        hide_sigma : float</span>
+</span><span id="Corr.show-737"><a href="#Corr.show-737"><span class="linenos">737</span></a><span class="sd">            Hides data points from the first value on which is consistent with zero within &#39;hide_sigma&#39; standard errors.</span>
+</span><span id="Corr.show-738"><a href="#Corr.show-738"><span class="linenos">738</span></a><span class="sd">        references : list</span>
+</span><span id="Corr.show-739"><a href="#Corr.show-739"><span class="linenos">739</span></a><span class="sd">            List of floating point values that are displayed as horizontal lines for reference.</span>
+</span><span id="Corr.show-740"><a href="#Corr.show-740"><span class="linenos">740</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.show-741"><a href="#Corr.show-741"><span class="linenos">741</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.show-742"><a href="#Corr.show-742"><span class="linenos">742</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator must be projected before plotting&quot;</span><span class="p">)</span>
+</span><span id="Corr.show-743"><a href="#Corr.show-743"><span class="linenos">743</span></a>
+</span><span id="Corr.show-744"><a href="#Corr.show-744"><span class="linenos">744</span></a>        <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
+</span><span id="Corr.show-745"><a href="#Corr.show-745"><span class="linenos">745</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="Corr.show-746"><a href="#Corr.show-746"><span class="linenos">746</span></a>
+</span><span id="Corr.show-747"><a href="#Corr.show-747"><span class="linenos">747</span></a>        <span class="k">if</span> <span class="n">x_range</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr.show-748"><a href="#Corr.show-748"><span class="linenos">748</span></a>            <span class="n">x_range</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
+</span><span id="Corr.show-749"><a href="#Corr.show-749"><span class="linenos">749</span></a>
+</span><span id="Corr.show-750"><a href="#Corr.show-750"><span class="linenos">750</span></a>        <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="Corr.show-751"><a href="#Corr.show-751"><span class="linenos">751</span></a>        <span class="n">ax1</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">111</span><span class="p">)</span>
+</span><span id="Corr.show-752"><a href="#Corr.show-752"><span class="linenos">752</span></a>
+</span><span id="Corr.show-753"><a href="#Corr.show-753"><span class="linenos">753</span></a>        <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">y_err</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">plottable</span><span class="p">()</span>
+</span><span id="Corr.show-754"><a href="#Corr.show-754"><span class="linenos">754</span></a>        <span class="k">if</span> <span class="n">hide_sigma</span><span class="p">:</span>
+</span><span id="Corr.show-755"><a href="#Corr.show-755"><span class="linenos">755</span></a>            <span class="n">hide_from</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">((</span><span class="n">hide_sigma</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">y_err</span><span class="p">))</span> <span class="o">&gt;</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="Corr.show-756"><a href="#Corr.show-756"><span class="linenos">756</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.show-757"><a href="#Corr.show-757"><span class="linenos">757</span></a>            <span class="n">hide_from</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="Corr.show-758"><a href="#Corr.show-758"><span class="linenos">758</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y_err</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">label</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
+</span><span id="Corr.show-759"><a href="#Corr.show-759"><span class="linenos">759</span></a>        <span class="k">if</span> <span class="n">logscale</span><span class="p">:</span>
+</span><span id="Corr.show-760"><a href="#Corr.show-760"><span class="linenos">760</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">set_yscale</span><span class="p">(</span><span class="s1">&#39;log&#39;</span><span class="p">)</span>
+</span><span id="Corr.show-761"><a href="#Corr.show-761"><span class="linenos">761</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.show-762"><a href="#Corr.show-762"><span class="linenos">762</span></a>            <span class="k">if</span> <span class="n">y_range</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr.show-763"><a href="#Corr.show-763"><span class="linenos">763</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="Corr.show-764"><a href="#Corr.show-764"><span class="linenos">764</span></a>                    <span class="n">y_min</span> <span class="o">=</span> <span class="nb">min</span><span class="p">([(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="p">(</span><span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">and</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">&lt;</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="Corr.show-765"><a href="#Corr.show-765"><span class="linenos">765</span></a>                    <span class="n">y_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">if</span> <span class="p">(</span><span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">)</span> <span class="ow">and</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">&lt;</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="Corr.show-766"><a href="#Corr.show-766"><span class="linenos">766</span></a>                    <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">([</span><span class="n">y_min</span> <span class="o">-</span> <span class="mf">0.1</span> <span class="o">*</span> <span class="p">(</span><span class="n">y_max</span> <span class="o">-</span> <span class="n">y_min</span><span class="p">),</span> <span class="n">y_max</span> <span class="o">+</span> <span class="mf">0.1</span> <span class="o">*</span> <span class="p">(</span><span class="n">y_max</span> <span class="o">-</span> <span class="n">y_min</span><span class="p">)])</span>
+</span><span id="Corr.show-767"><a href="#Corr.show-767"><span class="linenos">767</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="Corr.show-768"><a href="#Corr.show-768"><span class="linenos">768</span></a>                    <span class="k">pass</span>
+</span><span id="Corr.show-769"><a href="#Corr.show-769"><span class="linenos">769</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.show-770"><a href="#Corr.show-770"><span class="linenos">770</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">(</span><span class="n">y_range</span><span class="p">)</span>
+</span><span id="Corr.show-771"><a href="#Corr.show-771"><span class="linenos">771</span></a>        <span class="k">if</span> <span class="n">comp</span><span class="p">:</span>
+</span><span id="Corr.show-772"><a href="#Corr.show-772"><span class="linenos">772</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">comp</span><span class="p">,</span> <span class="p">(</span><span class="n">Corr</span><span class="p">,</span> <span class="nb">list</span><span class="p">)):</span>
+</span><span id="Corr.show-773"><a href="#Corr.show-773"><span class="linenos">773</span></a>                <span class="k">for</span> <span class="n">corr</span> <span class="ow">in</span> <span class="n">comp</span> <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">comp</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="k">else</span> <span class="p">[</span><span class="n">comp</span><span class="p">]:</span>
+</span><span id="Corr.show-774"><a href="#Corr.show-774"><span class="linenos">774</span></a>                    <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
+</span><span id="Corr.show-775"><a href="#Corr.show-775"><span class="linenos">775</span></a>                        <span class="n">corr</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="Corr.show-776"><a href="#Corr.show-776"><span class="linenos">776</span></a>                    <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">y_err</span> <span class="o">=</span> <span class="n">corr</span><span class="o">.</span><span class="n">plottable</span><span class="p">()</span>
+</span><span id="Corr.show-777"><a href="#Corr.show-777"><span class="linenos">777</span></a>                    <span class="k">if</span> <span class="n">hide_sigma</span><span class="p">:</span>
+</span><span id="Corr.show-778"><a href="#Corr.show-778"><span class="linenos">778</span></a>                        <span class="n">hide_from</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">((</span><span class="n">hide_sigma</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">y_err</span><span class="p">))</span> <span class="o">&gt;</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">y</span><span class="p">))</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="Corr.show-779"><a href="#Corr.show-779"><span class="linenos">779</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.show-780"><a href="#Corr.show-780"><span class="linenos">780</span></a>                        <span class="n">hide_from</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="Corr.show-781"><a href="#Corr.show-781"><span class="linenos">781</span></a>                    <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">y_err</span><span class="p">[:</span><span class="n">hide_from</span><span class="p">],</span> <span class="n">label</span><span class="o">=</span><span class="n">corr</span><span class="o">.</span><span class="n">tag</span><span class="p">,</span> <span class="n">mfc</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;axes.facecolor&#39;</span><span class="p">])</span>
+</span><span id="Corr.show-782"><a href="#Corr.show-782"><span class="linenos">782</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.show-783"><a href="#Corr.show-783"><span class="linenos">783</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;comp&#39; must be a correlator or a list of correlators.&quot;</span><span class="p">)</span>
+</span><span id="Corr.show-784"><a href="#Corr.show-784"><span class="linenos">784</span></a>
+</span><span id="Corr.show-785"><a href="#Corr.show-785"><span class="linenos">785</span></a>        <span class="k">if</span> <span class="n">plateau</span><span class="p">:</span>
+</span><span id="Corr.show-786"><a href="#Corr.show-786"><span class="linenos">786</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">plateau</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="Corr.show-787"><a href="#Corr.show-787"><span class="linenos">787</span></a>                <span class="k">if</span> <span class="n">auto_gamma</span><span class="p">:</span>
+</span><span id="Corr.show-788"><a href="#Corr.show-788"><span class="linenos">788</span></a>                    <span class="n">plateau</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="Corr.show-789"><a href="#Corr.show-789"><span class="linenos">789</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="n">plateau</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="nb">str</span><span class="p">(</span><span class="n">plateau</span><span class="p">))</span>
+</span><span id="Corr.show-790"><a href="#Corr.show-790"><span class="linenos">790</span></a>                <span class="n">ax1</span><span class="o">.</span><span class="n">axhspan</span><span class="p">(</span><span class="n">plateau</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">plateau</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">plateau</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">plateau</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.25</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">)</span>
+</span><span id="Corr.show-791"><a href="#Corr.show-791"><span class="linenos">791</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.show-792"><a href="#Corr.show-792"><span class="linenos">792</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;plateau&#39; must be an Obs&quot;</span><span class="p">)</span>
+</span><span id="Corr.show-793"><a href="#Corr.show-793"><span class="linenos">793</span></a>
+</span><span id="Corr.show-794"><a href="#Corr.show-794"><span class="linenos">794</span></a>        <span class="k">if</span> <span class="n">references</span><span class="p">:</span>
+</span><span id="Corr.show-795"><a href="#Corr.show-795"><span class="linenos">795</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">references</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="Corr.show-796"><a href="#Corr.show-796"><span class="linenos">796</span></a>                <span class="k">for</span> <span class="n">ref</span> <span class="ow">in</span> <span class="n">references</span><span class="p">:</span>
+</span><span id="Corr.show-797"><a href="#Corr.show-797"><span class="linenos">797</span></a>                    <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="n">ref</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;text.color&#39;</span><span class="p">],</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">)</span>
+</span><span id="Corr.show-798"><a href="#Corr.show-798"><span class="linenos">798</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.show-799"><a href="#Corr.show-799"><span class="linenos">799</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;references&#39; must be a list of floating pint values.&quot;</span><span class="p">)</span>
+</span><span id="Corr.show-800"><a href="#Corr.show-800"><span class="linenos">800</span></a>
+</span><span id="Corr.show-801"><a href="#Corr.show-801"><span class="linenos">801</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">:</span>
+</span><span id="Corr.show-802"><a href="#Corr.show-802"><span class="linenos">802</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="Corr.show-803"><a href="#Corr.show-803"><span class="linenos">803</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="Corr.show-804"><a href="#Corr.show-804"><span class="linenos">804</span></a>
+</span><span id="Corr.show-805"><a href="#Corr.show-805"><span class="linenos">805</span></a>        <span class="k">if</span> <span class="n">fit_res</span><span class="p">:</span>
+</span><span id="Corr.show-806"><a href="#Corr.show-806"><span class="linenos">806</span></a>            <span class="n">x_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mf">0.05</span><span class="p">)</span>
+</span><span id="Corr.show-807"><a href="#Corr.show-807"><span class="linenos">807</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span>
+</span><span id="Corr.show-808"><a href="#Corr.show-808"><span class="linenos">808</span></a>                     <span class="n">fit_res</span><span class="o">.</span><span class="n">fit_function</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">],</span> <span class="n">x_samples</span><span class="p">),</span>
+</span><span id="Corr.show-809"><a href="#Corr.show-809"><span class="linenos">809</span></a>                     <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
+</span><span id="Corr.show-810"><a href="#Corr.show-810"><span class="linenos">810</span></a>
+</span><span id="Corr.show-811"><a href="#Corr.show-811"><span class="linenos">811</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$x_0 / a$&#39;</span><span class="p">)</span>
+</span><span id="Corr.show-812"><a href="#Corr.show-812"><span class="linenos">812</span></a>        <span class="k">if</span> <span class="n">ylabel</span><span class="p">:</span>
+</span><span id="Corr.show-813"><a href="#Corr.show-813"><span class="linenos">813</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="n">ylabel</span><span class="p">)</span>
+</span><span id="Corr.show-814"><a href="#Corr.show-814"><span class="linenos">814</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">x_range</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">,</span> <span class="n">x_range</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">])</span>
+</span><span id="Corr.show-815"><a href="#Corr.show-815"><span class="linenos">815</span></a>
+</span><span id="Corr.show-816"><a href="#Corr.show-816"><span class="linenos">816</span></a>        <span class="n">handles</span><span class="p">,</span> <span class="n">labels</span> <span class="o">=</span> <span class="n">ax1</span><span class="o">.</span><span class="n">get_legend_handles_labels</span><span class="p">()</span>
+</span><span id="Corr.show-817"><a href="#Corr.show-817"><span class="linenos">817</span></a>        <span class="k">if</span> <span class="n">labels</span><span class="p">:</span>
+</span><span id="Corr.show-818"><a href="#Corr.show-818"><span class="linenos">818</span></a>            <span class="n">ax1</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
+</span><span id="Corr.show-819"><a href="#Corr.show-819"><span class="linenos">819</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="Corr.show-820"><a href="#Corr.show-820"><span class="linenos">820</span></a>
+</span><span id="Corr.show-821"><a href="#Corr.show-821"><span class="linenos">821</span></a>        <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
+</span><span id="Corr.show-822"><a href="#Corr.show-822"><span class="linenos">822</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">save</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="Corr.show-823"><a href="#Corr.show-823"><span class="linenos">823</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span><span class="p">)</span>
+</span><span id="Corr.show-824"><a href="#Corr.show-824"><span class="linenos">824</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.show-825"><a href="#Corr.show-825"><span class="linenos">825</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;save&#39; has to be a string.&quot;</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Plots the correlator using the tag of the correlator as label if available.</p>
 
@@ -4087,46 +4075,46 @@ List of floating point values that are displayed as horizontal lines for referen
 
                             </div>
                             <div id="Corr.spaghetti_plot" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.spaghetti_plot">#&nbsp;&nbsp</a>
+                                        <input id="Corr.spaghetti_plot-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">spaghetti_plot</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">logscale</span><span class="o">=</span><span class="kc">True</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.spaghetti_plot-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">spaghetti_plot</span><span class="signature">(self, logscale=True)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.spaghetti_plot-826"><a href="#Corr.spaghetti_plot-826"><span class="linenos">826</span></a>    <span class="k">def</span> <span class="nf">spaghetti_plot</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">logscale</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="Corr.spaghetti_plot-827"><a href="#Corr.spaghetti_plot-827"><span class="linenos">827</span></a>        <span class="sd">&quot;&quot;&quot;Produces a spaghetti plot of the correlator suited to monitor exceptional configurations.</span>
-</span><span id="Corr.spaghetti_plot-828"><a href="#Corr.spaghetti_plot-828"><span class="linenos">828</span></a>
-</span><span id="Corr.spaghetti_plot-829"><a href="#Corr.spaghetti_plot-829"><span class="linenos">829</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.spaghetti_plot-830"><a href="#Corr.spaghetti_plot-830"><span class="linenos">830</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.spaghetti_plot-831"><a href="#Corr.spaghetti_plot-831"><span class="linenos">831</span></a><span class="sd">        logscale : bool</span>
-</span><span id="Corr.spaghetti_plot-832"><a href="#Corr.spaghetti_plot-832"><span class="linenos">832</span></a><span class="sd">            Determines whether the scale of the y-axis is logarithmic or standard.</span>
-</span><span id="Corr.spaghetti_plot-833"><a href="#Corr.spaghetti_plot-833"><span class="linenos">833</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.spaghetti_plot-834"><a href="#Corr.spaghetti_plot-834"><span class="linenos">834</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.spaghetti_plot-835"><a href="#Corr.spaghetti_plot-835"><span class="linenos">835</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator needs to be projected first.&quot;</span><span class="p">)</span>
-</span><span id="Corr.spaghetti_plot-836"><a href="#Corr.spaghetti_plot-836"><span class="linenos">836</span></a>
-</span><span id="Corr.spaghetti_plot-837"><a href="#Corr.spaghetti_plot-837"><span class="linenos">837</span></a>        <span class="n">mc_names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">mc_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]))</span>
-</span><span id="Corr.spaghetti_plot-838"><a href="#Corr.spaghetti_plot-838"><span class="linenos">838</span></a>        <span class="n">x0_vals</span> <span class="o">=</span> <span class="p">[</span><span class="n">n</span> <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">o</span><span class="p">)</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
-</span><span id="Corr.spaghetti_plot-839"><a href="#Corr.spaghetti_plot-839"><span class="linenos">839</span></a>
-</span><span id="Corr.spaghetti_plot-840"><a href="#Corr.spaghetti_plot-840"><span class="linenos">840</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
-</span><span id="Corr.spaghetti_plot-841"><a href="#Corr.spaghetti_plot-841"><span class="linenos">841</span></a>            <span class="n">data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span><span class="o">.</span><span class="n">T</span>
-</span><span id="Corr.spaghetti_plot-842"><a href="#Corr.spaghetti_plot-842"><span class="linenos">842</span></a>
-</span><span id="Corr.spaghetti_plot-843"><a href="#Corr.spaghetti_plot-843"><span class="linenos">843</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="Corr.spaghetti_plot-844"><a href="#Corr.spaghetti_plot-844"><span class="linenos">844</span></a>            <span class="n">ax</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">111</span><span class="p">)</span>
-</span><span id="Corr.spaghetti_plot-845"><a href="#Corr.spaghetti_plot-845"><span class="linenos">845</span></a>            <span class="k">for</span> <span class="n">dat</span> <span class="ow">in</span> <span class="n">data</span><span class="p">:</span>
-</span><span id="Corr.spaghetti_plot-846"><a href="#Corr.spaghetti_plot-846"><span class="linenos">846</span></a>                <span class="n">ax</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x0_vals</span><span class="p">,</span> <span class="n">dat</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="Corr.spaghetti_plot-847"><a href="#Corr.spaghetti_plot-847"><span class="linenos">847</span></a>
-</span><span id="Corr.spaghetti_plot-848"><a href="#Corr.spaghetti_plot-848"><span class="linenos">848</span></a>            <span class="k">if</span> <span class="n">logscale</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="Corr.spaghetti_plot-849"><a href="#Corr.spaghetti_plot-849"><span class="linenos">849</span></a>                <span class="n">ax</span><span class="o">.</span><span class="n">set_yscale</span><span class="p">(</span><span class="s1">&#39;log&#39;</span><span class="p">)</span>
-</span><span id="Corr.spaghetti_plot-850"><a href="#Corr.spaghetti_plot-850"><span class="linenos">850</span></a>
-</span><span id="Corr.spaghetti_plot-851"><a href="#Corr.spaghetti_plot-851"><span class="linenos">851</span></a>            <span class="n">ax</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$x_0 / a$&#39;</span><span class="p">)</span>
-</span><span id="Corr.spaghetti_plot-852"><a href="#Corr.spaghetti_plot-852"><span class="linenos">852</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="Corr.spaghetti_plot-853"><a href="#Corr.spaghetti_plot-853"><span class="linenos">853</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+    <a class="headerlink" href="#Corr.spaghetti_plot"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.spaghetti_plot-827"><a href="#Corr.spaghetti_plot-827"><span class="linenos">827</span></a>    <span class="k">def</span> <span class="nf">spaghetti_plot</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">logscale</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="Corr.spaghetti_plot-828"><a href="#Corr.spaghetti_plot-828"><span class="linenos">828</span></a>        <span class="sd">&quot;&quot;&quot;Produces a spaghetti plot of the correlator suited to monitor exceptional configurations.</span>
+</span><span id="Corr.spaghetti_plot-829"><a href="#Corr.spaghetti_plot-829"><span class="linenos">829</span></a>
+</span><span id="Corr.spaghetti_plot-830"><a href="#Corr.spaghetti_plot-830"><span class="linenos">830</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.spaghetti_plot-831"><a href="#Corr.spaghetti_plot-831"><span class="linenos">831</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.spaghetti_plot-832"><a href="#Corr.spaghetti_plot-832"><span class="linenos">832</span></a><span class="sd">        logscale : bool</span>
+</span><span id="Corr.spaghetti_plot-833"><a href="#Corr.spaghetti_plot-833"><span class="linenos">833</span></a><span class="sd">            Determines whether the scale of the y-axis is logarithmic or standard.</span>
+</span><span id="Corr.spaghetti_plot-834"><a href="#Corr.spaghetti_plot-834"><span class="linenos">834</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.spaghetti_plot-835"><a href="#Corr.spaghetti_plot-835"><span class="linenos">835</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.spaghetti_plot-836"><a href="#Corr.spaghetti_plot-836"><span class="linenos">836</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Correlator needs to be projected first.&quot;</span><span class="p">)</span>
+</span><span id="Corr.spaghetti_plot-837"><a href="#Corr.spaghetti_plot-837"><span class="linenos">837</span></a>
+</span><span id="Corr.spaghetti_plot-838"><a href="#Corr.spaghetti_plot-838"><span class="linenos">838</span></a>        <span class="n">mc_names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">mc_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]))</span>
+</span><span id="Corr.spaghetti_plot-839"><a href="#Corr.spaghetti_plot-839"><span class="linenos">839</span></a>        <span class="n">x0_vals</span> <span class="o">=</span> <span class="p">[</span><span class="n">n</span> <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">o</span><span class="p">)</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">)</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">]</span>
+</span><span id="Corr.spaghetti_plot-840"><a href="#Corr.spaghetti_plot-840"><span class="linenos">840</span></a>
+</span><span id="Corr.spaghetti_plot-841"><a href="#Corr.spaghetti_plot-841"><span class="linenos">841</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
+</span><span id="Corr.spaghetti_plot-842"><a href="#Corr.spaghetti_plot-842"><span class="linenos">842</span></a>            <span class="n">data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span><span class="o">.</span><span class="n">T</span>
+</span><span id="Corr.spaghetti_plot-843"><a href="#Corr.spaghetti_plot-843"><span class="linenos">843</span></a>
+</span><span id="Corr.spaghetti_plot-844"><a href="#Corr.spaghetti_plot-844"><span class="linenos">844</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="Corr.spaghetti_plot-845"><a href="#Corr.spaghetti_plot-845"><span class="linenos">845</span></a>            <span class="n">ax</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">add_subplot</span><span class="p">(</span><span class="mi">111</span><span class="p">)</span>
+</span><span id="Corr.spaghetti_plot-846"><a href="#Corr.spaghetti_plot-846"><span class="linenos">846</span></a>            <span class="k">for</span> <span class="n">dat</span> <span class="ow">in</span> <span class="n">data</span><span class="p">:</span>
+</span><span id="Corr.spaghetti_plot-847"><a href="#Corr.spaghetti_plot-847"><span class="linenos">847</span></a>                <span class="n">ax</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x0_vals</span><span class="p">,</span> <span class="n">dat</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="Corr.spaghetti_plot-848"><a href="#Corr.spaghetti_plot-848"><span class="linenos">848</span></a>
+</span><span id="Corr.spaghetti_plot-849"><a href="#Corr.spaghetti_plot-849"><span class="linenos">849</span></a>            <span class="k">if</span> <span class="n">logscale</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="Corr.spaghetti_plot-850"><a href="#Corr.spaghetti_plot-850"><span class="linenos">850</span></a>                <span class="n">ax</span><span class="o">.</span><span class="n">set_yscale</span><span class="p">(</span><span class="s1">&#39;log&#39;</span><span class="p">)</span>
+</span><span id="Corr.spaghetti_plot-851"><a href="#Corr.spaghetti_plot-851"><span class="linenos">851</span></a>
+</span><span id="Corr.spaghetti_plot-852"><a href="#Corr.spaghetti_plot-852"><span class="linenos">852</span></a>            <span class="n">ax</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$x_0 / a$&#39;</span><span class="p">)</span>
+</span><span id="Corr.spaghetti_plot-853"><a href="#Corr.spaghetti_plot-853"><span class="linenos">853</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="Corr.spaghetti_plot-854"><a href="#Corr.spaghetti_plot-854"><span class="linenos">854</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Produces a spaghetti plot of the correlator suited to monitor exceptional configurations.</p>
 
@@ -4141,41 +4129,41 @@ Determines whether the scale of the y-axis is logarithmic or standard.</li>
 
                             </div>
                             <div id="Corr.dump" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.dump">#&nbsp;&nbsp</a>
+                                        <input id="Corr.dump-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">dump</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">filename</span>, </span><span class="param"><span class="n">datatype</span><span class="o">=</span><span class="s1">&#39;json.gz&#39;</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.dump-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">dump</span><span class="signature">(self, filename, datatype=&#39;json.gz&#39;, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.dump-855"><a href="#Corr.dump-855"><span class="linenos">855</span></a>    <span class="k">def</span> <span class="nf">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="n">datatype</span><span class="o">=</span><span class="s2">&quot;json.gz&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Corr.dump-856"><a href="#Corr.dump-856"><span class="linenos">856</span></a>        <span class="sd">&quot;&quot;&quot;Dumps the Corr into a file of chosen type</span>
-</span><span id="Corr.dump-857"><a href="#Corr.dump-857"><span class="linenos">857</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.dump-858"><a href="#Corr.dump-858"><span class="linenos">858</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.dump-859"><a href="#Corr.dump-859"><span class="linenos">859</span></a><span class="sd">        filename : str</span>
-</span><span id="Corr.dump-860"><a href="#Corr.dump-860"><span class="linenos">860</span></a><span class="sd">            Name of the file to be saved.</span>
-</span><span id="Corr.dump-861"><a href="#Corr.dump-861"><span class="linenos">861</span></a><span class="sd">        datatype : str</span>
-</span><span id="Corr.dump-862"><a href="#Corr.dump-862"><span class="linenos">862</span></a><span class="sd">            Format of the exported file. Supported formats include</span>
-</span><span id="Corr.dump-863"><a href="#Corr.dump-863"><span class="linenos">863</span></a><span class="sd">            &quot;json.gz&quot; and &quot;pickle&quot;</span>
-</span><span id="Corr.dump-864"><a href="#Corr.dump-864"><span class="linenos">864</span></a><span class="sd">        path : str</span>
-</span><span id="Corr.dump-865"><a href="#Corr.dump-865"><span class="linenos">865</span></a><span class="sd">            specifies a custom path for the file (default &#39;.&#39;)</span>
-</span><span id="Corr.dump-866"><a href="#Corr.dump-866"><span class="linenos">866</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Corr.dump-867"><a href="#Corr.dump-867"><span class="linenos">867</span></a>        <span class="k">if</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;json.gz&quot;</span><span class="p">:</span>
-</span><span id="Corr.dump-868"><a href="#Corr.dump-868"><span class="linenos">868</span></a>            <span class="kn">from</span> <span class="nn">.input.json</span> <span class="kn">import</span> <span class="n">dump_to_json</span>
-</span><span id="Corr.dump-869"><a href="#Corr.dump-869"><span class="linenos">869</span></a>            <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="Corr.dump-870"><a href="#Corr.dump-870"><span class="linenos">870</span></a>                <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">filename</span>
-</span><span id="Corr.dump-871"><a href="#Corr.dump-871"><span class="linenos">871</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.dump-872"><a href="#Corr.dump-872"><span class="linenos">872</span></a>                <span class="n">file_name</span> <span class="o">=</span> <span class="n">filename</span>
-</span><span id="Corr.dump-873"><a href="#Corr.dump-873"><span class="linenos">873</span></a>            <span class="n">dump_to_json</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">file_name</span><span class="p">)</span>
-</span><span id="Corr.dump-874"><a href="#Corr.dump-874"><span class="linenos">874</span></a>        <span class="k">elif</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;pickle&quot;</span><span class="p">:</span>
-</span><span id="Corr.dump-875"><a href="#Corr.dump-875"><span class="linenos">875</span></a>            <span class="n">dump_object</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="Corr.dump-876"><a href="#Corr.dump-876"><span class="linenos">876</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Corr.dump-877"><a href="#Corr.dump-877"><span class="linenos">877</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown datatype &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">datatype</span><span class="p">))</span>
+    <a class="headerlink" href="#Corr.dump"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.dump-856"><a href="#Corr.dump-856"><span class="linenos">856</span></a>    <span class="k">def</span> <span class="nf">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="n">datatype</span><span class="o">=</span><span class="s2">&quot;json.gz&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Corr.dump-857"><a href="#Corr.dump-857"><span class="linenos">857</span></a>        <span class="sd">&quot;&quot;&quot;Dumps the Corr into a file of chosen type</span>
+</span><span id="Corr.dump-858"><a href="#Corr.dump-858"><span class="linenos">858</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.dump-859"><a href="#Corr.dump-859"><span class="linenos">859</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.dump-860"><a href="#Corr.dump-860"><span class="linenos">860</span></a><span class="sd">        filename : str</span>
+</span><span id="Corr.dump-861"><a href="#Corr.dump-861"><span class="linenos">861</span></a><span class="sd">            Name of the file to be saved.</span>
+</span><span id="Corr.dump-862"><a href="#Corr.dump-862"><span class="linenos">862</span></a><span class="sd">        datatype : str</span>
+</span><span id="Corr.dump-863"><a href="#Corr.dump-863"><span class="linenos">863</span></a><span class="sd">            Format of the exported file. Supported formats include</span>
+</span><span id="Corr.dump-864"><a href="#Corr.dump-864"><span class="linenos">864</span></a><span class="sd">            &quot;json.gz&quot; and &quot;pickle&quot;</span>
+</span><span id="Corr.dump-865"><a href="#Corr.dump-865"><span class="linenos">865</span></a><span class="sd">        path : str</span>
+</span><span id="Corr.dump-866"><a href="#Corr.dump-866"><span class="linenos">866</span></a><span class="sd">            specifies a custom path for the file (default &#39;.&#39;)</span>
+</span><span id="Corr.dump-867"><a href="#Corr.dump-867"><span class="linenos">867</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Corr.dump-868"><a href="#Corr.dump-868"><span class="linenos">868</span></a>        <span class="k">if</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;json.gz&quot;</span><span class="p">:</span>
+</span><span id="Corr.dump-869"><a href="#Corr.dump-869"><span class="linenos">869</span></a>            <span class="kn">from</span> <span class="nn">.input.json</span> <span class="kn">import</span> <span class="n">dump_to_json</span>
+</span><span id="Corr.dump-870"><a href="#Corr.dump-870"><span class="linenos">870</span></a>            <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="Corr.dump-871"><a href="#Corr.dump-871"><span class="linenos">871</span></a>                <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">filename</span>
+</span><span id="Corr.dump-872"><a href="#Corr.dump-872"><span class="linenos">872</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.dump-873"><a href="#Corr.dump-873"><span class="linenos">873</span></a>                <span class="n">file_name</span> <span class="o">=</span> <span class="n">filename</span>
+</span><span id="Corr.dump-874"><a href="#Corr.dump-874"><span class="linenos">874</span></a>            <span class="n">dump_to_json</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">file_name</span><span class="p">)</span>
+</span><span id="Corr.dump-875"><a href="#Corr.dump-875"><span class="linenos">875</span></a>        <span class="k">elif</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;pickle&quot;</span><span class="p">:</span>
+</span><span id="Corr.dump-876"><a href="#Corr.dump-876"><span class="linenos">876</span></a>            <span class="n">dump_object</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="Corr.dump-877"><a href="#Corr.dump-877"><span class="linenos">877</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Corr.dump-878"><a href="#Corr.dump-878"><span class="linenos">878</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown datatype &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">datatype</span><span class="p">))</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Dumps the Corr into a file of chosen type</p>
 
@@ -4195,402 +4183,404 @@ specifies a custom path for the file (default '.')</li>
 
                             </div>
                             <div id="Corr.print" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.print">#&nbsp;&nbsp</a>
+                                        <input id="Corr.print-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">print</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="nb">range</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="kc">None</span><span class="p">]</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.print-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">print</span><span class="signature">(self, range=[0, None])</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.print-879"><a href="#Corr.print-879"><span class="linenos">879</span></a>    <span class="k">def</span> <span class="nf">print</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="nb">range</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="kc">None</span><span class="p">]):</span>
-</span><span id="Corr.print-880"><a href="#Corr.print-880"><span class="linenos">880</span></a>        <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="fm">__repr__</span><span class="p">(</span><span class="nb">range</span><span class="p">))</span>
+    <a class="headerlink" href="#Corr.print"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.print-880"><a href="#Corr.print-880"><span class="linenos">880</span></a>    <span class="k">def</span> <span class="nf">print</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="nb">range</span><span class="o">=</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="kc">None</span><span class="p">]):</span>
+</span><span id="Corr.print-881"><a href="#Corr.print-881"><span class="linenos">881</span></a>        <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="fm">__repr__</span><span class="p">(</span><span class="nb">range</span><span class="p">))</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.sqrt" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.sqrt">#&nbsp;&nbsp</a>
+                                        <input id="Corr.sqrt-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">sqrt</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.sqrt-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">sqrt</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.sqrt-1042"><a href="#Corr.sqrt-1042"><span class="linenos">1042</span></a>    <span class="k">def</span> <span class="nf">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.sqrt-1043"><a href="#Corr.sqrt-1043"><span class="linenos">1043</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">**</span><span class="mf">0.5</span>
+    <a class="headerlink" href="#Corr.sqrt"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.sqrt-1043"><a href="#Corr.sqrt-1043"><span class="linenos">1043</span></a>    <span class="k">def</span> <span class="nf">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.sqrt-1044"><a href="#Corr.sqrt-1044"><span class="linenos">1044</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">**</span><span class="mf">0.5</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.log" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.log">#&nbsp;&nbsp</a>
+                                        <input id="Corr.log-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">log</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.log-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">log</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.log-1045"><a href="#Corr.log-1045"><span class="linenos">1045</span></a>    <span class="k">def</span> <span class="nf">log</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.log-1046"><a href="#Corr.log-1046"><span class="linenos">1046</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr.log-1047"><a href="#Corr.log-1047"><span class="linenos">1047</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.log"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.log-1046"><a href="#Corr.log-1046"><span class="linenos">1046</span></a>    <span class="k">def</span> <span class="nf">log</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.log-1047"><a href="#Corr.log-1047"><span class="linenos">1047</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr.log-1048"><a href="#Corr.log-1048"><span class="linenos">1048</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.exp" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.exp">#&nbsp;&nbsp</a>
+                                        <input id="Corr.exp-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">exp</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.exp-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">exp</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.exp-1049"><a href="#Corr.exp-1049"><span class="linenos">1049</span></a>    <span class="k">def</span> <span class="nf">exp</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.exp-1050"><a href="#Corr.exp-1050"><span class="linenos">1050</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="Corr.exp-1051"><a href="#Corr.exp-1051"><span class="linenos">1051</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.exp"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.exp-1050"><a href="#Corr.exp-1050"><span class="linenos">1050</span></a>    <span class="k">def</span> <span class="nf">exp</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.exp-1051"><a href="#Corr.exp-1051"><span class="linenos">1051</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="n">item</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">item</span><span class="p">)</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="Corr.exp-1052"><a href="#Corr.exp-1052"><span class="linenos">1052</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">,</span> <span class="n">prange</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">prange</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.sin" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.sin">#&nbsp;&nbsp</a>
+                                        <input id="Corr.sin-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">sin</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.sin-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">sin</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.sin-1064"><a href="#Corr.sin-1064"><span class="linenos">1064</span></a>    <span class="k">def</span> <span class="nf">sin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.sin-1065"><a href="#Corr.sin-1065"><span class="linenos">1065</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.sin"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.sin-1065"><a href="#Corr.sin-1065"><span class="linenos">1065</span></a>    <span class="k">def</span> <span class="nf">sin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.sin-1066"><a href="#Corr.sin-1066"><span class="linenos">1066</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.cos" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.cos">#&nbsp;&nbsp</a>
+                                        <input id="Corr.cos-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">cos</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.cos-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">cos</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.cos-1067"><a href="#Corr.cos-1067"><span class="linenos">1067</span></a>    <span class="k">def</span> <span class="nf">cos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.cos-1068"><a href="#Corr.cos-1068"><span class="linenos">1068</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.cos"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.cos-1068"><a href="#Corr.cos-1068"><span class="linenos">1068</span></a>    <span class="k">def</span> <span class="nf">cos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.cos-1069"><a href="#Corr.cos-1069"><span class="linenos">1069</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.tan" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.tan">#&nbsp;&nbsp</a>
+                                        <input id="Corr.tan-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">tan</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.tan-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">tan</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.tan-1070"><a href="#Corr.tan-1070"><span class="linenos">1070</span></a>    <span class="k">def</span> <span class="nf">tan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.tan-1071"><a href="#Corr.tan-1071"><span class="linenos">1071</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">tan</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.tan"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.tan-1071"><a href="#Corr.tan-1071"><span class="linenos">1071</span></a>    <span class="k">def</span> <span class="nf">tan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.tan-1072"><a href="#Corr.tan-1072"><span class="linenos">1072</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">tan</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.sinh" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.sinh">#&nbsp;&nbsp</a>
+                                        <input id="Corr.sinh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">sinh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.sinh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">sinh</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.sinh-1073"><a href="#Corr.sinh-1073"><span class="linenos">1073</span></a>    <span class="k">def</span> <span class="nf">sinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.sinh-1074"><a href="#Corr.sinh-1074"><span class="linenos">1074</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.sinh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.sinh-1074"><a href="#Corr.sinh-1074"><span class="linenos">1074</span></a>    <span class="k">def</span> <span class="nf">sinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.sinh-1075"><a href="#Corr.sinh-1075"><span class="linenos">1075</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.cosh" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.cosh">#&nbsp;&nbsp</a>
+                                        <input id="Corr.cosh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">cosh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.cosh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">cosh</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.cosh-1076"><a href="#Corr.cosh-1076"><span class="linenos">1076</span></a>    <span class="k">def</span> <span class="nf">cosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.cosh-1077"><a href="#Corr.cosh-1077"><span class="linenos">1077</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.cosh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.cosh-1077"><a href="#Corr.cosh-1077"><span class="linenos">1077</span></a>    <span class="k">def</span> <span class="nf">cosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.cosh-1078"><a href="#Corr.cosh-1078"><span class="linenos">1078</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.tanh" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.tanh">#&nbsp;&nbsp</a>
+                                        <input id="Corr.tanh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">tanh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.tanh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">tanh</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.tanh-1079"><a href="#Corr.tanh-1079"><span class="linenos">1079</span></a>    <span class="k">def</span> <span class="nf">tanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.tanh-1080"><a href="#Corr.tanh-1080"><span class="linenos">1080</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">tanh</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.tanh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.tanh-1080"><a href="#Corr.tanh-1080"><span class="linenos">1080</span></a>    <span class="k">def</span> <span class="nf">tanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.tanh-1081"><a href="#Corr.tanh-1081"><span class="linenos">1081</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">tanh</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.arcsin" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.arcsin">#&nbsp;&nbsp</a>
+                                        <input id="Corr.arcsin-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">arcsin</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.arcsin-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">arcsin</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.arcsin-1082"><a href="#Corr.arcsin-1082"><span class="linenos">1082</span></a>    <span class="k">def</span> <span class="nf">arcsin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.arcsin-1083"><a href="#Corr.arcsin-1083"><span class="linenos">1083</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arcsin</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.arcsin"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.arcsin-1083"><a href="#Corr.arcsin-1083"><span class="linenos">1083</span></a>    <span class="k">def</span> <span class="nf">arcsin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.arcsin-1084"><a href="#Corr.arcsin-1084"><span class="linenos">1084</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arcsin</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.arccos" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.arccos">#&nbsp;&nbsp</a>
+                                        <input id="Corr.arccos-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">arccos</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.arccos-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">arccos</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.arccos-1085"><a href="#Corr.arccos-1085"><span class="linenos">1085</span></a>    <span class="k">def</span> <span class="nf">arccos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.arccos-1086"><a href="#Corr.arccos-1086"><span class="linenos">1086</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arccos</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.arccos"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.arccos-1086"><a href="#Corr.arccos-1086"><span class="linenos">1086</span></a>    <span class="k">def</span> <span class="nf">arccos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.arccos-1087"><a href="#Corr.arccos-1087"><span class="linenos">1087</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arccos</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.arctan" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.arctan">#&nbsp;&nbsp</a>
+                                        <input id="Corr.arctan-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">arctan</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.arctan-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">arctan</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.arctan-1088"><a href="#Corr.arctan-1088"><span class="linenos">1088</span></a>    <span class="k">def</span> <span class="nf">arctan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.arctan-1089"><a href="#Corr.arctan-1089"><span class="linenos">1089</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arctan</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.arctan"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.arctan-1089"><a href="#Corr.arctan-1089"><span class="linenos">1089</span></a>    <span class="k">def</span> <span class="nf">arctan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.arctan-1090"><a href="#Corr.arctan-1090"><span class="linenos">1090</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arctan</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.arcsinh" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.arcsinh">#&nbsp;&nbsp</a>
+                                        <input id="Corr.arcsinh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">arcsinh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.arcsinh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">arcsinh</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.arcsinh-1091"><a href="#Corr.arcsinh-1091"><span class="linenos">1091</span></a>    <span class="k">def</span> <span class="nf">arcsinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.arcsinh-1092"><a href="#Corr.arcsinh-1092"><span class="linenos">1092</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arcsinh</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.arcsinh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.arcsinh-1092"><a href="#Corr.arcsinh-1092"><span class="linenos">1092</span></a>    <span class="k">def</span> <span class="nf">arcsinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.arcsinh-1093"><a href="#Corr.arcsinh-1093"><span class="linenos">1093</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arcsinh</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.arccosh" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.arccosh">#&nbsp;&nbsp</a>
+                                        <input id="Corr.arccosh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">arccosh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.arccosh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">arccosh</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.arccosh-1094"><a href="#Corr.arccosh-1094"><span class="linenos">1094</span></a>    <span class="k">def</span> <span class="nf">arccosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.arccosh-1095"><a href="#Corr.arccosh-1095"><span class="linenos">1095</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arccosh</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.arccosh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.arccosh-1095"><a href="#Corr.arccosh-1095"><span class="linenos">1095</span></a>    <span class="k">def</span> <span class="nf">arccosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.arccosh-1096"><a href="#Corr.arccosh-1096"><span class="linenos">1096</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arccosh</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.arctanh" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.arctanh">#&nbsp;&nbsp</a>
+                                        <input id="Corr.arctanh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">arctanh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.arctanh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">arctanh</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.arctanh-1097"><a href="#Corr.arctanh-1097"><span class="linenos">1097</span></a>    <span class="k">def</span> <span class="nf">arctanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Corr.arctanh-1098"><a href="#Corr.arctanh-1098"><span class="linenos">1098</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arctanh</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.arctanh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.arctanh-1098"><a href="#Corr.arctanh-1098"><span class="linenos">1098</span></a>    <span class="k">def</span> <span class="nf">arctanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Corr.arctanh-1099"><a href="#Corr.arctanh-1099"><span class="linenos">1099</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_apply_func_to_corr</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arctanh</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Corr.real" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Corr.real">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">real</span>
 
-        <span class="name">real</span>
+        
     </div>
-
+    <a class="headerlink" href="#Corr.real"></a>
     
     
 
                             </div>
                             <div id="Corr.imag" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Corr.imag">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">imag</span>
 
-        <span class="name">imag</span>
+        
     </div>
-
+    <a class="headerlink" href="#Corr.imag"></a>
     
     
 
                             </div>
                             <div id="Corr.prune" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Corr.prune">#&nbsp;&nbsp</a>
+                                        <input id="Corr.prune-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">prune</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">Ntrunc</span>, </span><span class="param"><span class="n">tproj</span><span class="o">=</span><span class="mi">3</span>, </span><span class="param"><span class="n">t0proj</span><span class="o">=</span><span class="mi">2</span>, </span><span class="param"><span class="n">basematrix</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="Corr.prune-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">prune</span><span class="signature">(self, Ntrunc, tproj=3, t0proj=2, basematrix=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.prune-1133"><a href="#Corr.prune-1133"><span class="linenos">1133</span></a>    <span class="k">def</span> <span class="nf">prune</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">Ntrunc</span><span class="p">,</span> <span class="n">tproj</span><span class="o">=</span><span class="mi">3</span><span class="p">,</span> <span class="n">t0proj</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">basematrix</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Corr.prune-1134"><a href="#Corr.prune-1134"><span class="linenos">1134</span></a>        <span class="sa">r</span><span class="sd">&#39;&#39;&#39; Project large correlation matrix to lowest states</span>
-</span><span id="Corr.prune-1135"><a href="#Corr.prune-1135"><span class="linenos">1135</span></a>
-</span><span id="Corr.prune-1136"><a href="#Corr.prune-1136"><span class="linenos">1136</span></a><span class="sd">        This method can be used to reduce the size of an (N x N) correlation matrix</span>
-</span><span id="Corr.prune-1137"><a href="#Corr.prune-1137"><span class="linenos">1137</span></a><span class="sd">        to (Ntrunc x Ntrunc) by solving a GEVP at very early times where the noise</span>
-</span><span id="Corr.prune-1138"><a href="#Corr.prune-1138"><span class="linenos">1138</span></a><span class="sd">        is still small.</span>
-</span><span id="Corr.prune-1139"><a href="#Corr.prune-1139"><span class="linenos">1139</span></a>
-</span><span id="Corr.prune-1140"><a href="#Corr.prune-1140"><span class="linenos">1140</span></a><span class="sd">        Parameters</span>
-</span><span id="Corr.prune-1141"><a href="#Corr.prune-1141"><span class="linenos">1141</span></a><span class="sd">        ----------</span>
-</span><span id="Corr.prune-1142"><a href="#Corr.prune-1142"><span class="linenos">1142</span></a><span class="sd">        Ntrunc: int</span>
-</span><span id="Corr.prune-1143"><a href="#Corr.prune-1143"><span class="linenos">1143</span></a><span class="sd">            Rank of the target matrix.</span>
-</span><span id="Corr.prune-1144"><a href="#Corr.prune-1144"><span class="linenos">1144</span></a><span class="sd">        tproj: int</span>
-</span><span id="Corr.prune-1145"><a href="#Corr.prune-1145"><span class="linenos">1145</span></a><span class="sd">            Time where the eigenvectors are evaluated, corresponds to ts in the GEVP method.</span>
-</span><span id="Corr.prune-1146"><a href="#Corr.prune-1146"><span class="linenos">1146</span></a><span class="sd">            The default value is 3.</span>
-</span><span id="Corr.prune-1147"><a href="#Corr.prune-1147"><span class="linenos">1147</span></a><span class="sd">        t0proj: int</span>
-</span><span id="Corr.prune-1148"><a href="#Corr.prune-1148"><span class="linenos">1148</span></a><span class="sd">            Time where the correlation matrix is inverted. Choosing t0proj=1 is strongly</span>
-</span><span id="Corr.prune-1149"><a href="#Corr.prune-1149"><span class="linenos">1149</span></a><span class="sd">            discouraged for O(a) improved theories, since the correctness of the procedure</span>
-</span><span id="Corr.prune-1150"><a href="#Corr.prune-1150"><span class="linenos">1150</span></a><span class="sd">            cannot be granted in this case. The default value is 2.</span>
-</span><span id="Corr.prune-1151"><a href="#Corr.prune-1151"><span class="linenos">1151</span></a><span class="sd">        basematrix : Corr</span>
-</span><span id="Corr.prune-1152"><a href="#Corr.prune-1152"><span class="linenos">1152</span></a><span class="sd">            Correlation matrix that is used to determine the eigenvectors of the</span>
-</span><span id="Corr.prune-1153"><a href="#Corr.prune-1153"><span class="linenos">1153</span></a><span class="sd">            lowest states based on a GEVP. basematrix is taken to be the Corr itself if</span>
-</span><span id="Corr.prune-1154"><a href="#Corr.prune-1154"><span class="linenos">1154</span></a><span class="sd">            is is not specified.</span>
-</span><span id="Corr.prune-1155"><a href="#Corr.prune-1155"><span class="linenos">1155</span></a>
-</span><span id="Corr.prune-1156"><a href="#Corr.prune-1156"><span class="linenos">1156</span></a><span class="sd">        Notes</span>
-</span><span id="Corr.prune-1157"><a href="#Corr.prune-1157"><span class="linenos">1157</span></a><span class="sd">        -----</span>
-</span><span id="Corr.prune-1158"><a href="#Corr.prune-1158"><span class="linenos">1158</span></a><span class="sd">        We have the basematrix $C(t)$ and the target matrix $G(t)$. We start by solving</span>
-</span><span id="Corr.prune-1159"><a href="#Corr.prune-1159"><span class="linenos">1159</span></a><span class="sd">        the GEVP $$C(t) v_n(t, t_0) = \lambda_n(t, t_0) C(t_0) v_n(t, t_0)$$ where $t \equiv t_\mathrm{proj}$</span>
-</span><span id="Corr.prune-1160"><a href="#Corr.prune-1160"><span class="linenos">1160</span></a><span class="sd">        and $t_0 \equiv t_{0, \mathrm{proj}}$. The target matrix is projected onto the subspace of the</span>
-</span><span id="Corr.prune-1161"><a href="#Corr.prune-1161"><span class="linenos">1161</span></a><span class="sd">        resulting eigenvectors $v_n, n=1,\dots,N_\mathrm{trunc}$ via</span>
-</span><span id="Corr.prune-1162"><a href="#Corr.prune-1162"><span class="linenos">1162</span></a><span class="sd">        $$G^\prime_{i, j}(t) = (v_i, G(t) v_j)$$. This allows to reduce the size of a large</span>
-</span><span id="Corr.prune-1163"><a href="#Corr.prune-1163"><span class="linenos">1163</span></a><span class="sd">        correlation matrix and to remove some noise that is added by irrelevant operators.</span>
-</span><span id="Corr.prune-1164"><a href="#Corr.prune-1164"><span class="linenos">1164</span></a><span class="sd">        This may allow to use the GEVP on $G(t)$ at late times such that the theoretically motivated</span>
-</span><span id="Corr.prune-1165"><a href="#Corr.prune-1165"><span class="linenos">1165</span></a><span class="sd">        bound $t_0 \leq t/2$ holds, since the condition number of $G(t)$ is decreased, compared to $C(t)$.</span>
-</span><span id="Corr.prune-1166"><a href="#Corr.prune-1166"><span class="linenos">1166</span></a><span class="sd">        &#39;&#39;&#39;</span>
-</span><span id="Corr.prune-1167"><a href="#Corr.prune-1167"><span class="linenos">1167</span></a>
-</span><span id="Corr.prune-1168"><a href="#Corr.prune-1168"><span class="linenos">1168</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Corr.prune-1169"><a href="#Corr.prune-1169"><span class="linenos">1169</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Method cannot be applied to one-dimensional correlators.&#39;</span><span class="p">)</span>
-</span><span id="Corr.prune-1170"><a href="#Corr.prune-1170"><span class="linenos">1170</span></a>        <span class="k">if</span> <span class="n">basematrix</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Corr.prune-1171"><a href="#Corr.prune-1171"><span class="linenos">1171</span></a>            <span class="n">basematrix</span> <span class="o">=</span> <span class="bp">self</span>
-</span><span id="Corr.prune-1172"><a href="#Corr.prune-1172"><span class="linenos">1172</span></a>        <span class="k">if</span> <span class="n">Ntrunc</span> <span class="o">&gt;=</span> <span class="n">basematrix</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
-</span><span id="Corr.prune-1173"><a href="#Corr.prune-1173"><span class="linenos">1173</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Cannot truncate using Ntrunc &lt;= </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
-</span><span id="Corr.prune-1174"><a href="#Corr.prune-1174"><span class="linenos">1174</span></a>        <span class="k">if</span> <span class="n">basematrix</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
-</span><span id="Corr.prune-1175"><a href="#Corr.prune-1175"><span class="linenos">1175</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;basematrix and targetmatrix have to be of the same size.&#39;</span><span class="p">)</span>
-</span><span id="Corr.prune-1176"><a href="#Corr.prune-1176"><span class="linenos">1176</span></a>
-</span><span id="Corr.prune-1177"><a href="#Corr.prune-1177"><span class="linenos">1177</span></a>        <span class="n">evecs</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.prune-1178"><a href="#Corr.prune-1178"><span class="linenos">1178</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
-</span><span id="Corr.prune-1179"><a href="#Corr.prune-1179"><span class="linenos">1179</span></a>            <span class="n">evecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">GEVP</span><span class="p">(</span><span class="n">t0proj</span><span class="p">,</span> <span class="n">tproj</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="n">i</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span><span class="p">))</span>
-</span><span id="Corr.prune-1180"><a href="#Corr.prune-1180"><span class="linenos">1180</span></a>
-</span><span id="Corr.prune-1181"><a href="#Corr.prune-1181"><span class="linenos">1181</span></a>        <span class="n">tmpmat</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">Ntrunc</span><span class="p">,</span> <span class="n">Ntrunc</span><span class="p">),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="Corr.prune-1182"><a href="#Corr.prune-1182"><span class="linenos">1182</span></a>        <span class="n">rmat</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Corr.prune-1183"><a href="#Corr.prune-1183"><span class="linenos">1183</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
-</span><span id="Corr.prune-1184"><a href="#Corr.prune-1184"><span class="linenos">1184</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
-</span><span id="Corr.prune-1185"><a href="#Corr.prune-1185"><span class="linenos">1185</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
-</span><span id="Corr.prune-1186"><a href="#Corr.prune-1186"><span class="linenos">1186</span></a>                    <span class="n">tmpmat</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">evecs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="bp">self</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">evecs</span><span class="p">[</span><span class="n">j</span><span class="p">]</span>
-</span><span id="Corr.prune-1187"><a href="#Corr.prune-1187"><span class="linenos">1187</span></a>            <span class="n">rmat</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">copy</span><span class="p">(</span><span class="n">tmpmat</span><span class="p">))</span>
-</span><span id="Corr.prune-1188"><a href="#Corr.prune-1188"><span class="linenos">1188</span></a>
-</span><span id="Corr.prune-1189"><a href="#Corr.prune-1189"><span class="linenos">1189</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">rmat</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)]</span>
-</span><span id="Corr.prune-1190"><a href="#Corr.prune-1190"><span class="linenos">1190</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
+    <a class="headerlink" href="#Corr.prune"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Corr.prune-1134"><a href="#Corr.prune-1134"><span class="linenos">1134</span></a>    <span class="k">def</span> <span class="nf">prune</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">Ntrunc</span><span class="p">,</span> <span class="n">tproj</span><span class="o">=</span><span class="mi">3</span><span class="p">,</span> <span class="n">t0proj</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">basematrix</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Corr.prune-1135"><a href="#Corr.prune-1135"><span class="linenos">1135</span></a>        <span class="sa">r</span><span class="sd">&#39;&#39;&#39; Project large correlation matrix to lowest states</span>
+</span><span id="Corr.prune-1136"><a href="#Corr.prune-1136"><span class="linenos">1136</span></a>
+</span><span id="Corr.prune-1137"><a href="#Corr.prune-1137"><span class="linenos">1137</span></a><span class="sd">        This method can be used to reduce the size of an (N x N) correlation matrix</span>
+</span><span id="Corr.prune-1138"><a href="#Corr.prune-1138"><span class="linenos">1138</span></a><span class="sd">        to (Ntrunc x Ntrunc) by solving a GEVP at very early times where the noise</span>
+</span><span id="Corr.prune-1139"><a href="#Corr.prune-1139"><span class="linenos">1139</span></a><span class="sd">        is still small.</span>
+</span><span id="Corr.prune-1140"><a href="#Corr.prune-1140"><span class="linenos">1140</span></a>
+</span><span id="Corr.prune-1141"><a href="#Corr.prune-1141"><span class="linenos">1141</span></a><span class="sd">        Parameters</span>
+</span><span id="Corr.prune-1142"><a href="#Corr.prune-1142"><span class="linenos">1142</span></a><span class="sd">        ----------</span>
+</span><span id="Corr.prune-1143"><a href="#Corr.prune-1143"><span class="linenos">1143</span></a><span class="sd">        Ntrunc: int</span>
+</span><span id="Corr.prune-1144"><a href="#Corr.prune-1144"><span class="linenos">1144</span></a><span class="sd">            Rank of the target matrix.</span>
+</span><span id="Corr.prune-1145"><a href="#Corr.prune-1145"><span class="linenos">1145</span></a><span class="sd">        tproj: int</span>
+</span><span id="Corr.prune-1146"><a href="#Corr.prune-1146"><span class="linenos">1146</span></a><span class="sd">            Time where the eigenvectors are evaluated, corresponds to ts in the GEVP method.</span>
+</span><span id="Corr.prune-1147"><a href="#Corr.prune-1147"><span class="linenos">1147</span></a><span class="sd">            The default value is 3.</span>
+</span><span id="Corr.prune-1148"><a href="#Corr.prune-1148"><span class="linenos">1148</span></a><span class="sd">        t0proj: int</span>
+</span><span id="Corr.prune-1149"><a href="#Corr.prune-1149"><span class="linenos">1149</span></a><span class="sd">            Time where the correlation matrix is inverted. Choosing t0proj=1 is strongly</span>
+</span><span id="Corr.prune-1150"><a href="#Corr.prune-1150"><span class="linenos">1150</span></a><span class="sd">            discouraged for O(a) improved theories, since the correctness of the procedure</span>
+</span><span id="Corr.prune-1151"><a href="#Corr.prune-1151"><span class="linenos">1151</span></a><span class="sd">            cannot be granted in this case. The default value is 2.</span>
+</span><span id="Corr.prune-1152"><a href="#Corr.prune-1152"><span class="linenos">1152</span></a><span class="sd">        basematrix : Corr</span>
+</span><span id="Corr.prune-1153"><a href="#Corr.prune-1153"><span class="linenos">1153</span></a><span class="sd">            Correlation matrix that is used to determine the eigenvectors of the</span>
+</span><span id="Corr.prune-1154"><a href="#Corr.prune-1154"><span class="linenos">1154</span></a><span class="sd">            lowest states based on a GEVP. basematrix is taken to be the Corr itself if</span>
+</span><span id="Corr.prune-1155"><a href="#Corr.prune-1155"><span class="linenos">1155</span></a><span class="sd">            is is not specified.</span>
+</span><span id="Corr.prune-1156"><a href="#Corr.prune-1156"><span class="linenos">1156</span></a>
+</span><span id="Corr.prune-1157"><a href="#Corr.prune-1157"><span class="linenos">1157</span></a><span class="sd">        Notes</span>
+</span><span id="Corr.prune-1158"><a href="#Corr.prune-1158"><span class="linenos">1158</span></a><span class="sd">        -----</span>
+</span><span id="Corr.prune-1159"><a href="#Corr.prune-1159"><span class="linenos">1159</span></a><span class="sd">        We have the basematrix $C(t)$ and the target matrix $G(t)$. We start by solving</span>
+</span><span id="Corr.prune-1160"><a href="#Corr.prune-1160"><span class="linenos">1160</span></a><span class="sd">        the GEVP $$C(t) v_n(t, t_0) = \lambda_n(t, t_0) C(t_0) v_n(t, t_0)$$ where $t \equiv t_\mathrm{proj}$</span>
+</span><span id="Corr.prune-1161"><a href="#Corr.prune-1161"><span class="linenos">1161</span></a><span class="sd">        and $t_0 \equiv t_{0, \mathrm{proj}}$. The target matrix is projected onto the subspace of the</span>
+</span><span id="Corr.prune-1162"><a href="#Corr.prune-1162"><span class="linenos">1162</span></a><span class="sd">        resulting eigenvectors $v_n, n=1,\dots,N_\mathrm{trunc}$ via</span>
+</span><span id="Corr.prune-1163"><a href="#Corr.prune-1163"><span class="linenos">1163</span></a><span class="sd">        $$G^\prime_{i, j}(t) = (v_i, G(t) v_j)$$. This allows to reduce the size of a large</span>
+</span><span id="Corr.prune-1164"><a href="#Corr.prune-1164"><span class="linenos">1164</span></a><span class="sd">        correlation matrix and to remove some noise that is added by irrelevant operators.</span>
+</span><span id="Corr.prune-1165"><a href="#Corr.prune-1165"><span class="linenos">1165</span></a><span class="sd">        This may allow to use the GEVP on $G(t)$ at late times such that the theoretically motivated</span>
+</span><span id="Corr.prune-1166"><a href="#Corr.prune-1166"><span class="linenos">1166</span></a><span class="sd">        bound $t_0 \leq t/2$ holds, since the condition number of $G(t)$ is decreased, compared to $C(t)$.</span>
+</span><span id="Corr.prune-1167"><a href="#Corr.prune-1167"><span class="linenos">1167</span></a><span class="sd">        &#39;&#39;&#39;</span>
+</span><span id="Corr.prune-1168"><a href="#Corr.prune-1168"><span class="linenos">1168</span></a>
+</span><span id="Corr.prune-1169"><a href="#Corr.prune-1169"><span class="linenos">1169</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Corr.prune-1170"><a href="#Corr.prune-1170"><span class="linenos">1170</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Method cannot be applied to one-dimensional correlators.&#39;</span><span class="p">)</span>
+</span><span id="Corr.prune-1171"><a href="#Corr.prune-1171"><span class="linenos">1171</span></a>        <span class="k">if</span> <span class="n">basematrix</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Corr.prune-1172"><a href="#Corr.prune-1172"><span class="linenos">1172</span></a>            <span class="n">basematrix</span> <span class="o">=</span> <span class="bp">self</span>
+</span><span id="Corr.prune-1173"><a href="#Corr.prune-1173"><span class="linenos">1173</span></a>        <span class="k">if</span> <span class="n">Ntrunc</span> <span class="o">&gt;=</span> <span class="n">basematrix</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
+</span><span id="Corr.prune-1174"><a href="#Corr.prune-1174"><span class="linenos">1174</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Cannot truncate using Ntrunc &lt;= </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
+</span><span id="Corr.prune-1175"><a href="#Corr.prune-1175"><span class="linenos">1175</span></a>        <span class="k">if</span> <span class="n">basematrix</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
+</span><span id="Corr.prune-1176"><a href="#Corr.prune-1176"><span class="linenos">1176</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;basematrix and targetmatrix have to be of the same size.&#39;</span><span class="p">)</span>
+</span><span id="Corr.prune-1177"><a href="#Corr.prune-1177"><span class="linenos">1177</span></a>
+</span><span id="Corr.prune-1178"><a href="#Corr.prune-1178"><span class="linenos">1178</span></a>        <span class="n">evecs</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.prune-1179"><a href="#Corr.prune-1179"><span class="linenos">1179</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
+</span><span id="Corr.prune-1180"><a href="#Corr.prune-1180"><span class="linenos">1180</span></a>            <span class="n">evecs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">GEVP</span><span class="p">(</span><span class="n">t0proj</span><span class="p">,</span> <span class="n">tproj</span><span class="p">,</span> <span class="n">state</span><span class="o">=</span><span class="n">i</span><span class="p">,</span> <span class="n">sorted_list</span><span class="o">=</span><span class="kc">None</span><span class="p">))</span>
+</span><span id="Corr.prune-1181"><a href="#Corr.prune-1181"><span class="linenos">1181</span></a>
+</span><span id="Corr.prune-1182"><a href="#Corr.prune-1182"><span class="linenos">1182</span></a>        <span class="n">tmpmat</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">Ntrunc</span><span class="p">,</span> <span class="n">Ntrunc</span><span class="p">),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="Corr.prune-1183"><a href="#Corr.prune-1183"><span class="linenos">1183</span></a>        <span class="n">rmat</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Corr.prune-1184"><a href="#Corr.prune-1184"><span class="linenos">1184</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">basematrix</span><span class="o">.</span><span class="n">T</span><span class="p">):</span>
+</span><span id="Corr.prune-1185"><a href="#Corr.prune-1185"><span class="linenos">1185</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
+</span><span id="Corr.prune-1186"><a href="#Corr.prune-1186"><span class="linenos">1186</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Ntrunc</span><span class="p">):</span>
+</span><span id="Corr.prune-1187"><a href="#Corr.prune-1187"><span class="linenos">1187</span></a>                    <span class="n">tmpmat</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">evecs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="bp">self</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">@</span> <span class="n">evecs</span><span class="p">[</span><span class="n">j</span><span class="p">]</span>
+</span><span id="Corr.prune-1188"><a href="#Corr.prune-1188"><span class="linenos">1188</span></a>            <span class="n">rmat</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">copy</span><span class="p">(</span><span class="n">tmpmat</span><span class="p">))</span>
+</span><span id="Corr.prune-1189"><a href="#Corr.prune-1189"><span class="linenos">1189</span></a>
+</span><span id="Corr.prune-1190"><a href="#Corr.prune-1190"><span class="linenos">1190</span></a>        <span class="n">newcontent</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span> <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">)</span> <span class="k">else</span> <span class="n">rmat</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">T</span><span class="p">)]</span>
+</span><span id="Corr.prune-1191"><a href="#Corr.prune-1191"><span class="linenos">1191</span></a>        <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">newcontent</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Project large correlation matrix to lowest states</p>
 
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@@ -82,282 +82,282 @@
 <a href="./../pyerrors.html">pyerrors</a><wbr>.covobs    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">  0</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a>
+                        <input id="covobs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="covobs-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
 </span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="k">class</span> <span class="nc">Covobs</span><span class="p">:</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">mean</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">pos</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a>        <span class="sd">&quot;&quot;&quot; Initialize Covobs object.</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="sd">        Parameters</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="sd">        ----------</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="sd">        mean : float</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="sd">            Mean value of the new Obs</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd">        cov : list or array</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd">            2d Covariance matrix or 1d diagonal entries</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">        name : str</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">            identifier for the covariance matrix</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">        pos : int</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">            Position of the variance belonging to mean in cov.</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd">            Is taken to be 1 if cov is 0-dimensional</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd">        grad : list or array</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">            Gradient of the Covobs wrt. the means belonging to cov.</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_set_cov</span><span class="p">(</span><span class="n">cov</span><span class="p">)</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>        <span class="k">if</span> <span class="s1">&#39;|&#39;</span> <span class="ow">in</span> <span class="n">name</span><span class="p">:</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Covobs name must not contain replica separator &#39;|&#39;.&quot;</span><span class="p">)</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>        <span class="k">if</span> <span class="n">grad</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>            <span class="k">if</span> <span class="n">pos</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>                    <span class="n">pos</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Have to specify position of cov-element belonging to mean!&#39;</span><span class="p">)</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>                <span class="k">if</span> <span class="n">pos</span> <span class="o">&gt;</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;pos </span><span class="si">%d</span><span class="s1"> too large for covariance matrix with dimension </span><span class="si">%d</span><span class="s1">x</span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">pos</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="p">[</span><span class="n">pos</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_set_grad</span><span class="p">(</span><span class="n">grad</span><span class="p">)</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">=</span> <span class="n">mean</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>
-</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>    <span class="k">def</span> <span class="nf">errsq</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>        <span class="sd">&quot;&quot;&quot; Return the variance (= square of the error) of the Covobs</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>        <span class="k">return</span> <span class="nb">float</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">transpose</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">grad</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">cov</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">grad</span><span class="p">)))</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>
-</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>    <span class="k">def</span> <span class="nf">_set_cov</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">cov</span><span class="p">):</span>
-</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>        <span class="sd">&quot;&quot;&quot; Set the covariance matrix of the covobs</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>
-</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a><span class="sd">        Parameters</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a><span class="sd">        ----------</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a><span class="sd">        cov : list or array</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a><span class="sd">            Has to be either of:</span>
-</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a><span class="sd">            0 dimensional number: variance of a single covobs,</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a><span class="sd">            1 dimensional list or array of lenght N: variances of multiple covobs</span>
-</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a><span class="sd">            2 dimensional list or array (N x N): Symmetric, positive-semidefinite covariance matrix</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">cov</span><span class="p">)</span>
-</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">])</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>        <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">)</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">)</span>
-</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>        <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix has to be a square matrix!&#39;</span><span class="p">)</span>
-</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix has to be a 2 dimensional square matrix!&#39;</span><span class="p">)</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>
-</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>            <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span> <span class="o">==</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">[</span><span class="n">j</span><span class="p">][</span><span class="n">i</span><span class="p">]:</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix is non-symmetric for (</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">))</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>
-</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>        <span class="n">evals</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigvalsh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">)</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>        <span class="k">for</span> <span class="n">ev</span> <span class="ow">in</span> <span class="n">evals</span><span class="p">:</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>            <span class="k">if</span> <span class="n">ev</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix is not positive-semidefinite!&#39;</span><span class="p">)</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>
-</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>    <span class="k">def</span> <span class="nf">_set_grad</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">grad</span><span class="p">):</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>        <span class="sd">&quot;&quot;&quot; Set the gradient of the covobs</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>
-</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a><span class="sd">        Parameters</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a><span class="sd">        ----------</span>
-</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a><span class="sd">        grad : list or array</span>
-</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a><span class="sd">            Has to be either of:</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a><span class="sd">            0 dimensional number: gradient w.r.t. a single covobs,</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a><span class="sd">            1 dimensional list or array of lenght N: gradient w.r.t. multiple covobs</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">grad</span><span class="p">)</span>
-</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="o">.</span><span class="n">ndim</span> <span class="ow">in</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">]:</span>
-</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>        <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="o">.</span><span class="n">ndim</span> <span class="o">!=</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Invalid dimension of grad!&#39;</span><span class="p">)</span>
-</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>
-</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>    <span class="nd">@property</span>
-</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>    <span class="k">def</span> <span class="nf">cov</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>
-</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>    <span class="nd">@property</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>    <span class="k">def</span> <span class="nf">grad</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a>
+</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="k">class</span> <span class="nc">Covobs</span><span class="p">:</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">mean</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">pos</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a>        <span class="sd">&quot;&quot;&quot; Initialize Covobs object.</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="sd">        Parameters</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="sd">        ----------</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="sd">        mean : float</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd">            Mean value of the new Obs</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd">        cov : list or array</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">            2d Covariance matrix or 1d diagonal entries</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">        name : str</span>
+</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">            identifier for the covariance matrix</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">        pos : int</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd">            Position of the variance belonging to mean in cov.</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd">            Is taken to be 1 if cov is 0-dimensional</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">        grad : list or array</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">            Gradient of the Covobs wrt. the means belonging to cov.</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_set_cov</span><span class="p">(</span><span class="n">cov</span><span class="p">)</span>
+</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>        <span class="k">if</span> <span class="s1">&#39;|&#39;</span> <span class="ow">in</span> <span class="n">name</span><span class="p">:</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Covobs name must not contain replica separator &#39;|&#39;.&quot;</span><span class="p">)</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>        <span class="k">if</span> <span class="n">grad</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>            <span class="k">if</span> <span class="n">pos</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>                    <span class="n">pos</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Have to specify position of cov-element belonging to mean!&#39;</span><span class="p">)</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>                <span class="k">if</span> <span class="n">pos</span> <span class="o">&gt;</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;pos </span><span class="si">%d</span><span class="s1"> too large for covariance matrix with dimension </span><span class="si">%d</span><span class="s1">x</span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">pos</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="p">[</span><span class="n">pos</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_set_grad</span><span class="p">(</span><span class="n">grad</span><span class="p">)</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">=</span> <span class="n">mean</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>
+</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>    <span class="k">def</span> <span class="nf">errsq</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>        <span class="sd">&quot;&quot;&quot; Return the variance (= square of the error) of the Covobs</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>        <span class="k">return</span> <span class="nb">float</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">transpose</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">grad</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">cov</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">grad</span><span class="p">)))</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>
+</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>    <span class="k">def</span> <span class="nf">_set_cov</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">cov</span><span class="p">):</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>        <span class="sd">&quot;&quot;&quot; Set the covariance matrix of the covobs</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>
+</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a><span class="sd">        Parameters</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a><span class="sd">        ----------</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a><span class="sd">        cov : list or array</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a><span class="sd">            Has to be either of:</span>
+</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a><span class="sd">            0 dimensional number: variance of a single covobs,</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a><span class="sd">            1 dimensional list or array of lenght N: variances of multiple covobs</span>
+</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a><span class="sd">            2 dimensional list or array (N x N): Symmetric, positive-semidefinite covariance matrix</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">cov</span><span class="p">)</span>
+</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">])</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>        <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">)</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">)</span>
+</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>        <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
+</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix has to be a square matrix!&#39;</span><span class="p">)</span>
+</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix has to be a 2 dimensional square matrix!&#39;</span><span class="p">)</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>
+</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>            <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span> <span class="o">==</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">[</span><span class="n">j</span><span class="p">][</span><span class="n">i</span><span class="p">]:</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix is non-symmetric for (</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">))</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>
+</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>        <span class="n">evals</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigvalsh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">)</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>        <span class="k">for</span> <span class="n">ev</span> <span class="ow">in</span> <span class="n">evals</span><span class="p">:</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>            <span class="k">if</span> <span class="n">ev</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix is not positive-semidefinite!&#39;</span><span class="p">)</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>
+</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>    <span class="k">def</span> <span class="nf">_set_grad</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">grad</span><span class="p">):</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>        <span class="sd">&quot;&quot;&quot; Set the gradient of the covobs</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>
+</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a><span class="sd">        Parameters</span>
+</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a><span class="sd">        ----------</span>
+</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a><span class="sd">        grad : list or array</span>
+</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a><span class="sd">            Has to be either of:</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a><span class="sd">            0 dimensional number: gradient w.r.t. a single covobs,</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a><span class="sd">            1 dimensional list or array of lenght N: gradient w.r.t. multiple covobs</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">grad</span><span class="p">)</span>
+</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="o">.</span><span class="n">ndim</span> <span class="ow">in</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">]:</span>
+</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>        <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="o">.</span><span class="n">ndim</span> <span class="o">!=</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Invalid dimension of grad!&#39;</span><span class="p">)</span>
+</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>
+</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>    <span class="nd">@property</span>
+</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>    <span class="k">def</span> <span class="nf">cov</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>
+</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>    <span class="nd">@property</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>    <span class="k">def</span> <span class="nf">grad</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="Covobs">
-                                <div class="attr class">
-        <a class="headerlink" href="#Covobs">#&nbsp;&nbsp</a>
+                            <input id="Covobs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr class">
+            
+    <span class="def">class</span>
+    <span class="name">Covobs</span>:
+
+                <label class="view-source-button" for="Covobs-view-source"><span>View Source</span></label>
 
-        
-        <span class="def">class</span>
-        <span class="name">Covobs</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Covobs-4"><a href="#Covobs-4"><span class="linenos">  4</span></a><span class="k">class</span> <span class="nc">Covobs</span><span class="p">:</span>
-</span><span id="Covobs-5"><a href="#Covobs-5"><span class="linenos">  5</span></a>
-</span><span id="Covobs-6"><a href="#Covobs-6"><span class="linenos">  6</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">mean</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">pos</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Covobs-7"><a href="#Covobs-7"><span class="linenos">  7</span></a>        <span class="sd">&quot;&quot;&quot; Initialize Covobs object.</span>
-</span><span id="Covobs-8"><a href="#Covobs-8"><span class="linenos">  8</span></a>
-</span><span id="Covobs-9"><a href="#Covobs-9"><span class="linenos">  9</span></a><span class="sd">        Parameters</span>
-</span><span id="Covobs-10"><a href="#Covobs-10"><span class="linenos"> 10</span></a><span class="sd">        ----------</span>
-</span><span id="Covobs-11"><a href="#Covobs-11"><span class="linenos"> 11</span></a><span class="sd">        mean : float</span>
-</span><span id="Covobs-12"><a href="#Covobs-12"><span class="linenos"> 12</span></a><span class="sd">            Mean value of the new Obs</span>
-</span><span id="Covobs-13"><a href="#Covobs-13"><span class="linenos"> 13</span></a><span class="sd">        cov : list or array</span>
-</span><span id="Covobs-14"><a href="#Covobs-14"><span class="linenos"> 14</span></a><span class="sd">            2d Covariance matrix or 1d diagonal entries</span>
-</span><span id="Covobs-15"><a href="#Covobs-15"><span class="linenos"> 15</span></a><span class="sd">        name : str</span>
-</span><span id="Covobs-16"><a href="#Covobs-16"><span class="linenos"> 16</span></a><span class="sd">            identifier for the covariance matrix</span>
-</span><span id="Covobs-17"><a href="#Covobs-17"><span class="linenos"> 17</span></a><span class="sd">        pos : int</span>
-</span><span id="Covobs-18"><a href="#Covobs-18"><span class="linenos"> 18</span></a><span class="sd">            Position of the variance belonging to mean in cov.</span>
-</span><span id="Covobs-19"><a href="#Covobs-19"><span class="linenos"> 19</span></a><span class="sd">            Is taken to be 1 if cov is 0-dimensional</span>
-</span><span id="Covobs-20"><a href="#Covobs-20"><span class="linenos"> 20</span></a><span class="sd">        grad : list or array</span>
-</span><span id="Covobs-21"><a href="#Covobs-21"><span class="linenos"> 21</span></a><span class="sd">            Gradient of the Covobs wrt. the means belonging to cov.</span>
-</span><span id="Covobs-22"><a href="#Covobs-22"><span class="linenos"> 22</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Covobs-23"><a href="#Covobs-23"><span class="linenos"> 23</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_set_cov</span><span class="p">(</span><span class="n">cov</span><span class="p">)</span>
-</span><span id="Covobs-24"><a href="#Covobs-24"><span class="linenos"> 24</span></a>        <span class="k">if</span> <span class="s1">&#39;|&#39;</span> <span class="ow">in</span> <span class="n">name</span><span class="p">:</span>
-</span><span id="Covobs-25"><a href="#Covobs-25"><span class="linenos"> 25</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Covobs name must not contain replica separator &#39;|&#39;.&quot;</span><span class="p">)</span>
-</span><span id="Covobs-26"><a href="#Covobs-26"><span class="linenos"> 26</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="Covobs-27"><a href="#Covobs-27"><span class="linenos"> 27</span></a>        <span class="k">if</span> <span class="n">grad</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Covobs-28"><a href="#Covobs-28"><span class="linenos"> 28</span></a>            <span class="k">if</span> <span class="n">pos</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Covobs-29"><a href="#Covobs-29"><span class="linenos"> 29</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Covobs-30"><a href="#Covobs-30"><span class="linenos"> 30</span></a>                    <span class="n">pos</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Covobs-31"><a href="#Covobs-31"><span class="linenos"> 31</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Covobs-32"><a href="#Covobs-32"><span class="linenos"> 32</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Have to specify position of cov-element belonging to mean!&#39;</span><span class="p">)</span>
-</span><span id="Covobs-33"><a href="#Covobs-33"><span class="linenos"> 33</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Covobs-34"><a href="#Covobs-34"><span class="linenos"> 34</span></a>                <span class="k">if</span> <span class="n">pos</span> <span class="o">&gt;</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
-</span><span id="Covobs-35"><a href="#Covobs-35"><span class="linenos"> 35</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;pos </span><span class="si">%d</span><span class="s1"> too large for covariance matrix with dimension </span><span class="si">%d</span><span class="s1">x</span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">pos</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
-</span><span id="Covobs-36"><a href="#Covobs-36"><span class="linenos"> 36</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="Covobs-37"><a href="#Covobs-37"><span class="linenos"> 37</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="p">[</span><span class="n">pos</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.</span>
-</span><span id="Covobs-38"><a href="#Covobs-38"><span class="linenos"> 38</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Covobs-39"><a href="#Covobs-39"><span class="linenos"> 39</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_set_grad</span><span class="p">(</span><span class="n">grad</span><span class="p">)</span>
-</span><span id="Covobs-40"><a href="#Covobs-40"><span class="linenos"> 40</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">=</span> <span class="n">mean</span>
-</span><span id="Covobs-41"><a href="#Covobs-41"><span class="linenos"> 41</span></a>
-</span><span id="Covobs-42"><a href="#Covobs-42"><span class="linenos"> 42</span></a>    <span class="k">def</span> <span class="nf">errsq</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Covobs-43"><a href="#Covobs-43"><span class="linenos"> 43</span></a>        <span class="sd">&quot;&quot;&quot; Return the variance (= square of the error) of the Covobs</span>
-</span><span id="Covobs-44"><a href="#Covobs-44"><span class="linenos"> 44</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Covobs-45"><a href="#Covobs-45"><span class="linenos"> 45</span></a>        <span class="k">return</span> <span class="nb">float</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">transpose</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">grad</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">cov</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">grad</span><span class="p">)))</span>
-</span><span id="Covobs-46"><a href="#Covobs-46"><span class="linenos"> 46</span></a>
-</span><span id="Covobs-47"><a href="#Covobs-47"><span class="linenos"> 47</span></a>    <span class="k">def</span> <span class="nf">_set_cov</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">cov</span><span class="p">):</span>
-</span><span id="Covobs-48"><a href="#Covobs-48"><span class="linenos"> 48</span></a>        <span class="sd">&quot;&quot;&quot; Set the covariance matrix of the covobs</span>
-</span><span id="Covobs-49"><a href="#Covobs-49"><span class="linenos"> 49</span></a>
-</span><span id="Covobs-50"><a href="#Covobs-50"><span class="linenos"> 50</span></a><span class="sd">        Parameters</span>
-</span><span id="Covobs-51"><a href="#Covobs-51"><span class="linenos"> 51</span></a><span class="sd">        ----------</span>
-</span><span id="Covobs-52"><a href="#Covobs-52"><span class="linenos"> 52</span></a><span class="sd">        cov : list or array</span>
-</span><span id="Covobs-53"><a href="#Covobs-53"><span class="linenos"> 53</span></a><span class="sd">            Has to be either of:</span>
-</span><span id="Covobs-54"><a href="#Covobs-54"><span class="linenos"> 54</span></a><span class="sd">            0 dimensional number: variance of a single covobs,</span>
-</span><span id="Covobs-55"><a href="#Covobs-55"><span class="linenos"> 55</span></a><span class="sd">            1 dimensional list or array of lenght N: variances of multiple covobs</span>
-</span><span id="Covobs-56"><a href="#Covobs-56"><span class="linenos"> 56</span></a><span class="sd">            2 dimensional list or array (N x N): Symmetric, positive-semidefinite covariance matrix</span>
-</span><span id="Covobs-57"><a href="#Covobs-57"><span class="linenos"> 57</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Covobs-58"><a href="#Covobs-58"><span class="linenos"> 58</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">cov</span><span class="p">)</span>
-</span><span id="Covobs-59"><a href="#Covobs-59"><span class="linenos"> 59</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Covobs-60"><a href="#Covobs-60"><span class="linenos"> 60</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="Covobs-61"><a href="#Covobs-61"><span class="linenos"> 61</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">])</span>
-</span><span id="Covobs-62"><a href="#Covobs-62"><span class="linenos"> 62</span></a>        <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Covobs-63"><a href="#Covobs-63"><span class="linenos"> 63</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">)</span>
-</span><span id="Covobs-64"><a href="#Covobs-64"><span class="linenos"> 64</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">)</span>
-</span><span id="Covobs-65"><a href="#Covobs-65"><span class="linenos"> 65</span></a>        <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="Covobs-66"><a href="#Covobs-66"><span class="linenos"> 66</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Covobs-67"><a href="#Covobs-67"><span class="linenos"> 67</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
-</span><span id="Covobs-68"><a href="#Covobs-68"><span class="linenos"> 68</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix has to be a square matrix!&#39;</span><span class="p">)</span>
-</span><span id="Covobs-69"><a href="#Covobs-69"><span class="linenos"> 69</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Covobs-70"><a href="#Covobs-70"><span class="linenos"> 70</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix has to be a 2 dimensional square matrix!&#39;</span><span class="p">)</span>
-</span><span id="Covobs-71"><a href="#Covobs-71"><span class="linenos"> 71</span></a>
-</span><span id="Covobs-72"><a href="#Covobs-72"><span class="linenos"> 72</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
-</span><span id="Covobs-73"><a href="#Covobs-73"><span class="linenos"> 73</span></a>            <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
-</span><span id="Covobs-74"><a href="#Covobs-74"><span class="linenos"> 74</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span> <span class="o">==</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">[</span><span class="n">j</span><span class="p">][</span><span class="n">i</span><span class="p">]:</span>
-</span><span id="Covobs-75"><a href="#Covobs-75"><span class="linenos"> 75</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix is non-symmetric for (</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">))</span>
-</span><span id="Covobs-76"><a href="#Covobs-76"><span class="linenos"> 76</span></a>
-</span><span id="Covobs-77"><a href="#Covobs-77"><span class="linenos"> 77</span></a>        <span class="n">evals</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigvalsh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">)</span>
-</span><span id="Covobs-78"><a href="#Covobs-78"><span class="linenos"> 78</span></a>        <span class="k">for</span> <span class="n">ev</span> <span class="ow">in</span> <span class="n">evals</span><span class="p">:</span>
-</span><span id="Covobs-79"><a href="#Covobs-79"><span class="linenos"> 79</span></a>            <span class="k">if</span> <span class="n">ev</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Covobs-80"><a href="#Covobs-80"><span class="linenos"> 80</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix is not positive-semidefinite!&#39;</span><span class="p">)</span>
-</span><span id="Covobs-81"><a href="#Covobs-81"><span class="linenos"> 81</span></a>
-</span><span id="Covobs-82"><a href="#Covobs-82"><span class="linenos"> 82</span></a>    <span class="k">def</span> <span class="nf">_set_grad</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">grad</span><span class="p">):</span>
-</span><span id="Covobs-83"><a href="#Covobs-83"><span class="linenos"> 83</span></a>        <span class="sd">&quot;&quot;&quot; Set the gradient of the covobs</span>
-</span><span id="Covobs-84"><a href="#Covobs-84"><span class="linenos"> 84</span></a>
-</span><span id="Covobs-85"><a href="#Covobs-85"><span class="linenos"> 85</span></a><span class="sd">        Parameters</span>
-</span><span id="Covobs-86"><a href="#Covobs-86"><span class="linenos"> 86</span></a><span class="sd">        ----------</span>
-</span><span id="Covobs-87"><a href="#Covobs-87"><span class="linenos"> 87</span></a><span class="sd">        grad : list or array</span>
-</span><span id="Covobs-88"><a href="#Covobs-88"><span class="linenos"> 88</span></a><span class="sd">            Has to be either of:</span>
-</span><span id="Covobs-89"><a href="#Covobs-89"><span class="linenos"> 89</span></a><span class="sd">            0 dimensional number: gradient w.r.t. a single covobs,</span>
-</span><span id="Covobs-90"><a href="#Covobs-90"><span class="linenos"> 90</span></a><span class="sd">            1 dimensional list or array of lenght N: gradient w.r.t. multiple covobs</span>
-</span><span id="Covobs-91"><a href="#Covobs-91"><span class="linenos"> 91</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Covobs-92"><a href="#Covobs-92"><span class="linenos"> 92</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">grad</span><span class="p">)</span>
-</span><span id="Covobs-93"><a href="#Covobs-93"><span class="linenos"> 93</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="o">.</span><span class="n">ndim</span> <span class="ow">in</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">]:</span>
-</span><span id="Covobs-94"><a href="#Covobs-94"><span class="linenos"> 94</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="Covobs-95"><a href="#Covobs-95"><span class="linenos"> 95</span></a>        <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="o">.</span><span class="n">ndim</span> <span class="o">!=</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="Covobs-96"><a href="#Covobs-96"><span class="linenos"> 96</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Invalid dimension of grad!&#39;</span><span class="p">)</span>
-</span><span id="Covobs-97"><a href="#Covobs-97"><span class="linenos"> 97</span></a>
-</span><span id="Covobs-98"><a href="#Covobs-98"><span class="linenos"> 98</span></a>    <span class="nd">@property</span>
-</span><span id="Covobs-99"><a href="#Covobs-99"><span class="linenos"> 99</span></a>    <span class="k">def</span> <span class="nf">cov</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Covobs-100"><a href="#Covobs-100"><span class="linenos">100</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span>
-</span><span id="Covobs-101"><a href="#Covobs-101"><span class="linenos">101</span></a>
-</span><span id="Covobs-102"><a href="#Covobs-102"><span class="linenos">102</span></a>    <span class="nd">@property</span>
-</span><span id="Covobs-103"><a href="#Covobs-103"><span class="linenos">103</span></a>    <span class="k">def</span> <span class="nf">grad</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Covobs-104"><a href="#Covobs-104"><span class="linenos">104</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span>
+    <a class="headerlink" href="#Covobs"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Covobs-5"><a href="#Covobs-5"><span class="linenos">  5</span></a><span class="k">class</span> <span class="nc">Covobs</span><span class="p">:</span>
+</span><span id="Covobs-6"><a href="#Covobs-6"><span class="linenos">  6</span></a>
+</span><span id="Covobs-7"><a href="#Covobs-7"><span class="linenos">  7</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">mean</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">pos</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Covobs-8"><a href="#Covobs-8"><span class="linenos">  8</span></a>        <span class="sd">&quot;&quot;&quot; Initialize Covobs object.</span>
+</span><span id="Covobs-9"><a href="#Covobs-9"><span class="linenos">  9</span></a>
+</span><span id="Covobs-10"><a href="#Covobs-10"><span class="linenos"> 10</span></a><span class="sd">        Parameters</span>
+</span><span id="Covobs-11"><a href="#Covobs-11"><span class="linenos"> 11</span></a><span class="sd">        ----------</span>
+</span><span id="Covobs-12"><a href="#Covobs-12"><span class="linenos"> 12</span></a><span class="sd">        mean : float</span>
+</span><span id="Covobs-13"><a href="#Covobs-13"><span class="linenos"> 13</span></a><span class="sd">            Mean value of the new Obs</span>
+</span><span id="Covobs-14"><a href="#Covobs-14"><span class="linenos"> 14</span></a><span class="sd">        cov : list or array</span>
+</span><span id="Covobs-15"><a href="#Covobs-15"><span class="linenos"> 15</span></a><span class="sd">            2d Covariance matrix or 1d diagonal entries</span>
+</span><span id="Covobs-16"><a href="#Covobs-16"><span class="linenos"> 16</span></a><span class="sd">        name : str</span>
+</span><span id="Covobs-17"><a href="#Covobs-17"><span class="linenos"> 17</span></a><span class="sd">            identifier for the covariance matrix</span>
+</span><span id="Covobs-18"><a href="#Covobs-18"><span class="linenos"> 18</span></a><span class="sd">        pos : int</span>
+</span><span id="Covobs-19"><a href="#Covobs-19"><span class="linenos"> 19</span></a><span class="sd">            Position of the variance belonging to mean in cov.</span>
+</span><span id="Covobs-20"><a href="#Covobs-20"><span class="linenos"> 20</span></a><span class="sd">            Is taken to be 1 if cov is 0-dimensional</span>
+</span><span id="Covobs-21"><a href="#Covobs-21"><span class="linenos"> 21</span></a><span class="sd">        grad : list or array</span>
+</span><span id="Covobs-22"><a href="#Covobs-22"><span class="linenos"> 22</span></a><span class="sd">            Gradient of the Covobs wrt. the means belonging to cov.</span>
+</span><span id="Covobs-23"><a href="#Covobs-23"><span class="linenos"> 23</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Covobs-24"><a href="#Covobs-24"><span class="linenos"> 24</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_set_cov</span><span class="p">(</span><span class="n">cov</span><span class="p">)</span>
+</span><span id="Covobs-25"><a href="#Covobs-25"><span class="linenos"> 25</span></a>        <span class="k">if</span> <span class="s1">&#39;|&#39;</span> <span class="ow">in</span> <span class="n">name</span><span class="p">:</span>
+</span><span id="Covobs-26"><a href="#Covobs-26"><span class="linenos"> 26</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Covobs name must not contain replica separator &#39;|&#39;.&quot;</span><span class="p">)</span>
+</span><span id="Covobs-27"><a href="#Covobs-27"><span class="linenos"> 27</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="Covobs-28"><a href="#Covobs-28"><span class="linenos"> 28</span></a>        <span class="k">if</span> <span class="n">grad</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Covobs-29"><a href="#Covobs-29"><span class="linenos"> 29</span></a>            <span class="k">if</span> <span class="n">pos</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Covobs-30"><a href="#Covobs-30"><span class="linenos"> 30</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Covobs-31"><a href="#Covobs-31"><span class="linenos"> 31</span></a>                    <span class="n">pos</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Covobs-32"><a href="#Covobs-32"><span class="linenos"> 32</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Covobs-33"><a href="#Covobs-33"><span class="linenos"> 33</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Have to specify position of cov-element belonging to mean!&#39;</span><span class="p">)</span>
+</span><span id="Covobs-34"><a href="#Covobs-34"><span class="linenos"> 34</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Covobs-35"><a href="#Covobs-35"><span class="linenos"> 35</span></a>                <span class="k">if</span> <span class="n">pos</span> <span class="o">&gt;</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
+</span><span id="Covobs-36"><a href="#Covobs-36"><span class="linenos"> 36</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;pos </span><span class="si">%d</span><span class="s1"> too large for covariance matrix with dimension </span><span class="si">%d</span><span class="s1">x</span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">pos</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
+</span><span id="Covobs-37"><a href="#Covobs-37"><span class="linenos"> 37</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="Covobs-38"><a href="#Covobs-38"><span class="linenos"> 38</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="p">[</span><span class="n">pos</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.</span>
+</span><span id="Covobs-39"><a href="#Covobs-39"><span class="linenos"> 39</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Covobs-40"><a href="#Covobs-40"><span class="linenos"> 40</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_set_grad</span><span class="p">(</span><span class="n">grad</span><span class="p">)</span>
+</span><span id="Covobs-41"><a href="#Covobs-41"><span class="linenos"> 41</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">=</span> <span class="n">mean</span>
+</span><span id="Covobs-42"><a href="#Covobs-42"><span class="linenos"> 42</span></a>
+</span><span id="Covobs-43"><a href="#Covobs-43"><span class="linenos"> 43</span></a>    <span class="k">def</span> <span class="nf">errsq</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Covobs-44"><a href="#Covobs-44"><span class="linenos"> 44</span></a>        <span class="sd">&quot;&quot;&quot; Return the variance (= square of the error) of the Covobs</span>
+</span><span id="Covobs-45"><a href="#Covobs-45"><span class="linenos"> 45</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Covobs-46"><a href="#Covobs-46"><span class="linenos"> 46</span></a>        <span class="k">return</span> <span class="nb">float</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">transpose</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">grad</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">cov</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">grad</span><span class="p">)))</span>
+</span><span id="Covobs-47"><a href="#Covobs-47"><span class="linenos"> 47</span></a>
+</span><span id="Covobs-48"><a href="#Covobs-48"><span class="linenos"> 48</span></a>    <span class="k">def</span> <span class="nf">_set_cov</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">cov</span><span class="p">):</span>
+</span><span id="Covobs-49"><a href="#Covobs-49"><span class="linenos"> 49</span></a>        <span class="sd">&quot;&quot;&quot; Set the covariance matrix of the covobs</span>
+</span><span id="Covobs-50"><a href="#Covobs-50"><span class="linenos"> 50</span></a>
+</span><span id="Covobs-51"><a href="#Covobs-51"><span class="linenos"> 51</span></a><span class="sd">        Parameters</span>
+</span><span id="Covobs-52"><a href="#Covobs-52"><span class="linenos"> 52</span></a><span class="sd">        ----------</span>
+</span><span id="Covobs-53"><a href="#Covobs-53"><span class="linenos"> 53</span></a><span class="sd">        cov : list or array</span>
+</span><span id="Covobs-54"><a href="#Covobs-54"><span class="linenos"> 54</span></a><span class="sd">            Has to be either of:</span>
+</span><span id="Covobs-55"><a href="#Covobs-55"><span class="linenos"> 55</span></a><span class="sd">            0 dimensional number: variance of a single covobs,</span>
+</span><span id="Covobs-56"><a href="#Covobs-56"><span class="linenos"> 56</span></a><span class="sd">            1 dimensional list or array of lenght N: variances of multiple covobs</span>
+</span><span id="Covobs-57"><a href="#Covobs-57"><span class="linenos"> 57</span></a><span class="sd">            2 dimensional list or array (N x N): Symmetric, positive-semidefinite covariance matrix</span>
+</span><span id="Covobs-58"><a href="#Covobs-58"><span class="linenos"> 58</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Covobs-59"><a href="#Covobs-59"><span class="linenos"> 59</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">cov</span><span class="p">)</span>
+</span><span id="Covobs-60"><a href="#Covobs-60"><span class="linenos"> 60</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Covobs-61"><a href="#Covobs-61"><span class="linenos"> 61</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="Covobs-62"><a href="#Covobs-62"><span class="linenos"> 62</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">])</span>
+</span><span id="Covobs-63"><a href="#Covobs-63"><span class="linenos"> 63</span></a>        <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Covobs-64"><a href="#Covobs-64"><span class="linenos"> 64</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">)</span>
+</span><span id="Covobs-65"><a href="#Covobs-65"><span class="linenos"> 65</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">)</span>
+</span><span id="Covobs-66"><a href="#Covobs-66"><span class="linenos"> 66</span></a>        <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="Covobs-67"><a href="#Covobs-67"><span class="linenos"> 67</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Covobs-68"><a href="#Covobs-68"><span class="linenos"> 68</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
+</span><span id="Covobs-69"><a href="#Covobs-69"><span class="linenos"> 69</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix has to be a square matrix!&#39;</span><span class="p">)</span>
+</span><span id="Covobs-70"><a href="#Covobs-70"><span class="linenos"> 70</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Covobs-71"><a href="#Covobs-71"><span class="linenos"> 71</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix has to be a 2 dimensional square matrix!&#39;</span><span class="p">)</span>
+</span><span id="Covobs-72"><a href="#Covobs-72"><span class="linenos"> 72</span></a>
+</span><span id="Covobs-73"><a href="#Covobs-73"><span class="linenos"> 73</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">):</span>
+</span><span id="Covobs-74"><a href="#Covobs-74"><span class="linenos"> 74</span></a>            <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+</span><span id="Covobs-75"><a href="#Covobs-75"><span class="linenos"> 75</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span> <span class="o">==</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">[</span><span class="n">j</span><span class="p">][</span><span class="n">i</span><span class="p">]:</span>
+</span><span id="Covobs-76"><a href="#Covobs-76"><span class="linenos"> 76</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix is non-symmetric for (</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">))</span>
+</span><span id="Covobs-77"><a href="#Covobs-77"><span class="linenos"> 77</span></a>
+</span><span id="Covobs-78"><a href="#Covobs-78"><span class="linenos"> 78</span></a>        <span class="n">evals</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigvalsh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_cov</span><span class="p">)</span>
+</span><span id="Covobs-79"><a href="#Covobs-79"><span class="linenos"> 79</span></a>        <span class="k">for</span> <span class="n">ev</span> <span class="ow">in</span> <span class="n">evals</span><span class="p">:</span>
+</span><span id="Covobs-80"><a href="#Covobs-80"><span class="linenos"> 80</span></a>            <span class="k">if</span> <span class="n">ev</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Covobs-81"><a href="#Covobs-81"><span class="linenos"> 81</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Covariance matrix is not positive-semidefinite!&#39;</span><span class="p">)</span>
+</span><span id="Covobs-82"><a href="#Covobs-82"><span class="linenos"> 82</span></a>
+</span><span id="Covobs-83"><a href="#Covobs-83"><span class="linenos"> 83</span></a>    <span class="k">def</span> <span class="nf">_set_grad</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">grad</span><span class="p">):</span>
+</span><span id="Covobs-84"><a href="#Covobs-84"><span class="linenos"> 84</span></a>        <span class="sd">&quot;&quot;&quot; Set the gradient of the covobs</span>
+</span><span id="Covobs-85"><a href="#Covobs-85"><span class="linenos"> 85</span></a>
+</span><span id="Covobs-86"><a href="#Covobs-86"><span class="linenos"> 86</span></a><span class="sd">        Parameters</span>
+</span><span id="Covobs-87"><a href="#Covobs-87"><span class="linenos"> 87</span></a><span class="sd">        ----------</span>
+</span><span id="Covobs-88"><a href="#Covobs-88"><span class="linenos"> 88</span></a><span class="sd">        grad : list or array</span>
+</span><span id="Covobs-89"><a href="#Covobs-89"><span class="linenos"> 89</span></a><span class="sd">            Has to be either of:</span>
+</span><span id="Covobs-90"><a href="#Covobs-90"><span class="linenos"> 90</span></a><span class="sd">            0 dimensional number: gradient w.r.t. a single covobs,</span>
+</span><span id="Covobs-91"><a href="#Covobs-91"><span class="linenos"> 91</span></a><span class="sd">            1 dimensional list or array of lenght N: gradient w.r.t. multiple covobs</span>
+</span><span id="Covobs-92"><a href="#Covobs-92"><span class="linenos"> 92</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Covobs-93"><a href="#Covobs-93"><span class="linenos"> 93</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">grad</span><span class="p">)</span>
+</span><span id="Covobs-94"><a href="#Covobs-94"><span class="linenos"> 94</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="o">.</span><span class="n">ndim</span> <span class="ow">in</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">]:</span>
+</span><span id="Covobs-95"><a href="#Covobs-95"><span class="linenos"> 95</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="Covobs-96"><a href="#Covobs-96"><span class="linenos"> 96</span></a>        <span class="k">elif</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="o">.</span><span class="n">ndim</span> <span class="o">!=</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="Covobs-97"><a href="#Covobs-97"><span class="linenos"> 97</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Invalid dimension of grad!&#39;</span><span class="p">)</span>
+</span><span id="Covobs-98"><a href="#Covobs-98"><span class="linenos"> 98</span></a>
+</span><span id="Covobs-99"><a href="#Covobs-99"><span class="linenos"> 99</span></a>    <span class="nd">@property</span>
+</span><span id="Covobs-100"><a href="#Covobs-100"><span class="linenos">100</span></a>    <span class="k">def</span> <span class="nf">cov</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Covobs-101"><a href="#Covobs-101"><span class="linenos">101</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_cov</span>
+</span><span id="Covobs-102"><a href="#Covobs-102"><span class="linenos">102</span></a>
+</span><span id="Covobs-103"><a href="#Covobs-103"><span class="linenos">103</span></a>    <span class="nd">@property</span>
+</span><span id="Covobs-104"><a href="#Covobs-104"><span class="linenos">104</span></a>    <span class="k">def</span> <span class="nf">grad</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Covobs-105"><a href="#Covobs-105"><span class="linenos">105</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             <div id="Covobs.__init__" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Covobs.__init__">#&nbsp;&nbsp</a>
+                                        <input id="Covobs.__init__-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="name">Covobs</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">mean</span>, </span><span class="param"><span class="n">cov</span>, </span><span class="param"><span class="n">name</span>, </span><span class="param"><span class="n">pos</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="n">grad</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="Covobs.__init__-view-source"><span>View Source</span></label>
 
-        
-            <span class="name">Covobs</span><span class="signature">(mean, cov, name, pos=None, grad=None)</span>
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Covobs.__init__-6"><a href="#Covobs.__init__-6"><span class="linenos"> 6</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">mean</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">pos</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Covobs.__init__-7"><a href="#Covobs.__init__-7"><span class="linenos"> 7</span></a>        <span class="sd">&quot;&quot;&quot; Initialize Covobs object.</span>
-</span><span id="Covobs.__init__-8"><a href="#Covobs.__init__-8"><span class="linenos"> 8</span></a>
-</span><span id="Covobs.__init__-9"><a href="#Covobs.__init__-9"><span class="linenos"> 9</span></a><span class="sd">        Parameters</span>
-</span><span id="Covobs.__init__-10"><a href="#Covobs.__init__-10"><span class="linenos">10</span></a><span class="sd">        ----------</span>
-</span><span id="Covobs.__init__-11"><a href="#Covobs.__init__-11"><span class="linenos">11</span></a><span class="sd">        mean : float</span>
-</span><span id="Covobs.__init__-12"><a href="#Covobs.__init__-12"><span class="linenos">12</span></a><span class="sd">            Mean value of the new Obs</span>
-</span><span id="Covobs.__init__-13"><a href="#Covobs.__init__-13"><span class="linenos">13</span></a><span class="sd">        cov : list or array</span>
-</span><span id="Covobs.__init__-14"><a href="#Covobs.__init__-14"><span class="linenos">14</span></a><span class="sd">            2d Covariance matrix or 1d diagonal entries</span>
-</span><span id="Covobs.__init__-15"><a href="#Covobs.__init__-15"><span class="linenos">15</span></a><span class="sd">        name : str</span>
-</span><span id="Covobs.__init__-16"><a href="#Covobs.__init__-16"><span class="linenos">16</span></a><span class="sd">            identifier for the covariance matrix</span>
-</span><span id="Covobs.__init__-17"><a href="#Covobs.__init__-17"><span class="linenos">17</span></a><span class="sd">        pos : int</span>
-</span><span id="Covobs.__init__-18"><a href="#Covobs.__init__-18"><span class="linenos">18</span></a><span class="sd">            Position of the variance belonging to mean in cov.</span>
-</span><span id="Covobs.__init__-19"><a href="#Covobs.__init__-19"><span class="linenos">19</span></a><span class="sd">            Is taken to be 1 if cov is 0-dimensional</span>
-</span><span id="Covobs.__init__-20"><a href="#Covobs.__init__-20"><span class="linenos">20</span></a><span class="sd">        grad : list or array</span>
-</span><span id="Covobs.__init__-21"><a href="#Covobs.__init__-21"><span class="linenos">21</span></a><span class="sd">            Gradient of the Covobs wrt. the means belonging to cov.</span>
-</span><span id="Covobs.__init__-22"><a href="#Covobs.__init__-22"><span class="linenos">22</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Covobs.__init__-23"><a href="#Covobs.__init__-23"><span class="linenos">23</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_set_cov</span><span class="p">(</span><span class="n">cov</span><span class="p">)</span>
-</span><span id="Covobs.__init__-24"><a href="#Covobs.__init__-24"><span class="linenos">24</span></a>        <span class="k">if</span> <span class="s1">&#39;|&#39;</span> <span class="ow">in</span> <span class="n">name</span><span class="p">:</span>
-</span><span id="Covobs.__init__-25"><a href="#Covobs.__init__-25"><span class="linenos">25</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Covobs name must not contain replica separator &#39;|&#39;.&quot;</span><span class="p">)</span>
-</span><span id="Covobs.__init__-26"><a href="#Covobs.__init__-26"><span class="linenos">26</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="Covobs.__init__-27"><a href="#Covobs.__init__-27"><span class="linenos">27</span></a>        <span class="k">if</span> <span class="n">grad</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Covobs.__init__-28"><a href="#Covobs.__init__-28"><span class="linenos">28</span></a>            <span class="k">if</span> <span class="n">pos</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Covobs.__init__-29"><a href="#Covobs.__init__-29"><span class="linenos">29</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Covobs.__init__-30"><a href="#Covobs.__init__-30"><span class="linenos">30</span></a>                    <span class="n">pos</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Covobs.__init__-31"><a href="#Covobs.__init__-31"><span class="linenos">31</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Covobs.__init__-32"><a href="#Covobs.__init__-32"><span class="linenos">32</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Have to specify position of cov-element belonging to mean!&#39;</span><span class="p">)</span>
-</span><span id="Covobs.__init__-33"><a href="#Covobs.__init__-33"><span class="linenos">33</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Covobs.__init__-34"><a href="#Covobs.__init__-34"><span class="linenos">34</span></a>                <span class="k">if</span> <span class="n">pos</span> <span class="o">&gt;</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
-</span><span id="Covobs.__init__-35"><a href="#Covobs.__init__-35"><span class="linenos">35</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;pos </span><span class="si">%d</span><span class="s1"> too large for covariance matrix with dimension </span><span class="si">%d</span><span class="s1">x</span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">pos</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
-</span><span id="Covobs.__init__-36"><a href="#Covobs.__init__-36"><span class="linenos">36</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="Covobs.__init__-37"><a href="#Covobs.__init__-37"><span class="linenos">37</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="p">[</span><span class="n">pos</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.</span>
-</span><span id="Covobs.__init__-38"><a href="#Covobs.__init__-38"><span class="linenos">38</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Covobs.__init__-39"><a href="#Covobs.__init__-39"><span class="linenos">39</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_set_grad</span><span class="p">(</span><span class="n">grad</span><span class="p">)</span>
-</span><span id="Covobs.__init__-40"><a href="#Covobs.__init__-40"><span class="linenos">40</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">=</span> <span class="n">mean</span>
+    <a class="headerlink" href="#Covobs.__init__"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Covobs.__init__-7"><a href="#Covobs.__init__-7"><span class="linenos"> 7</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">mean</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">pos</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Covobs.__init__-8"><a href="#Covobs.__init__-8"><span class="linenos"> 8</span></a>        <span class="sd">&quot;&quot;&quot; Initialize Covobs object.</span>
+</span><span id="Covobs.__init__-9"><a href="#Covobs.__init__-9"><span class="linenos"> 9</span></a>
+</span><span id="Covobs.__init__-10"><a href="#Covobs.__init__-10"><span class="linenos">10</span></a><span class="sd">        Parameters</span>
+</span><span id="Covobs.__init__-11"><a href="#Covobs.__init__-11"><span class="linenos">11</span></a><span class="sd">        ----------</span>
+</span><span id="Covobs.__init__-12"><a href="#Covobs.__init__-12"><span class="linenos">12</span></a><span class="sd">        mean : float</span>
+</span><span id="Covobs.__init__-13"><a href="#Covobs.__init__-13"><span class="linenos">13</span></a><span class="sd">            Mean value of the new Obs</span>
+</span><span id="Covobs.__init__-14"><a href="#Covobs.__init__-14"><span class="linenos">14</span></a><span class="sd">        cov : list or array</span>
+</span><span id="Covobs.__init__-15"><a href="#Covobs.__init__-15"><span class="linenos">15</span></a><span class="sd">            2d Covariance matrix or 1d diagonal entries</span>
+</span><span id="Covobs.__init__-16"><a href="#Covobs.__init__-16"><span class="linenos">16</span></a><span class="sd">        name : str</span>
+</span><span id="Covobs.__init__-17"><a href="#Covobs.__init__-17"><span class="linenos">17</span></a><span class="sd">            identifier for the covariance matrix</span>
+</span><span id="Covobs.__init__-18"><a href="#Covobs.__init__-18"><span class="linenos">18</span></a><span class="sd">        pos : int</span>
+</span><span id="Covobs.__init__-19"><a href="#Covobs.__init__-19"><span class="linenos">19</span></a><span class="sd">            Position of the variance belonging to mean in cov.</span>
+</span><span id="Covobs.__init__-20"><a href="#Covobs.__init__-20"><span class="linenos">20</span></a><span class="sd">            Is taken to be 1 if cov is 0-dimensional</span>
+</span><span id="Covobs.__init__-21"><a href="#Covobs.__init__-21"><span class="linenos">21</span></a><span class="sd">        grad : list or array</span>
+</span><span id="Covobs.__init__-22"><a href="#Covobs.__init__-22"><span class="linenos">22</span></a><span class="sd">            Gradient of the Covobs wrt. the means belonging to cov.</span>
+</span><span id="Covobs.__init__-23"><a href="#Covobs.__init__-23"><span class="linenos">23</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Covobs.__init__-24"><a href="#Covobs.__init__-24"><span class="linenos">24</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_set_cov</span><span class="p">(</span><span class="n">cov</span><span class="p">)</span>
+</span><span id="Covobs.__init__-25"><a href="#Covobs.__init__-25"><span class="linenos">25</span></a>        <span class="k">if</span> <span class="s1">&#39;|&#39;</span> <span class="ow">in</span> <span class="n">name</span><span class="p">:</span>
+</span><span id="Covobs.__init__-26"><a href="#Covobs.__init__-26"><span class="linenos">26</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Covobs name must not contain replica separator &#39;|&#39;.&quot;</span><span class="p">)</span>
+</span><span id="Covobs.__init__-27"><a href="#Covobs.__init__-27"><span class="linenos">27</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">name</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="Covobs.__init__-28"><a href="#Covobs.__init__-28"><span class="linenos">28</span></a>        <span class="k">if</span> <span class="n">grad</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Covobs.__init__-29"><a href="#Covobs.__init__-29"><span class="linenos">29</span></a>            <span class="k">if</span> <span class="n">pos</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Covobs.__init__-30"><a href="#Covobs.__init__-30"><span class="linenos">30</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Covobs.__init__-31"><a href="#Covobs.__init__-31"><span class="linenos">31</span></a>                    <span class="n">pos</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Covobs.__init__-32"><a href="#Covobs.__init__-32"><span class="linenos">32</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Covobs.__init__-33"><a href="#Covobs.__init__-33"><span class="linenos">33</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Have to specify position of cov-element belonging to mean!&#39;</span><span class="p">)</span>
+</span><span id="Covobs.__init__-34"><a href="#Covobs.__init__-34"><span class="linenos">34</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Covobs.__init__-35"><a href="#Covobs.__init__-35"><span class="linenos">35</span></a>                <span class="k">if</span> <span class="n">pos</span> <span class="o">&gt;</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">:</span>
+</span><span id="Covobs.__init__-36"><a href="#Covobs.__init__-36"><span class="linenos">36</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;pos </span><span class="si">%d</span><span class="s1"> too large for covariance matrix with dimension </span><span class="si">%d</span><span class="s1">x</span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">pos</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
+</span><span id="Covobs.__init__-37"><a href="#Covobs.__init__-37"><span class="linenos">37</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="Covobs.__init__-38"><a href="#Covobs.__init__-38"><span class="linenos">38</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_grad</span><span class="p">[</span><span class="n">pos</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.</span>
+</span><span id="Covobs.__init__-39"><a href="#Covobs.__init__-39"><span class="linenos">39</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Covobs.__init__-40"><a href="#Covobs.__init__-40"><span class="linenos">40</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_set_grad</span><span class="p">(</span><span class="n">grad</span><span class="p">)</span>
+</span><span id="Covobs.__init__-41"><a href="#Covobs.__init__-41"><span class="linenos">41</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">=</span> <span class="n">mean</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Initialize Covobs object.</p>
 
@@ -381,22 +381,22 @@ Gradient of the Covobs wrt. the means belonging to cov.</li>
 
                             </div>
                             <div id="Covobs.errsq" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Covobs.errsq">#&nbsp;&nbsp</a>
+                                        <input id="Covobs.errsq-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">errsq</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Covobs.errsq-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">errsq</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Covobs.errsq-42"><a href="#Covobs.errsq-42"><span class="linenos">42</span></a>    <span class="k">def</span> <span class="nf">errsq</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Covobs.errsq-43"><a href="#Covobs.errsq-43"><span class="linenos">43</span></a>        <span class="sd">&quot;&quot;&quot; Return the variance (= square of the error) of the Covobs</span>
-</span><span id="Covobs.errsq-44"><a href="#Covobs.errsq-44"><span class="linenos">44</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Covobs.errsq-45"><a href="#Covobs.errsq-45"><span class="linenos">45</span></a>        <span class="k">return</span> <span class="nb">float</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">transpose</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">grad</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">cov</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">grad</span><span class="p">)))</span>
+    <a class="headerlink" href="#Covobs.errsq"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Covobs.errsq-43"><a href="#Covobs.errsq-43"><span class="linenos">43</span></a>    <span class="k">def</span> <span class="nf">errsq</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Covobs.errsq-44"><a href="#Covobs.errsq-44"><span class="linenos">44</span></a>        <span class="sd">&quot;&quot;&quot; Return the variance (= square of the error) of the Covobs</span>
+</span><span id="Covobs.errsq-45"><a href="#Covobs.errsq-45"><span class="linenos">45</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Covobs.errsq-46"><a href="#Covobs.errsq-46"><span class="linenos">46</span></a>        <span class="k">return</span> <span class="nb">float</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">transpose</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">grad</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">cov</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">grad</span><span class="p">)))</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Return the variance (= square of the error) of the Covobs</p>
 </div>
@@ -404,21 +404,23 @@ Gradient of the Covobs wrt. the means belonging to cov.</li>
 
                             </div>
                             <div id="Covobs.cov" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Covobs.cov">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">cov</span>
 
-        <span class="name">cov</span>
+        
     </div>
-
+    <a class="headerlink" href="#Covobs.cov"></a>
     
     
 
                             </div>
                             <div id="Covobs.grad" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Covobs.grad">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">grad</span>
 
-        <span class="name">grad</span>
+        
     </div>
-
+    <a class="headerlink" href="#Covobs.grad"></a>
     
     
 
diff --git a/docs/pyerrors/dirac.html b/docs/pyerrors/dirac.html
index 052d07aa..956305b0 100644
--- a/docs/pyerrors/dirac.html
+++ b/docs/pyerrors/dirac.html
@@ -3,14 +3,14 @@
 <head>
     <meta charset="utf-8">
     <meta name="viewport" content="width=device-width, initial-scale=1">
-    <meta name="generator" content="pdoc 11.2.0"/>
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     <title>pyerrors.dirac API documentation</title>
 
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@@ -73,121 +73,122 @@
 <a href="./../pyerrors.html">pyerrors</a><wbr>.dirac    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos"> 0</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a>
+                        <input id="dirac-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="dirac-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
 </span><span id="L-2"><a href="#L-2"><span class="linenos"> 2</span></a>
-</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a><span class="n">gammaX</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a>    <span class="p">[[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="n">j</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="n">j</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="n">j</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="n">j</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]],</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos"> 5</span></a>    <span class="n">dtype</span><span class="o">=</span><span class="nb">complex</span><span class="p">)</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a><span class="n">gammaY</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a>    <span class="p">[[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]],</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a>    <span class="n">dtype</span><span class="o">=</span><span class="nb">complex</span><span class="p">)</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a><span class="n">gammaZ</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos">10</span></a>    <span class="p">[[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="n">j</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="n">j</span><span class="p">],</span> <span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="n">j</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="n">j</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]],</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos">11</span></a>    <span class="n">dtype</span><span class="o">=</span><span class="nb">complex</span><span class="p">)</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos">12</span></a><span class="n">gammaT</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos">13</span></a>    <span class="p">[[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]],</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos">14</span></a>    <span class="n">dtype</span><span class="o">=</span><span class="nb">complex</span><span class="p">)</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos">15</span></a><span class="n">gamma</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">gammaX</span><span class="p">,</span> <span class="n">gammaY</span><span class="p">,</span> <span class="n">gammaZ</span><span class="p">,</span> <span class="n">gammaT</span><span class="p">])</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos">16</span></a><span class="n">gamma5</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos">17</span></a>    <span class="p">[[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">]],</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos">18</span></a>    <span class="n">dtype</span><span class="o">=</span><span class="nb">complex</span><span class="p">)</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos">19</span></a><span class="n">identity</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos">20</span></a>    <span class="p">[[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">]],</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos">21</span></a>    <span class="n">dtype</span><span class="o">=</span><span class="nb">complex</span><span class="p">)</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos">22</span></a>
+</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a>
+</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a><span class="n">gammaX</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos"> 5</span></a>    <span class="p">[[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="n">j</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="n">j</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="n">j</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="n">j</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]],</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a>    <span class="n">dtype</span><span class="o">=</span><span class="nb">complex</span><span class="p">)</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a><span class="n">gammaY</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a>    <span class="p">[[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]],</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a>    <span class="n">dtype</span><span class="o">=</span><span class="nb">complex</span><span class="p">)</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos">10</span></a><span class="n">gammaZ</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos">11</span></a>    <span class="p">[[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="n">j</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="n">j</span><span class="p">],</span> <span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="n">j</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="n">j</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]],</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos">12</span></a>    <span class="n">dtype</span><span class="o">=</span><span class="nb">complex</span><span class="p">)</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos">13</span></a><span class="n">gammaT</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos">14</span></a>    <span class="p">[[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">]],</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos">15</span></a>    <span class="n">dtype</span><span class="o">=</span><span class="nb">complex</span><span class="p">)</span>
+</span><span id="L-16"><a href="#L-16"><span class="linenos">16</span></a><span class="n">gamma</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">gammaX</span><span class="p">,</span> <span class="n">gammaY</span><span class="p">,</span> <span class="n">gammaZ</span><span class="p">,</span> <span class="n">gammaT</span><span class="p">])</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos">17</span></a><span class="n">gamma5</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos">18</span></a>    <span class="p">[[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">]],</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos">19</span></a>    <span class="n">dtype</span><span class="o">=</span><span class="nb">complex</span><span class="p">)</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos">20</span></a><span class="n">identity</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos">21</span></a>    <span class="p">[[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">]],</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos">22</span></a>    <span class="n">dtype</span><span class="o">=</span><span class="nb">complex</span><span class="p">)</span>
 </span><span id="L-23"><a href="#L-23"><span class="linenos">23</span></a>
-</span><span id="L-24"><a href="#L-24"><span class="linenos">24</span></a><span class="k">def</span> <span class="nf">epsilon_tensor</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">):</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos">25</span></a>    <span class="sd">&quot;&quot;&quot;Rank-3 epsilon tensor</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos">26</span></a>
-</span><span id="L-27"><a href="#L-27"><span class="linenos">27</span></a><span class="sd">    Based on https://codegolf.stackexchange.com/a/160375</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos">28</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos">29</span></a>    <span class="n">test_set</span> <span class="o">=</span> <span class="nb">set</span><span class="p">((</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">))</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos">30</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">3</span><span class="p">))</span> <span class="ow">or</span> <span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">))):</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos">31</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unexpected input&quot;</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos">32</span></a>
-</span><span id="L-33"><a href="#L-33"><span class="linenos">33</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">i</span> <span class="o">-</span> <span class="n">j</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">j</span> <span class="o">-</span> <span class="n">k</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">k</span> <span class="o">-</span> <span class="n">i</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos">34</span></a>
+</span><span id="L-24"><a href="#L-24"><span class="linenos">24</span></a>
+</span><span id="L-25"><a href="#L-25"><span class="linenos">25</span></a><span class="k">def</span> <span class="nf">epsilon_tensor</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">):</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos">26</span></a>    <span class="sd">&quot;&quot;&quot;Rank-3 epsilon tensor</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos">27</span></a>
+</span><span id="L-28"><a href="#L-28"><span class="linenos">28</span></a><span class="sd">    Based on https://codegolf.stackexchange.com/a/160375</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos">29</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos">30</span></a>    <span class="n">test_set</span> <span class="o">=</span> <span class="nb">set</span><span class="p">((</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">))</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos">31</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">3</span><span class="p">))</span> <span class="ow">or</span> <span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">))):</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos">32</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unexpected input&quot;</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos">33</span></a>
+</span><span id="L-34"><a href="#L-34"><span class="linenos">34</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">i</span> <span class="o">-</span> <span class="n">j</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">j</span> <span class="o">-</span> <span class="n">k</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">k</span> <span class="o">-</span> <span class="n">i</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span>
 </span><span id="L-35"><a href="#L-35"><span class="linenos">35</span></a>
-</span><span id="L-36"><a href="#L-36"><span class="linenos">36</span></a><span class="k">def</span> <span class="nf">epsilon_tensor_rank4</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">):</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos">37</span></a>    <span class="sd">&quot;&quot;&quot;Rank-4 epsilon tensor</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos">38</span></a>
-</span><span id="L-39"><a href="#L-39"><span class="linenos">39</span></a><span class="sd">    Extension of https://codegolf.stackexchange.com/a/160375</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos">40</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-41"><a href="#L-41"><span class="linenos">41</span></a>    <span class="n">test_set</span> <span class="o">=</span> <span class="nb">set</span><span class="p">((</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">))</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos">42</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">3</span><span class="p">,</span> <span class="mi">4</span><span class="p">))</span> <span class="ow">or</span> <span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">3</span><span class="p">))):</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos">43</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unexpected input&quot;</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">)</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos">44</span></a>
-</span><span id="L-45"><a href="#L-45"><span class="linenos">45</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">i</span> <span class="o">-</span> <span class="n">j</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">j</span> <span class="o">-</span> <span class="n">k</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">k</span> <span class="o">-</span> <span class="n">i</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">i</span> <span class="o">-</span> <span class="n">o</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">j</span> <span class="o">-</span> <span class="n">o</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">o</span> <span class="o">-</span> <span class="n">k</span><span class="p">)</span> <span class="o">/</span> <span class="mi">12</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos">46</span></a>
+</span><span id="L-36"><a href="#L-36"><span class="linenos">36</span></a>
+</span><span id="L-37"><a href="#L-37"><span class="linenos">37</span></a><span class="k">def</span> <span class="nf">epsilon_tensor_rank4</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">):</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos">38</span></a>    <span class="sd">&quot;&quot;&quot;Rank-4 epsilon tensor</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos">39</span></a>
+</span><span id="L-40"><a href="#L-40"><span class="linenos">40</span></a><span class="sd">    Extension of https://codegolf.stackexchange.com/a/160375</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos">41</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-42"><a href="#L-42"><span class="linenos">42</span></a>    <span class="n">test_set</span> <span class="o">=</span> <span class="nb">set</span><span class="p">((</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">))</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos">43</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">3</span><span class="p">,</span> <span class="mi">4</span><span class="p">))</span> <span class="ow">or</span> <span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">3</span><span class="p">))):</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos">44</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unexpected input&quot;</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">)</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos">45</span></a>
+</span><span id="L-46"><a href="#L-46"><span class="linenos">46</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">i</span> <span class="o">-</span> <span class="n">j</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">j</span> <span class="o">-</span> <span class="n">k</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">k</span> <span class="o">-</span> <span class="n">i</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">i</span> <span class="o">-</span> <span class="n">o</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">j</span> <span class="o">-</span> <span class="n">o</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">o</span> <span class="o">-</span> <span class="n">k</span><span class="p">)</span> <span class="o">/</span> <span class="mi">12</span>
 </span><span id="L-47"><a href="#L-47"><span class="linenos">47</span></a>
-</span><span id="L-48"><a href="#L-48"><span class="linenos">48</span></a><span class="k">def</span> <span class="nf">Grid_gamma</span><span class="p">(</span><span class="n">gamma_tag</span><span class="p">):</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos">49</span></a>    <span class="sd">&quot;&quot;&quot;Returns gamma matrix in Grid labeling.&quot;&quot;&quot;</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos">50</span></a>    <span class="k">if</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;Identity&#39;</span><span class="p">:</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos">51</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">identity</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos">52</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;Gamma5&#39;</span><span class="p">:</span>
-</span><span id="L-53"><a href="#L-53"><span class="linenos">53</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma5</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos">54</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaX&#39;</span><span class="p">:</span>
-</span><span id="L-55"><a href="#L-55"><span class="linenos">55</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos">56</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaY&#39;</span><span class="p">:</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos">57</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-58"><a href="#L-58"><span class="linenos">58</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaZ&#39;</span><span class="p">:</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos">59</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="L-60"><a href="#L-60"><span class="linenos">60</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaT&#39;</span><span class="p">:</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos">61</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos">62</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaXGamma5&#39;</span><span class="p">:</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos">63</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
-</span><span id="L-64"><a href="#L-64"><span class="linenos">64</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaYGamma5&#39;</span><span class="p">:</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos">65</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
-</span><span id="L-66"><a href="#L-66"><span class="linenos">66</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaZGamma5&#39;</span><span class="p">:</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos">67</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
-</span><span id="L-68"><a href="#L-68"><span class="linenos">68</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaTGamma5&#39;</span><span class="p">:</span>
-</span><span id="L-69"><a href="#L-69"><span class="linenos">69</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos">70</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaXT&#39;</span><span class="p">:</span>
-</span><span id="L-71"><a href="#L-71"><span class="linenos">71</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos">72</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaXY&#39;</span><span class="p">:</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos">73</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos">74</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaXZ&#39;</span><span class="p">:</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos">75</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-76"><a href="#L-76"><span class="linenos">76</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaYT&#39;</span><span class="p">:</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos">77</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos">78</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaYZ&#39;</span><span class="p">:</span>
-</span><span id="L-79"><a href="#L-79"><span class="linenos">79</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos">80</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaZT&#39;</span><span class="p">:</span>
-</span><span id="L-81"><a href="#L-81"><span class="linenos">81</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">])</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos">82</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos">83</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unkown gamma structure&#39;</span><span class="p">,</span> <span class="n">gamma_tag</span><span class="p">)</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos">84</span></a>    <span class="k">return</span> <span class="n">g</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos">48</span></a>
+</span><span id="L-49"><a href="#L-49"><span class="linenos">49</span></a><span class="k">def</span> <span class="nf">Grid_gamma</span><span class="p">(</span><span class="n">gamma_tag</span><span class="p">):</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos">50</span></a>    <span class="sd">&quot;&quot;&quot;Returns gamma matrix in Grid labeling.&quot;&quot;&quot;</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos">51</span></a>    <span class="k">if</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;Identity&#39;</span><span class="p">:</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos">52</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">identity</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos">53</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;Gamma5&#39;</span><span class="p">:</span>
+</span><span id="L-54"><a href="#L-54"><span class="linenos">54</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma5</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos">55</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaX&#39;</span><span class="p">:</span>
+</span><span id="L-56"><a href="#L-56"><span class="linenos">56</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos">57</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaY&#39;</span><span class="p">:</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos">58</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-59"><a href="#L-59"><span class="linenos">59</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaZ&#39;</span><span class="p">:</span>
+</span><span id="L-60"><a href="#L-60"><span class="linenos">60</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="L-61"><a href="#L-61"><span class="linenos">61</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaT&#39;</span><span class="p">:</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos">62</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos">63</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaXGamma5&#39;</span><span class="p">:</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos">64</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
+</span><span id="L-65"><a href="#L-65"><span class="linenos">65</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaYGamma5&#39;</span><span class="p">:</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos">66</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
+</span><span id="L-67"><a href="#L-67"><span class="linenos">67</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaZGamma5&#39;</span><span class="p">:</span>
+</span><span id="L-68"><a href="#L-68"><span class="linenos">68</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
+</span><span id="L-69"><a href="#L-69"><span class="linenos">69</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaTGamma5&#39;</span><span class="p">:</span>
+</span><span id="L-70"><a href="#L-70"><span class="linenos">70</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos">71</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaXT&#39;</span><span class="p">:</span>
+</span><span id="L-72"><a href="#L-72"><span class="linenos">72</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos">73</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaXY&#39;</span><span class="p">:</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos">74</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos">75</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaXZ&#39;</span><span class="p">:</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos">76</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-77"><a href="#L-77"><span class="linenos">77</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaYT&#39;</span><span class="p">:</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos">78</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos">79</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaYZ&#39;</span><span class="p">:</span>
+</span><span id="L-80"><a href="#L-80"><span class="linenos">80</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos">81</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaZT&#39;</span><span class="p">:</span>
+</span><span id="L-82"><a href="#L-82"><span class="linenos">82</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">])</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos">83</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos">84</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unkown gamma structure&#39;</span><span class="p">,</span> <span class="n">gamma_tag</span><span class="p">)</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos">85</span></a>    <span class="k">return</span> <span class="n">g</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="epsilon_tensor">
-                            <div class="attr function"><a class="headerlink" href="#epsilon_tensor">#&nbsp;&nbsp</a>
+                            <input id="epsilon_tensor-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">epsilon_tensor</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">i</span>, </span><span class="param"><span class="n">j</span>, </span><span class="param"><span class="n">k</span></span>)</span>
+
+                <label class="view-source-button" for="epsilon_tensor-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">epsilon_tensor</span><span class="signature">(i, j, k)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="epsilon_tensor-25"><a href="#epsilon_tensor-25"><span class="linenos">25</span></a><span class="k">def</span> <span class="nf">epsilon_tensor</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">):</span>
-</span><span id="epsilon_tensor-26"><a href="#epsilon_tensor-26"><span class="linenos">26</span></a>    <span class="sd">&quot;&quot;&quot;Rank-3 epsilon tensor</span>
-</span><span id="epsilon_tensor-27"><a href="#epsilon_tensor-27"><span class="linenos">27</span></a>
-</span><span id="epsilon_tensor-28"><a href="#epsilon_tensor-28"><span class="linenos">28</span></a><span class="sd">    Based on https://codegolf.stackexchange.com/a/160375</span>
-</span><span id="epsilon_tensor-29"><a href="#epsilon_tensor-29"><span class="linenos">29</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="epsilon_tensor-30"><a href="#epsilon_tensor-30"><span class="linenos">30</span></a>    <span class="n">test_set</span> <span class="o">=</span> <span class="nb">set</span><span class="p">((</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">))</span>
-</span><span id="epsilon_tensor-31"><a href="#epsilon_tensor-31"><span class="linenos">31</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">3</span><span class="p">))</span> <span class="ow">or</span> <span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">))):</span>
-</span><span id="epsilon_tensor-32"><a href="#epsilon_tensor-32"><span class="linenos">32</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unexpected input&quot;</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
-</span><span id="epsilon_tensor-33"><a href="#epsilon_tensor-33"><span class="linenos">33</span></a>
-</span><span id="epsilon_tensor-34"><a href="#epsilon_tensor-34"><span class="linenos">34</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">i</span> <span class="o">-</span> <span class="n">j</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">j</span> <span class="o">-</span> <span class="n">k</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">k</span> <span class="o">-</span> <span class="n">i</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span>
+    <a class="headerlink" href="#epsilon_tensor"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="epsilon_tensor-26"><a href="#epsilon_tensor-26"><span class="linenos">26</span></a><span class="k">def</span> <span class="nf">epsilon_tensor</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">):</span>
+</span><span id="epsilon_tensor-27"><a href="#epsilon_tensor-27"><span class="linenos">27</span></a>    <span class="sd">&quot;&quot;&quot;Rank-3 epsilon tensor</span>
+</span><span id="epsilon_tensor-28"><a href="#epsilon_tensor-28"><span class="linenos">28</span></a>
+</span><span id="epsilon_tensor-29"><a href="#epsilon_tensor-29"><span class="linenos">29</span></a><span class="sd">    Based on https://codegolf.stackexchange.com/a/160375</span>
+</span><span id="epsilon_tensor-30"><a href="#epsilon_tensor-30"><span class="linenos">30</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="epsilon_tensor-31"><a href="#epsilon_tensor-31"><span class="linenos">31</span></a>    <span class="n">test_set</span> <span class="o">=</span> <span class="nb">set</span><span class="p">((</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">))</span>
+</span><span id="epsilon_tensor-32"><a href="#epsilon_tensor-32"><span class="linenos">32</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">3</span><span class="p">))</span> <span class="ow">or</span> <span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">))):</span>
+</span><span id="epsilon_tensor-33"><a href="#epsilon_tensor-33"><span class="linenos">33</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unexpected input&quot;</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
+</span><span id="epsilon_tensor-34"><a href="#epsilon_tensor-34"><span class="linenos">34</span></a>
+</span><span id="epsilon_tensor-35"><a href="#epsilon_tensor-35"><span class="linenos">35</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">i</span> <span class="o">-</span> <span class="n">j</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">j</span> <span class="o">-</span> <span class="n">k</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">k</span> <span class="o">-</span> <span class="n">i</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Rank-3 epsilon tensor</p>
 
@@ -197,28 +198,28 @@
 
                 </section>
                 <section id="epsilon_tensor_rank4">
-                            <div class="attr function"><a class="headerlink" href="#epsilon_tensor_rank4">#&nbsp;&nbsp</a>
+                            <input id="epsilon_tensor_rank4-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">epsilon_tensor_rank4</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">i</span>, </span><span class="param"><span class="n">j</span>, </span><span class="param"><span class="n">k</span>, </span><span class="param"><span class="n">o</span></span>)</span>
+
+                <label class="view-source-button" for="epsilon_tensor_rank4-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">epsilon_tensor_rank4</span><span class="signature">(i, j, k, o)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="epsilon_tensor_rank4-37"><a href="#epsilon_tensor_rank4-37"><span class="linenos">37</span></a><span class="k">def</span> <span class="nf">epsilon_tensor_rank4</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">):</span>
-</span><span id="epsilon_tensor_rank4-38"><a href="#epsilon_tensor_rank4-38"><span class="linenos">38</span></a>    <span class="sd">&quot;&quot;&quot;Rank-4 epsilon tensor</span>
-</span><span id="epsilon_tensor_rank4-39"><a href="#epsilon_tensor_rank4-39"><span class="linenos">39</span></a>
-</span><span id="epsilon_tensor_rank4-40"><a href="#epsilon_tensor_rank4-40"><span class="linenos">40</span></a><span class="sd">    Extension of https://codegolf.stackexchange.com/a/160375</span>
-</span><span id="epsilon_tensor_rank4-41"><a href="#epsilon_tensor_rank4-41"><span class="linenos">41</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="epsilon_tensor_rank4-42"><a href="#epsilon_tensor_rank4-42"><span class="linenos">42</span></a>    <span class="n">test_set</span> <span class="o">=</span> <span class="nb">set</span><span class="p">((</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">))</span>
-</span><span id="epsilon_tensor_rank4-43"><a href="#epsilon_tensor_rank4-43"><span class="linenos">43</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">3</span><span class="p">,</span> <span class="mi">4</span><span class="p">))</span> <span class="ow">or</span> <span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">3</span><span class="p">))):</span>
-</span><span id="epsilon_tensor_rank4-44"><a href="#epsilon_tensor_rank4-44"><span class="linenos">44</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unexpected input&quot;</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">)</span>
-</span><span id="epsilon_tensor_rank4-45"><a href="#epsilon_tensor_rank4-45"><span class="linenos">45</span></a>
-</span><span id="epsilon_tensor_rank4-46"><a href="#epsilon_tensor_rank4-46"><span class="linenos">46</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">i</span> <span class="o">-</span> <span class="n">j</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">j</span> <span class="o">-</span> <span class="n">k</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">k</span> <span class="o">-</span> <span class="n">i</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">i</span> <span class="o">-</span> <span class="n">o</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">j</span> <span class="o">-</span> <span class="n">o</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">o</span> <span class="o">-</span> <span class="n">k</span><span class="p">)</span> <span class="o">/</span> <span class="mi">12</span>
+    <a class="headerlink" href="#epsilon_tensor_rank4"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="epsilon_tensor_rank4-38"><a href="#epsilon_tensor_rank4-38"><span class="linenos">38</span></a><span class="k">def</span> <span class="nf">epsilon_tensor_rank4</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">):</span>
+</span><span id="epsilon_tensor_rank4-39"><a href="#epsilon_tensor_rank4-39"><span class="linenos">39</span></a>    <span class="sd">&quot;&quot;&quot;Rank-4 epsilon tensor</span>
+</span><span id="epsilon_tensor_rank4-40"><a href="#epsilon_tensor_rank4-40"><span class="linenos">40</span></a>
+</span><span id="epsilon_tensor_rank4-41"><a href="#epsilon_tensor_rank4-41"><span class="linenos">41</span></a><span class="sd">    Extension of https://codegolf.stackexchange.com/a/160375</span>
+</span><span id="epsilon_tensor_rank4-42"><a href="#epsilon_tensor_rank4-42"><span class="linenos">42</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="epsilon_tensor_rank4-43"><a href="#epsilon_tensor_rank4-43"><span class="linenos">43</span></a>    <span class="n">test_set</span> <span class="o">=</span> <span class="nb">set</span><span class="p">((</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">))</span>
+</span><span id="epsilon_tensor_rank4-44"><a href="#epsilon_tensor_rank4-44"><span class="linenos">44</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">3</span><span class="p">,</span> <span class="mi">4</span><span class="p">))</span> <span class="ow">or</span> <span class="n">test_set</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">((</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">3</span><span class="p">))):</span>
+</span><span id="epsilon_tensor_rank4-45"><a href="#epsilon_tensor_rank4-45"><span class="linenos">45</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unexpected input&quot;</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">)</span>
+</span><span id="epsilon_tensor_rank4-46"><a href="#epsilon_tensor_rank4-46"><span class="linenos">46</span></a>
+</span><span id="epsilon_tensor_rank4-47"><a href="#epsilon_tensor_rank4-47"><span class="linenos">47</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">i</span> <span class="o">-</span> <span class="n">j</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">j</span> <span class="o">-</span> <span class="n">k</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">k</span> <span class="o">-</span> <span class="n">i</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">i</span> <span class="o">-</span> <span class="n">o</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">j</span> <span class="o">-</span> <span class="n">o</span><span class="p">)</span> <span class="o">*</span> <span class="p">(</span><span class="n">o</span> <span class="o">-</span> <span class="n">k</span><span class="p">)</span> <span class="o">/</span> <span class="mi">12</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Rank-4 epsilon tensor</p>
 
@@ -228,55 +229,55 @@
 
                 </section>
                 <section id="Grid_gamma">
-                            <div class="attr function"><a class="headerlink" href="#Grid_gamma">#&nbsp;&nbsp</a>
+                            <input id="Grid_gamma-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">Grid_gamma</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">gamma_tag</span></span>)</span>
+
+                <label class="view-source-button" for="Grid_gamma-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">Grid_gamma</span><span class="signature">(gamma_tag)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Grid_gamma-49"><a href="#Grid_gamma-49"><span class="linenos">49</span></a><span class="k">def</span> <span class="nf">Grid_gamma</span><span class="p">(</span><span class="n">gamma_tag</span><span class="p">):</span>
-</span><span id="Grid_gamma-50"><a href="#Grid_gamma-50"><span class="linenos">50</span></a>    <span class="sd">&quot;&quot;&quot;Returns gamma matrix in Grid labeling.&quot;&quot;&quot;</span>
-</span><span id="Grid_gamma-51"><a href="#Grid_gamma-51"><span class="linenos">51</span></a>    <span class="k">if</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;Identity&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-52"><a href="#Grid_gamma-52"><span class="linenos">52</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">identity</span>
-</span><span id="Grid_gamma-53"><a href="#Grid_gamma-53"><span class="linenos">53</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;Gamma5&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-54"><a href="#Grid_gamma-54"><span class="linenos">54</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma5</span>
-</span><span id="Grid_gamma-55"><a href="#Grid_gamma-55"><span class="linenos">55</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaX&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-56"><a href="#Grid_gamma-56"><span class="linenos">56</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Grid_gamma-57"><a href="#Grid_gamma-57"><span class="linenos">57</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaY&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-58"><a href="#Grid_gamma-58"><span class="linenos">58</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="Grid_gamma-59"><a href="#Grid_gamma-59"><span class="linenos">59</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaZ&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-60"><a href="#Grid_gamma-60"><span class="linenos">60</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="Grid_gamma-61"><a href="#Grid_gamma-61"><span class="linenos">61</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaT&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-62"><a href="#Grid_gamma-62"><span class="linenos">62</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span>
-</span><span id="Grid_gamma-63"><a href="#Grid_gamma-63"><span class="linenos">63</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaXGamma5&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-64"><a href="#Grid_gamma-64"><span class="linenos">64</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
-</span><span id="Grid_gamma-65"><a href="#Grid_gamma-65"><span class="linenos">65</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaYGamma5&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-66"><a href="#Grid_gamma-66"><span class="linenos">66</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
-</span><span id="Grid_gamma-67"><a href="#Grid_gamma-67"><span class="linenos">67</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaZGamma5&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-68"><a href="#Grid_gamma-68"><span class="linenos">68</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
-</span><span id="Grid_gamma-69"><a href="#Grid_gamma-69"><span class="linenos">69</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaTGamma5&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-70"><a href="#Grid_gamma-70"><span class="linenos">70</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
-</span><span id="Grid_gamma-71"><a href="#Grid_gamma-71"><span class="linenos">71</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaXT&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-72"><a href="#Grid_gamma-72"><span class="linenos">72</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="Grid_gamma-73"><a href="#Grid_gamma-73"><span class="linenos">73</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaXY&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-74"><a href="#Grid_gamma-74"><span class="linenos">74</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="Grid_gamma-75"><a href="#Grid_gamma-75"><span class="linenos">75</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaXZ&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-76"><a href="#Grid_gamma-76"><span class="linenos">76</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="Grid_gamma-77"><a href="#Grid_gamma-77"><span class="linenos">77</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaYT&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-78"><a href="#Grid_gamma-78"><span class="linenos">78</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="Grid_gamma-79"><a href="#Grid_gamma-79"><span class="linenos">79</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaYZ&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-80"><a href="#Grid_gamma-80"><span class="linenos">80</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="Grid_gamma-81"><a href="#Grid_gamma-81"><span class="linenos">81</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaZT&#39;</span><span class="p">:</span>
-</span><span id="Grid_gamma-82"><a href="#Grid_gamma-82"><span class="linenos">82</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">])</span>
-</span><span id="Grid_gamma-83"><a href="#Grid_gamma-83"><span class="linenos">83</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="Grid_gamma-84"><a href="#Grid_gamma-84"><span class="linenos">84</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unkown gamma structure&#39;</span><span class="p">,</span> <span class="n">gamma_tag</span><span class="p">)</span>
-</span><span id="Grid_gamma-85"><a href="#Grid_gamma-85"><span class="linenos">85</span></a>    <span class="k">return</span> <span class="n">g</span>
+    <a class="headerlink" href="#Grid_gamma"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Grid_gamma-50"><a href="#Grid_gamma-50"><span class="linenos">50</span></a><span class="k">def</span> <span class="nf">Grid_gamma</span><span class="p">(</span><span class="n">gamma_tag</span><span class="p">):</span>
+</span><span id="Grid_gamma-51"><a href="#Grid_gamma-51"><span class="linenos">51</span></a>    <span class="sd">&quot;&quot;&quot;Returns gamma matrix in Grid labeling.&quot;&quot;&quot;</span>
+</span><span id="Grid_gamma-52"><a href="#Grid_gamma-52"><span class="linenos">52</span></a>    <span class="k">if</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;Identity&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-53"><a href="#Grid_gamma-53"><span class="linenos">53</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">identity</span>
+</span><span id="Grid_gamma-54"><a href="#Grid_gamma-54"><span class="linenos">54</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;Gamma5&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-55"><a href="#Grid_gamma-55"><span class="linenos">55</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma5</span>
+</span><span id="Grid_gamma-56"><a href="#Grid_gamma-56"><span class="linenos">56</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaX&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-57"><a href="#Grid_gamma-57"><span class="linenos">57</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Grid_gamma-58"><a href="#Grid_gamma-58"><span class="linenos">58</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaY&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-59"><a href="#Grid_gamma-59"><span class="linenos">59</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="Grid_gamma-60"><a href="#Grid_gamma-60"><span class="linenos">60</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaZ&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-61"><a href="#Grid_gamma-61"><span class="linenos">61</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="Grid_gamma-62"><a href="#Grid_gamma-62"><span class="linenos">62</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaT&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-63"><a href="#Grid_gamma-63"><span class="linenos">63</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span>
+</span><span id="Grid_gamma-64"><a href="#Grid_gamma-64"><span class="linenos">64</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaXGamma5&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-65"><a href="#Grid_gamma-65"><span class="linenos">65</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
+</span><span id="Grid_gamma-66"><a href="#Grid_gamma-66"><span class="linenos">66</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaYGamma5&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-67"><a href="#Grid_gamma-67"><span class="linenos">67</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
+</span><span id="Grid_gamma-68"><a href="#Grid_gamma-68"><span class="linenos">68</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaZGamma5&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-69"><a href="#Grid_gamma-69"><span class="linenos">69</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
+</span><span id="Grid_gamma-70"><a href="#Grid_gamma-70"><span class="linenos">70</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;GammaTGamma5&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-71"><a href="#Grid_gamma-71"><span class="linenos">71</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma5</span>
+</span><span id="Grid_gamma-72"><a href="#Grid_gamma-72"><span class="linenos">72</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaXT&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-73"><a href="#Grid_gamma-73"><span class="linenos">73</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="Grid_gamma-74"><a href="#Grid_gamma-74"><span class="linenos">74</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaXY&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-75"><a href="#Grid_gamma-75"><span class="linenos">75</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="Grid_gamma-76"><a href="#Grid_gamma-76"><span class="linenos">76</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaXZ&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-77"><a href="#Grid_gamma-77"><span class="linenos">77</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="Grid_gamma-78"><a href="#Grid_gamma-78"><span class="linenos">78</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaYT&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-79"><a href="#Grid_gamma-79"><span class="linenos">79</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="Grid_gamma-80"><a href="#Grid_gamma-80"><span class="linenos">80</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaYZ&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-81"><a href="#Grid_gamma-81"><span class="linenos">81</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="Grid_gamma-82"><a href="#Grid_gamma-82"><span class="linenos">82</span></a>    <span class="k">elif</span> <span class="n">gamma_tag</span> <span class="o">==</span> <span class="s1">&#39;SigmaZT&#39;</span><span class="p">:</span>
+</span><span id="Grid_gamma-83"><a href="#Grid_gamma-83"><span class="linenos">83</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">@</span> <span class="n">gamma</span><span class="p">[</span><span class="mi">2</span><span class="p">])</span>
+</span><span id="Grid_gamma-84"><a href="#Grid_gamma-84"><span class="linenos">84</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="Grid_gamma-85"><a href="#Grid_gamma-85"><span class="linenos">85</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unkown gamma structure&#39;</span><span class="p">,</span> <span class="n">gamma_tag</span><span class="p">)</span>
+</span><span id="Grid_gamma-86"><a href="#Grid_gamma-86"><span class="linenos">86</span></a>    <span class="k">return</span> <span class="n">g</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Returns gamma matrix in Grid labeling.</p>
 </div>
diff --git a/docs/pyerrors/fits.html b/docs/pyerrors/fits.html
index 2ddc463c..a7a5946d 100644
--- a/docs/pyerrors/fits.html
+++ b/docs/pyerrors/fits.html
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@@ -97,789 +97,789 @@
 <a href="./../pyerrors.html">pyerrors</a><wbr>.fits    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">  0</span></a><span class="kn">import</span> <span class="nn">gc</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">from</span> <span class="nn">collections.abc</span> <span class="kn">import</span> <span class="n">Sequence</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">warnings</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">autograd.numpy</span> <span class="k">as</span> <span class="nn">anp</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">import</span> <span class="nn">scipy.optimize</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="kn">import</span> <span class="nn">scipy.stats</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="k">as</span> <span class="nn">plt</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="kn">from</span> <span class="nn">matplotlib</span> <span class="kn">import</span> <span class="n">gridspec</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="kn">from</span> <span class="nn">scipy.odr</span> <span class="kn">import</span> <span class="n">ODR</span><span class="p">,</span> <span class="n">Model</span><span class="p">,</span> <span class="n">RealData</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="kn">from</span> <span class="nn">scipy.stats</span> <span class="kn">import</span> <span class="n">chi2</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="kn">import</span> <span class="nn">iminuit</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="kn">from</span> <span class="nn">autograd</span> <span class="kn">import</span> <span class="n">jacobian</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="kn">from</span> <span class="nn">autograd</span> <span class="kn">import</span> <span class="n">elementwise_grad</span> <span class="k">as</span> <span class="n">egrad</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="n">Obs</span><span class="p">,</span> <span class="n">derived_observable</span><span class="p">,</span> <span class="n">covariance</span><span class="p">,</span> <span class="n">cov_Obs</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a>
+                        <input id="fits-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="fits-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">gc</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">from</span> <span class="nn">collections.abc</span> <span class="kn">import</span> <span class="n">Sequence</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">warnings</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">import</span> <span class="nn">autograd.numpy</span> <span class="k">as</span> <span class="nn">anp</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="kn">import</span> <span class="nn">scipy.optimize</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="kn">import</span> <span class="nn">scipy.stats</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="k">as</span> <span class="nn">plt</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="kn">from</span> <span class="nn">matplotlib</span> <span class="kn">import</span> <span class="n">gridspec</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="kn">from</span> <span class="nn">scipy.odr</span> <span class="kn">import</span> <span class="n">ODR</span><span class="p">,</span> <span class="n">Model</span><span class="p">,</span> <span class="n">RealData</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="kn">from</span> <span class="nn">scipy.stats</span> <span class="kn">import</span> <span class="n">chi2</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="kn">import</span> <span class="nn">iminuit</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="kn">from</span> <span class="nn">autograd</span> <span class="kn">import</span> <span class="n">jacobian</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="kn">from</span> <span class="nn">autograd</span> <span class="kn">import</span> <span class="n">elementwise_grad</span> <span class="k">as</span> <span class="n">egrad</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="n">Obs</span><span class="p">,</span> <span class="n">derived_observable</span><span class="p">,</span> <span class="n">covariance</span><span class="p">,</span> <span class="n">cov_Obs</span>
 </span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a>
-</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="k">class</span> <span class="nc">Fit_result</span><span class="p">(</span><span class="n">Sequence</span><span class="p">):</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a>    <span class="sd">&quot;&quot;&quot;Represents fit results.</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>
-</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">    Attributes</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">    ----------</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd">    fit_parameters : list</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd">        results for the individual fit parameters,</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd">        also accessible via indices.</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>
-</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>
-</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>    <span class="k">def</span> <span class="fm">__getitem__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">idx</span><span class="p">):</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>
-</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>    <span class="k">def</span> <span class="fm">__len__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>        <span class="k">return</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">)</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>
-</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>        <span class="sd">&quot;&quot;&quot;Apply the gamma method to all fit parameters&quot;&quot;&quot;</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">]</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>
-</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>        <span class="n">my_str</span> <span class="o">=</span> <span class="s1">&#39;Goodness of fit:</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;chisquare_by_dof&#39;</span><span class="p">):</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\u03C7\u00b2</span><span class="s1">/d.o.f. = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">chisquare_by_dof</span><span class="si">:</span><span class="s1">2.6f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;residual_variance&#39;</span><span class="p">):</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;residual variance = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">residual_variance</span><span class="si">:</span><span class="s1">2.6f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;chisquare_by_expected_chisquare&#39;</span><span class="p">):</span>
-</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\u03C7\u00b2</span><span class="s1">/</span><span class="se">\u03C7\u00b2</span><span class="s1">exp  = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span><span class="si">:</span><span class="s1">2.6f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;p_value&#39;</span><span class="p">):</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;p-value   = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">p_value</span><span class="si">:</span><span class="s1">2.4f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>        <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;Fit parameters:</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>        <span class="k">for</span> <span class="n">i_par</span><span class="p">,</span> <span class="n">par</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">):</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="nb">str</span><span class="p">(</span><span class="n">i_par</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">*</span> <span class="nb">int</span><span class="p">(</span><span class="n">par</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">par</span><span class="p">)</span><span class="o">.</span><span class="n">rjust</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">par</span> <span class="o">&lt;</span> <span class="mf">0.0</span><span class="p">))</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>        <span class="k">return</span> <span class="n">my_str</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>
-</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>        <span class="n">m</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">len</span><span class="p">,</span> <span class="nb">list</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="vm">__dict__</span><span class="o">.</span><span class="n">keys</span><span class="p">())))</span> <span class="o">+</span> <span class="mi">1</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>        <span class="k">return</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="n">key</span><span class="o">.</span><span class="n">rjust</span><span class="p">(</span><span class="n">m</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;: &#39;</span> <span class="o">+</span> <span class="nb">repr</span><span class="p">(</span><span class="n">value</span><span class="p">)</span> <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="vm">__dict__</span><span class="o">.</span><span class="n">items</span><span class="p">())])</span>
-</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>
+</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a>
+</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="k">class</span> <span class="nc">Fit_result</span><span class="p">(</span><span class="n">Sequence</span><span class="p">):</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>    <span class="sd">&quot;&quot;&quot;Represents fit results.</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a>
+</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">    Attributes</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd">    ----------</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd">    fit_parameters : list</span>
+</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd">        results for the individual fit parameters,</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd">        also accessible via indices.</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>
+</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>
+</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>    <span class="k">def</span> <span class="fm">__getitem__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">idx</span><span class="p">):</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>
+</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>    <span class="k">def</span> <span class="fm">__len__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>        <span class="k">return</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">)</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>
+</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>        <span class="sd">&quot;&quot;&quot;Apply the gamma method to all fit parameters&quot;&quot;&quot;</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">]</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>
+</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>        <span class="n">my_str</span> <span class="o">=</span> <span class="s1">&#39;Goodness of fit:</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;chisquare_by_dof&#39;</span><span class="p">):</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\u03C7\u00b2</span><span class="s1">/d.o.f. = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">chisquare_by_dof</span><span class="si">:</span><span class="s1">2.6f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;residual_variance&#39;</span><span class="p">):</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;residual variance = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">residual_variance</span><span class="si">:</span><span class="s1">2.6f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;chisquare_by_expected_chisquare&#39;</span><span class="p">):</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\u03C7\u00b2</span><span class="s1">/</span><span class="se">\u03C7\u00b2</span><span class="s1">exp  = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span><span class="si">:</span><span class="s1">2.6f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;p_value&#39;</span><span class="p">):</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;p-value   = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">p_value</span><span class="si">:</span><span class="s1">2.4f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>        <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;Fit parameters:</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>        <span class="k">for</span> <span class="n">i_par</span><span class="p">,</span> <span class="n">par</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">):</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="nb">str</span><span class="p">(</span><span class="n">i_par</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">*</span> <span class="nb">int</span><span class="p">(</span><span class="n">par</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">par</span><span class="p">)</span><span class="o">.</span><span class="n">rjust</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">par</span> <span class="o">&lt;</span> <span class="mf">0.0</span><span class="p">))</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>        <span class="k">return</span> <span class="n">my_str</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>
+</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>        <span class="n">m</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">len</span><span class="p">,</span> <span class="nb">list</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="vm">__dict__</span><span class="o">.</span><span class="n">keys</span><span class="p">())))</span> <span class="o">+</span> <span class="mi">1</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>        <span class="k">return</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="n">key</span><span class="o">.</span><span class="n">rjust</span><span class="p">(</span><span class="n">m</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;: &#39;</span> <span class="o">+</span> <span class="nb">repr</span><span class="p">(</span><span class="n">value</span><span class="p">)</span> <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="vm">__dict__</span><span class="o">.</span><span class="n">items</span><span class="p">())])</span>
 </span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>
-</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a><span class="k">def</span> <span class="nf">least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">priors</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Performs a non-linear fit to y = func(x).</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>
-</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a><span class="sd">    Parameters</span>
-</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a><span class="sd">    ----------</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a><span class="sd">    x : list</span>
-</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a><span class="sd">        list of floats.</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a><span class="sd">    y : list</span>
-</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a><span class="sd">        list of Obs.</span>
-</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a><span class="sd">    func : object</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a><span class="sd">        fit function, has to be of the form</span>
-</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>
-</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a><span class="sd">        ```python</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a><span class="sd">        import autograd.numpy as anp</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>
-</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a><span class="sd">        def func(a, x):</span>
-</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a><span class="sd">            return a[0] + a[1] * x + a[2] * anp.sinh(x)</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a><span class="sd">        ```</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>
-</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a><span class="sd">        For multiple x values func can be of the form</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>
-</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a><span class="sd">        ```python</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a><span class="sd">        def func(a, x):</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a><span class="sd">            (x1, x2) = x</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a><span class="sd">            return a[0] * x1 ** 2 + a[1] * x2</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a><span class="sd">        ```</span>
-</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>
-</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a><span class="sd">        It is important that all numpy functions refer to autograd.numpy, otherwise the differentiation</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a><span class="sd">        will not work.</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a><span class="sd">    priors : list, optional</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a><span class="sd">        priors has to be a list with an entry for every parameter in the fit. The entries can either be</span>
-</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a><span class="sd">        Obs (e.g. results from a previous fit) or strings containing a value and an error formatted like</span>
-</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a><span class="sd">        0.548(23), 500(40) or 0.5(0.4)</span>
-</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a><span class="sd">    silent : bool, optional</span>
-</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a><span class="sd">        If true all output to the console is omitted (default False).</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a><span class="sd">    initial_guess : list</span>
-</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a><span class="sd">        can provide an initial guess for the input parameters. Relevant for</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a><span class="sd">        non-linear fits with many parameters.</span>
-</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a><span class="sd">    method : str, optional</span>
-</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a><span class="sd">        can be used to choose an alternative method for the minimization of chisquare.</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a><span class="sd">        The possible methods are the ones which can be used for scipy.optimize.minimize and</span>
-</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a><span class="sd">        migrad of iminuit. If no method is specified, Levenberg-Marquard is used.</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a><span class="sd">        Reliable alternatives are migrad, Powell and Nelder-Mead.</span>
-</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a><span class="sd">    correlated_fit : bool</span>
-</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a><span class="sd">        If True, use the full inverse covariance matrix in the definition of the chisquare cost function.</span>
-</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a><span class="sd">        For details about how the covariance matrix is estimated see `pyerrors.obs.covariance`.</span>
-</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a><span class="sd">        In practice the correlation matrix is Cholesky decomposed and inverted (instead of the covariance matrix).</span>
-</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a><span class="sd">        This procedure should be numerically more stable as the correlation matrix is typically better conditioned (Jacobi preconditioning).</span>
-</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a><span class="sd">        At the moment this option only works for `prior==None` and when no `method` is given.</span>
-</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a><span class="sd">    expected_chisquare : bool</span>
-</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a><span class="sd">        If True estimates the expected chisquare which is</span>
-</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a><span class="sd">        corrected by effects caused by correlated input data (default False).</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a><span class="sd">    resplot : bool</span>
-</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a><span class="sd">        If True, a plot which displays fit, data and residuals is generated (default False).</span>
-</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a><span class="sd">    qqplot : bool</span>
-</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a><span class="sd">        If True, a quantile-quantile plot of the fit result is generated (default False).</span>
-</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a><span class="sd">    &#39;&#39;&#39;</span>
-</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>    <span class="k">if</span> <span class="n">priors</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>        <span class="k">return</span> <span class="n">_prior_fit</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">priors</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>        <span class="k">return</span> <span class="n">_standard_fit</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>
+</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>
+</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a><span class="k">def</span> <span class="nf">least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">priors</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Performs a non-linear fit to y = func(x).</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>
+</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a><span class="sd">    Parameters</span>
+</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a><span class="sd">    ----------</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a><span class="sd">    x : list</span>
+</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a><span class="sd">        list of floats.</span>
+</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a><span class="sd">    y : list</span>
+</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a><span class="sd">        list of Obs.</span>
+</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a><span class="sd">    func : object</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a><span class="sd">        fit function, has to be of the form</span>
+</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>
+</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a><span class="sd">        ```python</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a><span class="sd">        import autograd.numpy as anp</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>
+</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a><span class="sd">        def func(a, x):</span>
+</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a><span class="sd">            return a[0] + a[1] * x + a[2] * anp.sinh(x)</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a><span class="sd">        ```</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>
+</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a><span class="sd">        For multiple x values func can be of the form</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>
+</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a><span class="sd">        ```python</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a><span class="sd">        def func(a, x):</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a><span class="sd">            (x1, x2) = x</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a><span class="sd">            return a[0] * x1 ** 2 + a[1] * x2</span>
+</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a><span class="sd">        ```</span>
+</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>
+</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a><span class="sd">        It is important that all numpy functions refer to autograd.numpy, otherwise the differentiation</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a><span class="sd">        will not work.</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a><span class="sd">    priors : list, optional</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a><span class="sd">        priors has to be a list with an entry for every parameter in the fit. The entries can either be</span>
+</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a><span class="sd">        Obs (e.g. results from a previous fit) or strings containing a value and an error formatted like</span>
+</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a><span class="sd">        0.548(23), 500(40) or 0.5(0.4)</span>
+</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a><span class="sd">    silent : bool, optional</span>
+</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a><span class="sd">        If true all output to the console is omitted (default False).</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a><span class="sd">    initial_guess : list</span>
+</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a><span class="sd">        can provide an initial guess for the input parameters. Relevant for</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a><span class="sd">        non-linear fits with many parameters.</span>
+</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a><span class="sd">    method : str, optional</span>
+</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a><span class="sd">        can be used to choose an alternative method for the minimization of chisquare.</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a><span class="sd">        The possible methods are the ones which can be used for scipy.optimize.minimize and</span>
+</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a><span class="sd">        migrad of iminuit. If no method is specified, Levenberg-Marquard is used.</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a><span class="sd">        Reliable alternatives are migrad, Powell and Nelder-Mead.</span>
+</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a><span class="sd">    correlated_fit : bool</span>
+</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a><span class="sd">        If True, use the full inverse covariance matrix in the definition of the chisquare cost function.</span>
+</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a><span class="sd">        For details about how the covariance matrix is estimated see `pyerrors.obs.covariance`.</span>
+</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a><span class="sd">        In practice the correlation matrix is Cholesky decomposed and inverted (instead of the covariance matrix).</span>
+</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a><span class="sd">        This procedure should be numerically more stable as the correlation matrix is typically better conditioned (Jacobi preconditioning).</span>
+</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a><span class="sd">        At the moment this option only works for `prior==None` and when no `method` is given.</span>
+</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a><span class="sd">    expected_chisquare : bool</span>
+</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a><span class="sd">        If True estimates the expected chisquare which is</span>
+</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a><span class="sd">        corrected by effects caused by correlated input data (default False).</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a><span class="sd">    resplot : bool</span>
+</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a><span class="sd">        If True, a plot which displays fit, data and residuals is generated (default False).</span>
+</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a><span class="sd">    qqplot : bool</span>
+</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a><span class="sd">        If True, a quantile-quantile plot of the fit result is generated (default False).</span>
+</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a><span class="sd">    &#39;&#39;&#39;</span>
+</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>    <span class="k">if</span> <span class="n">priors</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>        <span class="k">return</span> <span class="n">_prior_fit</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">priors</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>        <span class="k">return</span> <span class="n">_standard_fit</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
 </span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>
-</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a><span class="k">def</span> <span class="nf">total_least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Performs a non-linear fit to y = func(x) and returns a list of Obs corresponding to the fit parameters.</span>
-</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>
-</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a><span class="sd">    Parameters</span>
-</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a><span class="sd">    ----------</span>
-</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a><span class="sd">    x : list</span>
-</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a><span class="sd">        list of Obs, or a tuple of lists of Obs</span>
-</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a><span class="sd">    y : list</span>
-</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a><span class="sd">        list of Obs. The dvalues of the Obs are used as x- and yerror for the fit.</span>
-</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a><span class="sd">    func : object</span>
-</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a><span class="sd">        func has to be of the form</span>
-</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>
-</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a><span class="sd">        ```python</span>
-</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a><span class="sd">        import autograd.numpy as anp</span>
-</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>
-</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a><span class="sd">        def func(a, x):</span>
-</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a><span class="sd">            return a[0] + a[1] * x + a[2] * anp.sinh(x)</span>
-</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a><span class="sd">        ```</span>
-</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>
-</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a><span class="sd">        For multiple x values func can be of the form</span>
-</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>
-</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a><span class="sd">        ```python</span>
-</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a><span class="sd">        def func(a, x):</span>
-</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a><span class="sd">            (x1, x2) = x</span>
-</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a><span class="sd">            return a[0] * x1 ** 2 + a[1] * x2</span>
-</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a><span class="sd">        ```</span>
-</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>
-</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a><span class="sd">        It is important that all numpy functions refer to autograd.numpy, otherwise the differentiation</span>
-</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a><span class="sd">        will not work.</span>
-</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a><span class="sd">    silent : bool, optional</span>
-</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a><span class="sd">        If true all output to the console is omitted (default False).</span>
-</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a><span class="sd">    initial_guess : list</span>
-</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a><span class="sd">        can provide an initial guess for the input parameters. Relevant for non-linear</span>
-</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a><span class="sd">        fits with many parameters.</span>
-</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a><span class="sd">    expected_chisquare : bool</span>
-</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a><span class="sd">        If true prints the expected chisquare which is</span>
-</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a><span class="sd">        corrected by effects caused by correlated input data.</span>
-</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a><span class="sd">        This can take a while as the full correlation matrix</span>
-</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a><span class="sd">        has to be calculated (default False).</span>
-</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>
-</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a><span class="sd">    Notes</span>
-</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a><span class="sd">    -----</span>
-</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a><span class="sd">    Based on the orthogonal distance regression module of scipy</span>
-</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a><span class="sd">    &#39;&#39;&#39;</span>
-</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>
-</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>    <span class="n">output</span> <span class="o">=</span> <span class="n">Fit_result</span><span class="p">()</span>
-</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>
-</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_function</span> <span class="o">=</span> <span class="n">func</span>
-</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>
-</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
-</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>
-</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>    <span class="n">x_shape</span> <span class="o">=</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span>
-</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>
-</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">callable</span><span class="p">(</span><span class="n">func</span><span class="p">):</span>
-</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>        <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;func has to be a function.&#39;</span><span class="p">)</span>
-</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>
-</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">25</span><span class="p">):</span>
-</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>        <span class="k">try</span><span class="p">:</span>
-</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>            <span class="n">func</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">i</span><span class="p">),</span> <span class="n">x</span><span class="o">.</span><span class="n">T</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>        <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>            <span class="k">pass</span>
-</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a>            <span class="k">break</span>
-</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>
-</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>    <span class="n">n_parms</span> <span class="o">=</span> <span class="n">i</span>
-</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Fit with&#39;</span><span class="p">,</span> <span class="n">n_parms</span><span class="p">,</span> <span class="s1">&#39;parameter&#39;</span> <span class="o">+</span> <span class="s1">&#39;s&#39;</span> <span class="o">*</span> <span class="p">(</span><span class="n">n_parms</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>
-</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a>    <span class="n">x_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">value</span><span class="p">)(</span><span class="n">x</span><span class="p">)</span>
-</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a>    <span class="n">dx_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)(</span><span class="n">x</span><span class="p">)</span>
-</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a>    <span class="n">y_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>    <span class="n">dy_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>
-</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dx_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
-</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No x errors available, run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a>
-</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dy_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
-</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No y errors available, run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>
-</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>    <span class="k">if</span> <span class="s1">&#39;initial_guess&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;initial_guess&#39;</span><span class="p">)</span>
-</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span> <span class="o">!=</span> <span class="n">n_parms</span><span class="p">:</span>
-</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Initial guess does not have the correct length: </span><span class="si">%d</span><span class="s1"> vs. </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">),</span> <span class="n">n_parms</span><span class="p">))</span>
-</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">n_parms</span>
-</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>
-</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="n">RealData</span><span class="p">(</span><span class="n">x_f</span><span class="p">,</span> <span class="n">y_f</span><span class="p">,</span> <span class="n">sx</span><span class="o">=</span><span class="n">dx_f</span><span class="p">,</span> <span class="n">sy</span><span class="o">=</span><span class="n">dy_f</span><span class="p">)</span>
-</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>    <span class="n">model</span> <span class="o">=</span> <span class="n">Model</span><span class="p">(</span><span class="n">func</span><span class="p">)</span>
-</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>    <span class="n">odr</span> <span class="o">=</span> <span class="n">ODR</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">model</span><span class="p">,</span> <span class="n">x0</span><span class="p">,</span> <span class="n">partol</span><span class="o">=</span><span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span>
-</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>    <span class="n">odr</span><span class="o">.</span><span class="n">set_job</span><span class="p">(</span><span class="n">fit_type</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">deriv</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>    <span class="n">out</span> <span class="o">=</span> <span class="n">odr</span><span class="o">.</span><span class="n">run</span><span class="p">()</span>
-</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>
-</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">residual_variance</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">res_var</span>
-</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>
-</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">method</span> <span class="o">=</span> <span class="s1">&#39;ODR&#39;</span>
-</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>
-</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">message</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">stopreason</span>
-</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>
-</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">xplus</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span>
-</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>
-</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Method: ODR&#39;</span><span class="p">)</span>
-</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>        <span class="nb">print</span><span class="p">(</span><span class="o">*</span><span class="n">out</span><span class="o">.</span><span class="n">stopreason</span><span class="p">)</span>
-</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Residual variance:&#39;</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">residual_variance</span><span class="p">)</span>
-</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>
-</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>    <span class="k">if</span> <span class="n">out</span><span class="o">.</span><span class="n">info</span> <span class="o">&gt;</span> <span class="mi">3</span><span class="p">:</span>
-</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The minimization procedure did not converge.&#39;</span><span class="p">)</span>
-</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>
-</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>    <span class="n">m</span> <span class="o">=</span> <span class="n">x_f</span><span class="o">.</span><span class="n">size</span>
-</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>
-</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>    <span class="k">def</span> <span class="nf">odr_chisquare</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
-</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">p</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span>
-</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">x_f</span> <span class="o">-</span> <span class="n">p</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span> <span class="o">/</span> <span class="n">dx_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a>        <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a>
-</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;expected_chisquare&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a>        <span class="n">W</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">dy_f</span><span class="o">.</span><span class="n">ravel</span><span class="p">(),</span> <span class="n">dx_f</span><span class="o">.</span><span class="n">ravel</span><span class="p">()))))</span>
-</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a>
-</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;covariance&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a>            <span class="n">cov</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;covariance&#39;</span><span class="p">)</span>
-</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a>            <span class="n">cov</span> <span class="o">=</span> <span class="n">covariance</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">y</span><span class="p">,</span> <span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span>
-</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a>
-</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a>        <span class="n">number_of_x_parameters</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">m</span> <span class="o">/</span> <span class="n">x_f</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>
-</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>        <span class="n">old_jac</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="p">)</span>
-</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>        <span class="n">fused_row1</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">old_jac</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">number_of_x_parameters</span> <span class="o">*</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">old_jac</span><span class="o">.</span><span class="n">shape</span><span class="p">)]),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)))</span>
-</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>        <span class="n">fused_row2</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">jacobian</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">:</span> <span class="n">func</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">x</span><span class="p">))(</span><span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_f</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">x_f</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">number_of_x_parameters</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">number_of_x_parameters</span> <span class="o">*</span> <span class="n">old_jac</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">])))</span>
-</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>        <span class="n">new_jac</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fused_row1</span><span class="p">,</span> <span class="n">fused_row2</span><span class="p">),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>
-</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>        <span class="n">A</span> <span class="o">=</span> <span class="n">W</span> <span class="o">@</span> <span class="n">new_jac</span>
-</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>        <span class="n">P_phi</span> <span class="o">=</span> <span class="n">A</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">A</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">A</span><span class="p">)</span> <span class="o">@</span> <span class="n">A</span><span class="o">.</span><span class="n">T</span>
-</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>        <span class="n">expected_chisquare</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">trace</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">P_phi</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">-</span> <span class="n">P_phi</span><span class="p">)</span> <span class="o">@</span> <span class="n">W</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">W</span><span class="p">)</span>
-</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>        <span class="k">if</span> <span class="n">expected_chisquare</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Negative expected_chisquare.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>            <span class="n">expected_chisquare</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">expected_chisquare</span><span class="p">)</span>
-</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>        <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span> <span class="o">=</span> <span class="n">odr_chisquare</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span> <span class="o">/</span> <span class="n">expected_chisquare</span>
-</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;chisquare/expected_chisquare:&#39;</span><span class="p">,</span>
-</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>                  <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span><span class="p">)</span>
-</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>
-</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>    <span class="n">fitp</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">beta</span>
-</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>    <span class="k">try</span><span class="p">:</span>
-</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>        <span class="n">hess_inv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">odr_chisquare</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">()))))</span>
-</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>    <span class="k">except</span> <span class="ne">TypeError</span><span class="p">:</span>
-</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It is required to use autograd.numpy instead of numpy within fit functions, see the documentation for details.&quot;</span><span class="p">)</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>
-</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>    <span class="k">def</span> <span class="nf">odr_chisquare_compact_x</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span>
-</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">)</span> <span class="o">-</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span> <span class="o">/</span> <span class="n">dx_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>        <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>
-</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>    <span class="n">jac_jac_x</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">odr_chisquare_compact_x</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">(),</span> <span class="n">x_f</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span>
-</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>
-</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>    <span class="n">deriv_x</span> <span class="o">=</span> <span class="o">-</span><span class="n">hess_inv</span> <span class="o">@</span> <span class="n">jac_jac_x</span><span class="p">[:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">,</span> <span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span>
-</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a>
-</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>    <span class="k">def</span> <span class="nf">odr_chisquare_compact_y</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span>
-</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">x_f</span> <span class="o">-</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span> <span class="o">/</span> <span class="n">dx_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>        <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a>
-</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>    <span class="n">jac_jac_y</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">odr_chisquare_compact_y</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">(),</span> <span class="n">y_f</span><span class="p">)))</span>
-</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a>
-</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>    <span class="n">deriv_y</span> <span class="o">=</span> <span class="o">-</span><span class="n">hess_inv</span> <span class="o">@</span> <span class="n">jac_jac_y</span><span class="p">[:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">,</span> <span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span>
-</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>
-</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">n_parms</span><span class="p">):</span>
-</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">my_var</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="p">(</span><span class="n">my_var</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">()[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">*</span> <span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">())</span> <span class="o">+</span> <span class="nb">list</span><span class="p">(</span><span class="n">y</span><span class="p">),</span> <span class="n">man_grad</span><span class="o">=</span><span class="nb">list</span><span class="p">(</span><span class="n">deriv_x</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">+</span> <span class="nb">list</span><span class="p">(</span><span class="n">deriv_y</span><span class="p">[</span><span class="n">i</span><span class="p">])))</span>
-</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>
-</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="n">result</span>
-</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a>
-</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">odr_chisquare</span> <span class="o">=</span> <span class="n">odr_chisquare</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span>
-</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">dof</span> <span class="o">=</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">n_parms</span>
-</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">p_value</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">-</span> <span class="n">chi2</span><span class="o">.</span><span class="n">cdf</span><span class="p">(</span><span class="n">output</span><span class="o">.</span><span class="n">odr_chisquare</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">dof</span><span class="p">)</span>
-</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a>
-</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a>    <span class="k">return</span> <span class="n">output</span>
-</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a>
+</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>
+</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a><span class="k">def</span> <span class="nf">total_least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Performs a non-linear fit to y = func(x) and returns a list of Obs corresponding to the fit parameters.</span>
+</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>
+</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a><span class="sd">    Parameters</span>
+</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a><span class="sd">    ----------</span>
+</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a><span class="sd">    x : list</span>
+</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a><span class="sd">        list of Obs, or a tuple of lists of Obs</span>
+</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a><span class="sd">    y : list</span>
+</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a><span class="sd">        list of Obs. The dvalues of the Obs are used as x- and yerror for the fit.</span>
+</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a><span class="sd">    func : object</span>
+</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a><span class="sd">        func has to be of the form</span>
+</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>
+</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a><span class="sd">        ```python</span>
+</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a><span class="sd">        import autograd.numpy as anp</span>
+</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>
+</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a><span class="sd">        def func(a, x):</span>
+</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a><span class="sd">            return a[0] + a[1] * x + a[2] * anp.sinh(x)</span>
+</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a><span class="sd">        ```</span>
+</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>
+</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a><span class="sd">        For multiple x values func can be of the form</span>
+</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>
+</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a><span class="sd">        ```python</span>
+</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a><span class="sd">        def func(a, x):</span>
+</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a><span class="sd">            (x1, x2) = x</span>
+</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a><span class="sd">            return a[0] * x1 ** 2 + a[1] * x2</span>
+</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a><span class="sd">        ```</span>
+</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>
+</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a><span class="sd">        It is important that all numpy functions refer to autograd.numpy, otherwise the differentiation</span>
+</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a><span class="sd">        will not work.</span>
+</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a><span class="sd">    silent : bool, optional</span>
+</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a><span class="sd">        If true all output to the console is omitted (default False).</span>
+</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a><span class="sd">    initial_guess : list</span>
+</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a><span class="sd">        can provide an initial guess for the input parameters. Relevant for non-linear</span>
+</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a><span class="sd">        fits with many parameters.</span>
+</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a><span class="sd">    expected_chisquare : bool</span>
+</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a><span class="sd">        If true prints the expected chisquare which is</span>
+</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a><span class="sd">        corrected by effects caused by correlated input data.</span>
+</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a><span class="sd">        This can take a while as the full correlation matrix</span>
+</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a><span class="sd">        has to be calculated (default False).</span>
+</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>
+</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a><span class="sd">    Notes</span>
+</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a><span class="sd">    -----</span>
+</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a><span class="sd">    Based on the orthogonal distance regression module of scipy</span>
+</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a><span class="sd">    &#39;&#39;&#39;</span>
+</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>
+</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>    <span class="n">output</span> <span class="o">=</span> <span class="n">Fit_result</span><span class="p">()</span>
+</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>
+</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_function</span> <span class="o">=</span> <span class="n">func</span>
+</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>
+</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
+</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>
+</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>    <span class="n">x_shape</span> <span class="o">=</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span>
+</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>
+</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">callable</span><span class="p">(</span><span class="n">func</span><span class="p">):</span>
+</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>        <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;func has to be a function.&#39;</span><span class="p">)</span>
+</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>
+</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">25</span><span class="p">):</span>
+</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>        <span class="k">try</span><span class="p">:</span>
+</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>            <span class="n">func</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">i</span><span class="p">),</span> <span class="n">x</span><span class="o">.</span><span class="n">T</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>        <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>            <span class="k">pass</span>
+</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>            <span class="k">break</span>
+</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>
+</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>    <span class="n">n_parms</span> <span class="o">=</span> <span class="n">i</span>
+</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Fit with&#39;</span><span class="p">,</span> <span class="n">n_parms</span><span class="p">,</span> <span class="s1">&#39;parameter&#39;</span> <span class="o">+</span> <span class="s1">&#39;s&#39;</span> <span class="o">*</span> <span class="p">(</span><span class="n">n_parms</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a>
+</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a>    <span class="n">x_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">value</span><span class="p">)(</span><span class="n">x</span><span class="p">)</span>
+</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a>    <span class="n">dx_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)(</span><span class="n">x</span><span class="p">)</span>
+</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>    <span class="n">y_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>    <span class="n">dy_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a>
+</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dx_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
+</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No x errors available, run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>
+</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dy_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
+</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No y errors available, run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>
+</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>    <span class="k">if</span> <span class="s1">&#39;initial_guess&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;initial_guess&#39;</span><span class="p">)</span>
+</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span> <span class="o">!=</span> <span class="n">n_parms</span><span class="p">:</span>
+</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Initial guess does not have the correct length: </span><span class="si">%d</span><span class="s1"> vs. </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">),</span> <span class="n">n_parms</span><span class="p">))</span>
+</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">n_parms</span>
+</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>
+</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="n">RealData</span><span class="p">(</span><span class="n">x_f</span><span class="p">,</span> <span class="n">y_f</span><span class="p">,</span> <span class="n">sx</span><span class="o">=</span><span class="n">dx_f</span><span class="p">,</span> <span class="n">sy</span><span class="o">=</span><span class="n">dy_f</span><span class="p">)</span>
+</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>    <span class="n">model</span> <span class="o">=</span> <span class="n">Model</span><span class="p">(</span><span class="n">func</span><span class="p">)</span>
+</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>    <span class="n">odr</span> <span class="o">=</span> <span class="n">ODR</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">model</span><span class="p">,</span> <span class="n">x0</span><span class="p">,</span> <span class="n">partol</span><span class="o">=</span><span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span>
+</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>    <span class="n">odr</span><span class="o">.</span><span class="n">set_job</span><span class="p">(</span><span class="n">fit_type</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">deriv</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>    <span class="n">out</span> <span class="o">=</span> <span class="n">odr</span><span class="o">.</span><span class="n">run</span><span class="p">()</span>
+</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>
+</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">residual_variance</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">res_var</span>
+</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>
+</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">method</span> <span class="o">=</span> <span class="s1">&#39;ODR&#39;</span>
+</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>
+</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">message</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">stopreason</span>
+</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>
+</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">xplus</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span>
+</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>
+</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Method: ODR&#39;</span><span class="p">)</span>
+</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>        <span class="nb">print</span><span class="p">(</span><span class="o">*</span><span class="n">out</span><span class="o">.</span><span class="n">stopreason</span><span class="p">)</span>
+</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Residual variance:&#39;</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">residual_variance</span><span class="p">)</span>
+</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>
+</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>    <span class="k">if</span> <span class="n">out</span><span class="o">.</span><span class="n">info</span> <span class="o">&gt;</span> <span class="mi">3</span><span class="p">:</span>
+</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The minimization procedure did not converge.&#39;</span><span class="p">)</span>
+</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>
+</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>    <span class="n">m</span> <span class="o">=</span> <span class="n">x_f</span><span class="o">.</span><span class="n">size</span>
+</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>
+</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a>    <span class="k">def</span> <span class="nf">odr_chisquare</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
+</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">p</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span>
+</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">x_f</span> <span class="o">-</span> <span class="n">p</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span> <span class="o">/</span> <span class="n">dx_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a>        <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a>
+</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;expected_chisquare&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a>        <span class="n">W</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">dy_f</span><span class="o">.</span><span class="n">ravel</span><span class="p">(),</span> <span class="n">dx_f</span><span class="o">.</span><span class="n">ravel</span><span class="p">()))))</span>
+</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a>
+</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;covariance&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a>            <span class="n">cov</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;covariance&#39;</span><span class="p">)</span>
+</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a>            <span class="n">cov</span> <span class="o">=</span> <span class="n">covariance</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">y</span><span class="p">,</span> <span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span>
+</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a>
+</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>        <span class="n">number_of_x_parameters</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">m</span> <span class="o">/</span> <span class="n">x_f</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>
+</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>        <span class="n">old_jac</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="p">)</span>
+</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>        <span class="n">fused_row1</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">old_jac</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">number_of_x_parameters</span> <span class="o">*</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">old_jac</span><span class="o">.</span><span class="n">shape</span><span class="p">)]),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)))</span>
+</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>        <span class="n">fused_row2</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">jacobian</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">:</span> <span class="n">func</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">x</span><span class="p">))(</span><span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_f</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">x_f</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">number_of_x_parameters</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">number_of_x_parameters</span> <span class="o">*</span> <span class="n">old_jac</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">])))</span>
+</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>        <span class="n">new_jac</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fused_row1</span><span class="p">,</span> <span class="n">fused_row2</span><span class="p">),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>
+</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>        <span class="n">A</span> <span class="o">=</span> <span class="n">W</span> <span class="o">@</span> <span class="n">new_jac</span>
+</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>        <span class="n">P_phi</span> <span class="o">=</span> <span class="n">A</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">A</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">A</span><span class="p">)</span> <span class="o">@</span> <span class="n">A</span><span class="o">.</span><span class="n">T</span>
+</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>        <span class="n">expected_chisquare</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">trace</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">P_phi</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">-</span> <span class="n">P_phi</span><span class="p">)</span> <span class="o">@</span> <span class="n">W</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">W</span><span class="p">)</span>
+</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>        <span class="k">if</span> <span class="n">expected_chisquare</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Negative expected_chisquare.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>            <span class="n">expected_chisquare</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">expected_chisquare</span><span class="p">)</span>
+</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>        <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span> <span class="o">=</span> <span class="n">odr_chisquare</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span> <span class="o">/</span> <span class="n">expected_chisquare</span>
+</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;chisquare/expected_chisquare:&#39;</span><span class="p">,</span>
+</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>                  <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span><span class="p">)</span>
+</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>
+</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>    <span class="n">fitp</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">beta</span>
+</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>    <span class="k">try</span><span class="p">:</span>
+</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>        <span class="n">hess_inv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">odr_chisquare</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">()))))</span>
+</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>    <span class="k">except</span> <span class="ne">TypeError</span><span class="p">:</span>
+</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It is required to use autograd.numpy instead of numpy within fit functions, see the documentation for details.&quot;</span><span class="p">)</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>
+</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>    <span class="k">def</span> <span class="nf">odr_chisquare_compact_x</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span>
+</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">)</span> <span class="o">-</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span> <span class="o">/</span> <span class="n">dx_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>        <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>
+</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>    <span class="n">jac_jac_x</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">odr_chisquare_compact_x</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">(),</span> <span class="n">x_f</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span>
+</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>
+</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a>    <span class="n">deriv_x</span> <span class="o">=</span> <span class="o">-</span><span class="n">hess_inv</span> <span class="o">@</span> <span class="n">jac_jac_x</span><span class="p">[:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">,</span> <span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span>
+</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>
+</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>    <span class="k">def</span> <span class="nf">odr_chisquare_compact_y</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span>
+</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">x_f</span> <span class="o">-</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span> <span class="o">/</span> <span class="n">dx_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a>        <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>
+</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a>    <span class="n">jac_jac_y</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">odr_chisquare_compact_y</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">(),</span> <span class="n">y_f</span><span class="p">)))</span>
+</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>
+</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>    <span class="n">deriv_y</span> <span class="o">=</span> <span class="o">-</span><span class="n">hess_inv</span> <span class="o">@</span> <span class="n">jac_jac_y</span><span class="p">[:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">,</span> <span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span>
+</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>
+</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">n_parms</span><span class="p">):</span>
+</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">my_var</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="p">(</span><span class="n">my_var</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">()[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">*</span> <span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">())</span> <span class="o">+</span> <span class="nb">list</span><span class="p">(</span><span class="n">y</span><span class="p">),</span> <span class="n">man_grad</span><span class="o">=</span><span class="nb">list</span><span class="p">(</span><span class="n">deriv_x</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">+</span> <span class="nb">list</span><span class="p">(</span><span class="n">deriv_y</span><span class="p">[</span><span class="n">i</span><span class="p">])))</span>
+</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>
+</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="n">result</span>
+</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a>
+</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">odr_chisquare</span> <span class="o">=</span> <span class="n">odr_chisquare</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span>
+</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">dof</span> <span class="o">=</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">n_parms</span>
+</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">p_value</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">-</span> <span class="n">chi2</span><span class="o">.</span><span class="n">cdf</span><span class="p">(</span><span class="n">output</span><span class="o">.</span><span class="n">odr_chisquare</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">dof</span><span class="p">)</span>
+</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a>
+</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a>    <span class="k">return</span> <span class="n">output</span>
 </span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a>
-</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a><span class="k">def</span> <span class="nf">_prior_fit</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">priors</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a>    <span class="n">output</span> <span class="o">=</span> <span class="n">Fit_result</span><span class="p">()</span>
-</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a>
-</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_function</span> <span class="o">=</span> <span class="n">func</span>
-</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a>
-</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
-</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a>
-</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">callable</span><span class="p">(</span><span class="n">func</span><span class="p">):</span>
-</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>        <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;func has to be a function.&#39;</span><span class="p">)</span>
-</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>
-</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">100</span><span class="p">):</span>
-</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>        <span class="k">try</span><span class="p">:</span>
-</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>            <span class="n">func</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">i</span><span class="p">),</span> <span class="mi">0</span><span class="p">)</span>
-</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a>        <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a>            <span class="k">pass</span>
-</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>            <span class="k">break</span>
-</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>
-</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>    <span class="n">n_parms</span> <span class="o">=</span> <span class="n">i</span>
-</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>
-</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>    <span class="k">if</span> <span class="n">n_parms</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">priors</span><span class="p">):</span>
-</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Priors does not have the correct length.&#39;</span><span class="p">)</span>
-</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>
-</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>    <span class="k">def</span> <span class="nf">extract_val_and_dval</span><span class="p">(</span><span class="n">string</span><span class="p">):</span>
-</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>        <span class="n">split_string</span> <span class="o">=</span> <span class="n">string</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;(&#39;</span><span class="p">)</span>
-</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>        <span class="k">if</span> <span class="s1">&#39;.&#39;</span> <span class="ow">in</span> <span class="n">split_string</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">and</span> <span class="s1">&#39;.&#39;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">split_string</span><span class="p">[</span><span class="mi">1</span><span class="p">][:</span><span class="o">-</span><span class="mi">1</span><span class="p">]:</span>
-</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>            <span class="n">factor</span> <span class="o">=</span> <span class="mi">10</span> <span class="o">**</span> <span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">split_string</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">partition</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)[</span><span class="mi">2</span><span class="p">])</span>
-</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>            <span class="n">factor</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>        <span class="k">return</span> <span class="nb">float</span><span class="p">(</span><span class="n">split_string</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="nb">float</span><span class="p">(</span><span class="n">split_string</span><span class="p">[</span><span class="mi">1</span><span class="p">][:</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">*</span> <span class="n">factor</span>
-</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>
-</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>    <span class="n">loc_priors</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>    <span class="k">for</span> <span class="n">i_n</span><span class="p">,</span> <span class="n">i_prior</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">priors</span><span class="p">):</span>
-</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">i_prior</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>            <span class="n">loc_priors</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">i_prior</span><span class="p">)</span>
-</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>            <span class="n">loc_val</span><span class="p">,</span> <span class="n">loc_dval</span> <span class="o">=</span> <span class="n">extract_val_and_dval</span><span class="p">(</span><span class="n">i_prior</span><span class="p">)</span>
-</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>            <span class="n">loc_priors</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cov_Obs</span><span class="p">(</span><span class="n">loc_val</span><span class="p">,</span> <span class="n">loc_dval</span> <span class="o">**</span> <span class="mi">2</span><span class="p">,</span> <span class="s1">&#39;#prior&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i_n</span><span class="p">)</span> <span class="o">+</span> <span class="sa">f</span><span class="s2">&quot;_</span><span class="si">{</span><span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">randint</span><span class="p">(</span><span class="mi">2147483647</span><span class="p">)</span><span class="si">:</span><span class="s2">010d</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">))</span>
-</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>
-</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">priors</span> <span class="o">=</span> <span class="n">loc_priors</span>
-</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>
-</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Fit with&#39;</span><span class="p">,</span> <span class="n">n_parms</span><span class="p">,</span> <span class="s1">&#39;parameter&#39;</span> <span class="o">+</span> <span class="s1">&#39;s&#39;</span> <span class="o">*</span> <span class="p">(</span><span class="n">n_parms</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>
-</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>    <span class="n">y_f</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
-</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>    <span class="n">dy_f</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
-</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>
-</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dy_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
-</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No y errors available, run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>
-</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>    <span class="n">p_f</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">loc_priors</span><span class="p">]</span>
-</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>    <span class="n">dp_f</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">loc_priors</span><span class="p">]</span>
-</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>
-</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dp_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
-</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No prior errors available, run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>
-</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>    <span class="k">if</span> <span class="s1">&#39;initial_guess&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-358"><a href="#L-358"><span class="linenos">358</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;initial_guess&#39;</span><span class="p">)</span>
-</span><span id="L-359"><a href="#L-359"><span class="linenos">359</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span> <span class="o">!=</span> <span class="n">n_parms</span><span class="p">:</span>
-</span><span id="L-360"><a href="#L-360"><span class="linenos">360</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Initial guess does not have the correct length.&#39;</span><span class="p">)</span>
-</span><span id="L-361"><a href="#L-361"><span class="linenos">361</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-362"><a href="#L-362"><span class="linenos">362</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="n">p_f</span>
-</span><span id="L-363"><a href="#L-363"><span class="linenos">363</span></a>
-</span><span id="L-364"><a href="#L-364"><span class="linenos">364</span></a>    <span class="k">def</span> <span class="nf">chisqfunc</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
-</span><span id="L-365"><a href="#L-365"><span class="linenos">365</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
-</span><span id="L-366"><a href="#L-366"><span class="linenos">366</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">p_f</span> <span class="o">-</span> <span class="n">p</span><span class="p">)</span> <span class="o">/</span> <span class="n">dp_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-367"><a href="#L-367"><span class="linenos">367</span></a>        <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="L-368"><a href="#L-368"><span class="linenos">368</span></a>
-</span><span id="L-369"><a href="#L-369"><span class="linenos">369</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="L-370"><a href="#L-370"><span class="linenos">370</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Method: migrad&#39;</span><span class="p">)</span>
-</span><span id="L-371"><a href="#L-371"><span class="linenos">371</span></a>
-</span><span id="L-372"><a href="#L-372"><span class="linenos">372</span></a>    <span class="n">m</span> <span class="o">=</span> <span class="n">iminuit</span><span class="o">.</span><span class="n">Minuit</span><span class="p">(</span><span class="n">chisqfunc</span><span class="p">,</span> <span class="n">x0</span><span class="p">)</span>
-</span><span id="L-373"><a href="#L-373"><span class="linenos">373</span></a>    <span class="n">m</span><span class="o">.</span><span class="n">errordef</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-374"><a href="#L-374"><span class="linenos">374</span></a>    <span class="n">m</span><span class="o">.</span><span class="n">print_level</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-375"><a href="#L-375"><span class="linenos">375</span></a>    <span class="k">if</span> <span class="s1">&#39;tol&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-376"><a href="#L-376"><span class="linenos">376</span></a>        <span class="n">m</span><span class="o">.</span><span class="n">tol</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tol&#39;</span><span class="p">)</span>
-</span><span id="L-377"><a href="#L-377"><span class="linenos">377</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-378"><a href="#L-378"><span class="linenos">378</span></a>        <span class="n">m</span><span class="o">.</span><span class="n">tol</span> <span class="o">=</span> <span class="mf">1e-4</span>
-</span><span id="L-379"><a href="#L-379"><span class="linenos">379</span></a>    <span class="n">m</span><span class="o">.</span><span class="n">migrad</span><span class="p">()</span>
-</span><span id="L-380"><a href="#L-380"><span class="linenos">380</span></a>    <span class="n">params</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">m</span><span class="o">.</span><span class="n">values</span><span class="p">)</span>
-</span><span id="L-381"><a href="#L-381"><span class="linenos">381</span></a>
-</span><span id="L-382"><a href="#L-382"><span class="linenos">382</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_dof</span> <span class="o">=</span> <span class="n">m</span><span class="o">.</span><span class="n">fval</span> <span class="o">/</span> <span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
-</span><span id="L-383"><a href="#L-383"><span class="linenos">383</span></a>
-</span><span id="L-384"><a href="#L-384"><span class="linenos">384</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">method</span> <span class="o">=</span> <span class="s1">&#39;migrad&#39;</span>
-</span><span id="L-385"><a href="#L-385"><span class="linenos">385</span></a>
-</span><span id="L-386"><a href="#L-386"><span class="linenos">386</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="L-387"><a href="#L-387"><span class="linenos">387</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;chisquare/d.o.f.:&#39;</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_dof</span><span class="p">)</span>
-</span><span id="L-388"><a href="#L-388"><span class="linenos">388</span></a>
-</span><span id="L-389"><a href="#L-389"><span class="linenos">389</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">m</span><span class="o">.</span><span class="n">fmin</span><span class="o">.</span><span class="n">is_valid</span><span class="p">:</span>
-</span><span id="L-390"><a href="#L-390"><span class="linenos">390</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The minimization procedure did not converge.&#39;</span><span class="p">)</span>
-</span><span id="L-391"><a href="#L-391"><span class="linenos">391</span></a>
-</span><span id="L-392"><a href="#L-392"><span class="linenos">392</span></a>    <span class="n">hess_inv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">chisqfunc</span><span class="p">))(</span><span class="n">params</span><span class="p">))</span>
-</span><span id="L-393"><a href="#L-393"><span class="linenos">393</span></a>
-</span><span id="L-394"><a href="#L-394"><span class="linenos">394</span></a>    <span class="k">def</span> <span class="nf">chisqfunc_compact</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="L-395"><a href="#L-395"><span class="linenos">395</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">x</span><span class="p">)</span>
-</span><span id="L-396"><a href="#L-396"><span class="linenos">396</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span> <span class="n">n_parms</span> <span class="o">+</span> <span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)]</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span> <span class="o">+</span> <span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">):]</span> <span class="o">-</span> <span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">])</span> <span class="o">/</span> <span class="n">dp_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-397"><a href="#L-397"><span class="linenos">397</span></a>        <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="L-398"><a href="#L-398"><span class="linenos">398</span></a>
-</span><span id="L-399"><a href="#L-399"><span class="linenos">399</span></a>    <span class="n">jac_jac</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">chisqfunc_compact</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">params</span><span class="p">,</span> <span class="n">y_f</span><span class="p">,</span> <span class="n">p_f</span><span class="p">)))</span>
-</span><span id="L-400"><a href="#L-400"><span class="linenos">400</span></a>
-</span><span id="L-401"><a href="#L-401"><span class="linenos">401</span></a>    <span class="n">deriv</span> <span class="o">=</span> <span class="o">-</span><span class="n">hess_inv</span> <span class="o">@</span> <span class="n">jac_jac</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">,</span> <span class="n">n_parms</span><span class="p">:]</span>
-</span><span id="L-402"><a href="#L-402"><span class="linenos">402</span></a>
-</span><span id="L-403"><a href="#L-403"><span class="linenos">403</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-404"><a href="#L-404"><span class="linenos">404</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">n_parms</span><span class="p">):</span>
-</span><span id="L-405"><a href="#L-405"><span class="linenos">405</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">*</span> <span class="n">params</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="n">y</span><span class="p">)</span> <span class="o">+</span> <span class="nb">list</span><span class="p">(</span><span class="n">loc_priors</span><span class="p">),</span> <span class="n">man_grad</span><span class="o">=</span><span class="nb">list</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i</span><span class="p">])))</span>
-</span><span id="L-406"><a href="#L-406"><span class="linenos">406</span></a>
-</span><span id="L-407"><a href="#L-407"><span class="linenos">407</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="n">result</span>
-</span><span id="L-408"><a href="#L-408"><span class="linenos">408</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">chisquare</span> <span class="o">=</span> <span class="n">chisqfunc</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">params</span><span class="p">))</span>
-</span><span id="L-409"><a href="#L-409"><span class="linenos">409</span></a>
-</span><span id="L-410"><a href="#L-410"><span class="linenos">410</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;resplot&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-411"><a href="#L-411"><span class="linenos">411</span></a>        <span class="n">residual_plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">result</span><span class="p">)</span>
-</span><span id="L-412"><a href="#L-412"><span class="linenos">412</span></a>
-</span><span id="L-413"><a href="#L-413"><span class="linenos">413</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;qqplot&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-414"><a href="#L-414"><span class="linenos">414</span></a>        <span class="n">qqplot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">result</span><span class="p">)</span>
-</span><span id="L-415"><a href="#L-415"><span class="linenos">415</span></a>
-</span><span id="L-416"><a href="#L-416"><span class="linenos">416</span></a>    <span class="k">return</span> <span class="n">output</span>
-</span><span id="L-417"><a href="#L-417"><span class="linenos">417</span></a>
+</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a>
+</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a><span class="k">def</span> <span class="nf">_prior_fit</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">priors</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a>    <span class="n">output</span> <span class="o">=</span> <span class="n">Fit_result</span><span class="p">()</span>
+</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a>
+</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_function</span> <span class="o">=</span> <span class="n">func</span>
+</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a>
+</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
+</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a>
+</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">callable</span><span class="p">(</span><span class="n">func</span><span class="p">):</span>
+</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>        <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;func has to be a function.&#39;</span><span class="p">)</span>
+</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>
+</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">100</span><span class="p">):</span>
+</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>        <span class="k">try</span><span class="p">:</span>
+</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a>            <span class="n">func</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">i</span><span class="p">),</span> <span class="mi">0</span><span class="p">)</span>
+</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a>        <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a>            <span class="k">pass</span>
+</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>            <span class="k">break</span>
+</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>
+</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>    <span class="n">n_parms</span> <span class="o">=</span> <span class="n">i</span>
+</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>
+</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>    <span class="k">if</span> <span class="n">n_parms</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">priors</span><span class="p">):</span>
+</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Priors does not have the correct length.&#39;</span><span class="p">)</span>
+</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>
+</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>    <span class="k">def</span> <span class="nf">extract_val_and_dval</span><span class="p">(</span><span class="n">string</span><span class="p">):</span>
+</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>        <span class="n">split_string</span> <span class="o">=</span> <span class="n">string</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;(&#39;</span><span class="p">)</span>
+</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>        <span class="k">if</span> <span class="s1">&#39;.&#39;</span> <span class="ow">in</span> <span class="n">split_string</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">and</span> <span class="s1">&#39;.&#39;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">split_string</span><span class="p">[</span><span class="mi">1</span><span class="p">][:</span><span class="o">-</span><span class="mi">1</span><span class="p">]:</span>
+</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>            <span class="n">factor</span> <span class="o">=</span> <span class="mi">10</span> <span class="o">**</span> <span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">split_string</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">partition</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)[</span><span class="mi">2</span><span class="p">])</span>
+</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>            <span class="n">factor</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>        <span class="k">return</span> <span class="nb">float</span><span class="p">(</span><span class="n">split_string</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="nb">float</span><span class="p">(</span><span class="n">split_string</span><span class="p">[</span><span class="mi">1</span><span class="p">][:</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">*</span> <span class="n">factor</span>
+</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>
+</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>    <span class="n">loc_priors</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>    <span class="k">for</span> <span class="n">i_n</span><span class="p">,</span> <span class="n">i_prior</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">priors</span><span class="p">):</span>
+</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">i_prior</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>            <span class="n">loc_priors</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">i_prior</span><span class="p">)</span>
+</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>            <span class="n">loc_val</span><span class="p">,</span> <span class="n">loc_dval</span> <span class="o">=</span> <span class="n">extract_val_and_dval</span><span class="p">(</span><span class="n">i_prior</span><span class="p">)</span>
+</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>            <span class="n">loc_priors</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cov_Obs</span><span class="p">(</span><span class="n">loc_val</span><span class="p">,</span> <span class="n">loc_dval</span> <span class="o">**</span> <span class="mi">2</span><span class="p">,</span> <span class="s1">&#39;#prior&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i_n</span><span class="p">)</span> <span class="o">+</span> <span class="sa">f</span><span class="s2">&quot;_</span><span class="si">{</span><span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">randint</span><span class="p">(</span><span class="mi">2147483647</span><span class="p">)</span><span class="si">:</span><span class="s2">010d</span><span class="si">}</span><span class="s2">&quot;</span><span class="p">))</span>
+</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>
+</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">priors</span> <span class="o">=</span> <span class="n">loc_priors</span>
+</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>
+</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Fit with&#39;</span><span class="p">,</span> <span class="n">n_parms</span><span class="p">,</span> <span class="s1">&#39;parameter&#39;</span> <span class="o">+</span> <span class="s1">&#39;s&#39;</span> <span class="o">*</span> <span class="p">(</span><span class="n">n_parms</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>
+</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>    <span class="n">y_f</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
+</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>    <span class="n">dy_f</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
+</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>
+</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dy_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
+</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No y errors available, run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>
+</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>    <span class="n">p_f</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">loc_priors</span><span class="p">]</span>
+</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>    <span class="n">dp_f</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">loc_priors</span><span class="p">]</span>
+</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>
+</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dp_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
+</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No prior errors available, run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>
+</span><span id="L-358"><a href="#L-358"><span class="linenos">358</span></a>    <span class="k">if</span> <span class="s1">&#39;initial_guess&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-359"><a href="#L-359"><span class="linenos">359</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;initial_guess&#39;</span><span class="p">)</span>
+</span><span id="L-360"><a href="#L-360"><span class="linenos">360</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span> <span class="o">!=</span> <span class="n">n_parms</span><span class="p">:</span>
+</span><span id="L-361"><a href="#L-361"><span class="linenos">361</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Initial guess does not have the correct length.&#39;</span><span class="p">)</span>
+</span><span id="L-362"><a href="#L-362"><span class="linenos">362</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-363"><a href="#L-363"><span class="linenos">363</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="n">p_f</span>
+</span><span id="L-364"><a href="#L-364"><span class="linenos">364</span></a>
+</span><span id="L-365"><a href="#L-365"><span class="linenos">365</span></a>    <span class="k">def</span> <span class="nf">chisqfunc</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
+</span><span id="L-366"><a href="#L-366"><span class="linenos">366</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
+</span><span id="L-367"><a href="#L-367"><span class="linenos">367</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">p_f</span> <span class="o">-</span> <span class="n">p</span><span class="p">)</span> <span class="o">/</span> <span class="n">dp_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-368"><a href="#L-368"><span class="linenos">368</span></a>        <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="L-369"><a href="#L-369"><span class="linenos">369</span></a>
+</span><span id="L-370"><a href="#L-370"><span class="linenos">370</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="L-371"><a href="#L-371"><span class="linenos">371</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Method: migrad&#39;</span><span class="p">)</span>
+</span><span id="L-372"><a href="#L-372"><span class="linenos">372</span></a>
+</span><span id="L-373"><a href="#L-373"><span class="linenos">373</span></a>    <span class="n">m</span> <span class="o">=</span> <span class="n">iminuit</span><span class="o">.</span><span class="n">Minuit</span><span class="p">(</span><span class="n">chisqfunc</span><span class="p">,</span> <span class="n">x0</span><span class="p">)</span>
+</span><span id="L-374"><a href="#L-374"><span class="linenos">374</span></a>    <span class="n">m</span><span class="o">.</span><span class="n">errordef</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-375"><a href="#L-375"><span class="linenos">375</span></a>    <span class="n">m</span><span class="o">.</span><span class="n">print_level</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-376"><a href="#L-376"><span class="linenos">376</span></a>    <span class="k">if</span> <span class="s1">&#39;tol&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-377"><a href="#L-377"><span class="linenos">377</span></a>        <span class="n">m</span><span class="o">.</span><span class="n">tol</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tol&#39;</span><span class="p">)</span>
+</span><span id="L-378"><a href="#L-378"><span class="linenos">378</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-379"><a href="#L-379"><span class="linenos">379</span></a>        <span class="n">m</span><span class="o">.</span><span class="n">tol</span> <span class="o">=</span> <span class="mf">1e-4</span>
+</span><span id="L-380"><a href="#L-380"><span class="linenos">380</span></a>    <span class="n">m</span><span class="o">.</span><span class="n">migrad</span><span class="p">()</span>
+</span><span id="L-381"><a href="#L-381"><span class="linenos">381</span></a>    <span class="n">params</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">m</span><span class="o">.</span><span class="n">values</span><span class="p">)</span>
+</span><span id="L-382"><a href="#L-382"><span class="linenos">382</span></a>
+</span><span id="L-383"><a href="#L-383"><span class="linenos">383</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_dof</span> <span class="o">=</span> <span class="n">m</span><span class="o">.</span><span class="n">fval</span> <span class="o">/</span> <span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
+</span><span id="L-384"><a href="#L-384"><span class="linenos">384</span></a>
+</span><span id="L-385"><a href="#L-385"><span class="linenos">385</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">method</span> <span class="o">=</span> <span class="s1">&#39;migrad&#39;</span>
+</span><span id="L-386"><a href="#L-386"><span class="linenos">386</span></a>
+</span><span id="L-387"><a href="#L-387"><span class="linenos">387</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="L-388"><a href="#L-388"><span class="linenos">388</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;chisquare/d.o.f.:&#39;</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_dof</span><span class="p">)</span>
+</span><span id="L-389"><a href="#L-389"><span class="linenos">389</span></a>
+</span><span id="L-390"><a href="#L-390"><span class="linenos">390</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">m</span><span class="o">.</span><span class="n">fmin</span><span class="o">.</span><span class="n">is_valid</span><span class="p">:</span>
+</span><span id="L-391"><a href="#L-391"><span class="linenos">391</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The minimization procedure did not converge.&#39;</span><span class="p">)</span>
+</span><span id="L-392"><a href="#L-392"><span class="linenos">392</span></a>
+</span><span id="L-393"><a href="#L-393"><span class="linenos">393</span></a>    <span class="n">hess_inv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">chisqfunc</span><span class="p">))(</span><span class="n">params</span><span class="p">))</span>
+</span><span id="L-394"><a href="#L-394"><span class="linenos">394</span></a>
+</span><span id="L-395"><a href="#L-395"><span class="linenos">395</span></a>    <span class="k">def</span> <span class="nf">chisqfunc_compact</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="L-396"><a href="#L-396"><span class="linenos">396</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">x</span><span class="p">)</span>
+</span><span id="L-397"><a href="#L-397"><span class="linenos">397</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span> <span class="n">n_parms</span> <span class="o">+</span> <span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)]</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span> <span class="o">+</span> <span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">):]</span> <span class="o">-</span> <span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">])</span> <span class="o">/</span> <span class="n">dp_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-398"><a href="#L-398"><span class="linenos">398</span></a>        <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="L-399"><a href="#L-399"><span class="linenos">399</span></a>
+</span><span id="L-400"><a href="#L-400"><span class="linenos">400</span></a>    <span class="n">jac_jac</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">chisqfunc_compact</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">params</span><span class="p">,</span> <span class="n">y_f</span><span class="p">,</span> <span class="n">p_f</span><span class="p">)))</span>
+</span><span id="L-401"><a href="#L-401"><span class="linenos">401</span></a>
+</span><span id="L-402"><a href="#L-402"><span class="linenos">402</span></a>    <span class="n">deriv</span> <span class="o">=</span> <span class="o">-</span><span class="n">hess_inv</span> <span class="o">@</span> <span class="n">jac_jac</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">,</span> <span class="n">n_parms</span><span class="p">:]</span>
+</span><span id="L-403"><a href="#L-403"><span class="linenos">403</span></a>
+</span><span id="L-404"><a href="#L-404"><span class="linenos">404</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-405"><a href="#L-405"><span class="linenos">405</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">n_parms</span><span class="p">):</span>
+</span><span id="L-406"><a href="#L-406"><span class="linenos">406</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">*</span> <span class="n">params</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="n">y</span><span class="p">)</span> <span class="o">+</span> <span class="nb">list</span><span class="p">(</span><span class="n">loc_priors</span><span class="p">),</span> <span class="n">man_grad</span><span class="o">=</span><span class="nb">list</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i</span><span class="p">])))</span>
+</span><span id="L-407"><a href="#L-407"><span class="linenos">407</span></a>
+</span><span id="L-408"><a href="#L-408"><span class="linenos">408</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="n">result</span>
+</span><span id="L-409"><a href="#L-409"><span class="linenos">409</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">chisquare</span> <span class="o">=</span> <span class="n">chisqfunc</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">params</span><span class="p">))</span>
+</span><span id="L-410"><a href="#L-410"><span class="linenos">410</span></a>
+</span><span id="L-411"><a href="#L-411"><span class="linenos">411</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;resplot&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-412"><a href="#L-412"><span class="linenos">412</span></a>        <span class="n">residual_plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">result</span><span class="p">)</span>
+</span><span id="L-413"><a href="#L-413"><span class="linenos">413</span></a>
+</span><span id="L-414"><a href="#L-414"><span class="linenos">414</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;qqplot&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-415"><a href="#L-415"><span class="linenos">415</span></a>        <span class="n">qqplot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">result</span><span class="p">)</span>
+</span><span id="L-416"><a href="#L-416"><span class="linenos">416</span></a>
+</span><span id="L-417"><a href="#L-417"><span class="linenos">417</span></a>    <span class="k">return</span> <span class="n">output</span>
 </span><span id="L-418"><a href="#L-418"><span class="linenos">418</span></a>
-</span><span id="L-419"><a href="#L-419"><span class="linenos">419</span></a><span class="k">def</span> <span class="nf">_standard_fit</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-420"><a href="#L-420"><span class="linenos">420</span></a>
-</span><span id="L-421"><a href="#L-421"><span class="linenos">421</span></a>    <span class="n">output</span> <span class="o">=</span> <span class="n">Fit_result</span><span class="p">()</span>
-</span><span id="L-422"><a href="#L-422"><span class="linenos">422</span></a>
-</span><span id="L-423"><a href="#L-423"><span class="linenos">423</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_function</span> <span class="o">=</span> <span class="n">func</span>
-</span><span id="L-424"><a href="#L-424"><span class="linenos">424</span></a>
-</span><span id="L-425"><a href="#L-425"><span class="linenos">425</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
-</span><span id="L-426"><a href="#L-426"><span class="linenos">426</span></a>
-</span><span id="L-427"><a href="#L-427"><span class="linenos">427</span></a>    <span class="k">if</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">y</span><span class="p">):</span>
-</span><span id="L-428"><a href="#L-428"><span class="linenos">428</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;x and y input have to have the same length&#39;</span><span class="p">)</span>
-</span><span id="L-429"><a href="#L-429"><span class="linenos">429</span></a>
-</span><span id="L-430"><a href="#L-430"><span class="linenos">430</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="L-431"><a href="#L-431"><span class="linenos">431</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown format for x values&#39;</span><span class="p">)</span>
-</span><span id="L-432"><a href="#L-432"><span class="linenos">432</span></a>
-</span><span id="L-433"><a href="#L-433"><span class="linenos">433</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">callable</span><span class="p">(</span><span class="n">func</span><span class="p">):</span>
-</span><span id="L-434"><a href="#L-434"><span class="linenos">434</span></a>        <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;func has to be a function.&#39;</span><span class="p">)</span>
-</span><span id="L-435"><a href="#L-435"><span class="linenos">435</span></a>
-</span><span id="L-436"><a href="#L-436"><span class="linenos">436</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">25</span><span class="p">):</span>
-</span><span id="L-437"><a href="#L-437"><span class="linenos">437</span></a>        <span class="k">try</span><span class="p">:</span>
-</span><span id="L-438"><a href="#L-438"><span class="linenos">438</span></a>            <span class="n">func</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">i</span><span class="p">),</span> <span class="n">x</span><span class="o">.</span><span class="n">T</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-439"><a href="#L-439"><span class="linenos">439</span></a>        <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="L-440"><a href="#L-440"><span class="linenos">440</span></a>            <span class="k">pass</span>
-</span><span id="L-441"><a href="#L-441"><span class="linenos">441</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-442"><a href="#L-442"><span class="linenos">442</span></a>            <span class="k">break</span>
-</span><span id="L-443"><a href="#L-443"><span class="linenos">443</span></a>
-</span><span id="L-444"><a href="#L-444"><span class="linenos">444</span></a>    <span class="n">n_parms</span> <span class="o">=</span> <span class="n">i</span>
-</span><span id="L-445"><a href="#L-445"><span class="linenos">445</span></a>
-</span><span id="L-446"><a href="#L-446"><span class="linenos">446</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="L-447"><a href="#L-447"><span class="linenos">447</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Fit with&#39;</span><span class="p">,</span> <span class="n">n_parms</span><span class="p">,</span> <span class="s1">&#39;parameter&#39;</span> <span class="o">+</span> <span class="s1">&#39;s&#39;</span> <span class="o">*</span> <span class="p">(</span><span class="n">n_parms</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-448"><a href="#L-448"><span class="linenos">448</span></a>
-</span><span id="L-449"><a href="#L-449"><span class="linenos">449</span></a>    <span class="n">y_f</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
-</span><span id="L-450"><a href="#L-450"><span class="linenos">450</span></a>    <span class="n">dy_f</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
-</span><span id="L-451"><a href="#L-451"><span class="linenos">451</span></a>
-</span><span id="L-452"><a href="#L-452"><span class="linenos">452</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dy_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
-</span><span id="L-453"><a href="#L-453"><span class="linenos">453</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No y errors available, run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="L-454"><a href="#L-454"><span class="linenos">454</span></a>
-</span><span id="L-455"><a href="#L-455"><span class="linenos">455</span></a>    <span class="k">if</span> <span class="s1">&#39;initial_guess&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-456"><a href="#L-456"><span class="linenos">456</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;initial_guess&#39;</span><span class="p">)</span>
-</span><span id="L-457"><a href="#L-457"><span class="linenos">457</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span> <span class="o">!=</span> <span class="n">n_parms</span><span class="p">:</span>
-</span><span id="L-458"><a href="#L-458"><span class="linenos">458</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Initial guess does not have the correct length: </span><span class="si">%d</span><span class="s1"> vs. </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">),</span> <span class="n">n_parms</span><span class="p">))</span>
-</span><span id="L-459"><a href="#L-459"><span class="linenos">459</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-460"><a href="#L-460"><span class="linenos">460</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="p">[</span><span class="mf">0.1</span><span class="p">]</span> <span class="o">*</span> <span class="n">n_parms</span>
-</span><span id="L-461"><a href="#L-461"><span class="linenos">461</span></a>
-</span><span id="L-462"><a href="#L-462"><span class="linenos">462</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;correlated_fit&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-463"><a href="#L-463"><span class="linenos">463</span></a>        <span class="n">corr</span> <span class="o">=</span> <span class="n">covariance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">correlation</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-464"><a href="#L-464"><span class="linenos">464</span></a>        <span class="n">covdiag</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dy_f</span><span class="p">))</span>
-</span><span id="L-465"><a href="#L-465"><span class="linenos">465</span></a>        <span class="n">condn</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">cond</span><span class="p">(</span><span class="n">corr</span><span class="p">)</span>
-</span><span id="L-466"><a href="#L-466"><span class="linenos">466</span></a>        <span class="k">if</span> <span class="n">condn</span> <span class="o">&gt;</span> <span class="mf">0.1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="nb">float</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">:</span>
-</span><span id="L-467"><a href="#L-467"><span class="linenos">467</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;Cannot invert correlation matrix as its condition number exceeds machine precision (</span><span class="si">{</span><span class="n">condn</span><span class="si">:</span><span class="s2">1.2e</span><span class="si">}</span><span class="s2">)&quot;</span><span class="p">)</span>
-</span><span id="L-468"><a href="#L-468"><span class="linenos">468</span></a>        <span class="k">if</span> <span class="n">condn</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="nb">float</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">):</span>
-</span><span id="L-469"><a href="#L-469"><span class="linenos">469</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlation matrix may be ill-conditioned, condition number: {</span><span class="si">%1.2e</span><span class="s2">}&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">condn</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-470"><a href="#L-470"><span class="linenos">470</span></a>        <span class="n">chol</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">cholesky</span><span class="p">(</span><span class="n">corr</span><span class="p">)</span>
-</span><span id="L-471"><a href="#L-471"><span class="linenos">471</span></a>        <span class="n">chol_inv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">inv</span><span class="p">(</span><span class="n">chol</span><span class="p">)</span>
-</span><span id="L-472"><a href="#L-472"><span class="linenos">472</span></a>        <span class="n">chol_inv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">chol_inv</span><span class="p">,</span> <span class="n">covdiag</span><span class="p">)</span>
-</span><span id="L-473"><a href="#L-473"><span class="linenos">473</span></a>
-</span><span id="L-474"><a href="#L-474"><span class="linenos">474</span></a>        <span class="k">def</span> <span class="nf">chisqfunc</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
-</span><span id="L-475"><a href="#L-475"><span class="linenos">475</span></a>            <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
-</span><span id="L-476"><a href="#L-476"><span class="linenos">476</span></a>            <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">chol_inv</span><span class="p">,</span> <span class="p">(</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">))</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-477"><a href="#L-477"><span class="linenos">477</span></a>            <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="L-478"><a href="#L-478"><span class="linenos">478</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-479"><a href="#L-479"><span class="linenos">479</span></a>        <span class="k">def</span> <span class="nf">chisqfunc</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
-</span><span id="L-480"><a href="#L-480"><span class="linenos">480</span></a>            <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
-</span><span id="L-481"><a href="#L-481"><span class="linenos">481</span></a>            <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-482"><a href="#L-482"><span class="linenos">482</span></a>            <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="L-483"><a href="#L-483"><span class="linenos">483</span></a>
-</span><span id="L-484"><a href="#L-484"><span class="linenos">484</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">method</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;method&#39;</span><span class="p">,</span> <span class="s1">&#39;Levenberg-Marquardt&#39;</span><span class="p">)</span>
-</span><span id="L-485"><a href="#L-485"><span class="linenos">485</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="L-486"><a href="#L-486"><span class="linenos">486</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Method:&#39;</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">method</span><span class="p">)</span>
-</span><span id="L-487"><a href="#L-487"><span class="linenos">487</span></a>
-</span><span id="L-488"><a href="#L-488"><span class="linenos">488</span></a>    <span class="k">if</span> <span class="n">output</span><span class="o">.</span><span class="n">method</span> <span class="o">!=</span> <span class="s1">&#39;Levenberg-Marquardt&#39;</span><span class="p">:</span>
-</span><span id="L-489"><a href="#L-489"><span class="linenos">489</span></a>        <span class="k">if</span> <span class="n">output</span><span class="o">.</span><span class="n">method</span> <span class="o">==</span> <span class="s1">&#39;migrad&#39;</span><span class="p">:</span>
-</span><span id="L-490"><a href="#L-490"><span class="linenos">490</span></a>            <span class="n">fit_result</span> <span class="o">=</span> <span class="n">iminuit</span><span class="o">.</span><span class="n">minimize</span><span class="p">(</span><span class="n">chisqfunc</span><span class="p">,</span> <span class="n">x0</span><span class="p">,</span> <span class="n">tol</span><span class="o">=</span><span class="mf">1e-4</span><span class="p">)</span>  <span class="c1"># Stopping criterion 0.002 * tol * errordef</span>
-</span><span id="L-491"><a href="#L-491"><span class="linenos">491</span></a>            <span class="n">output</span><span class="o">.</span><span class="n">iterations</span> <span class="o">=</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">nfev</span>
-</span><span id="L-492"><a href="#L-492"><span class="linenos">492</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-493"><a href="#L-493"><span class="linenos">493</span></a>            <span class="n">fit_result</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">optimize</span><span class="o">.</span><span class="n">minimize</span><span class="p">(</span><span class="n">chisqfunc</span><span class="p">,</span> <span class="n">x0</span><span class="p">,</span> <span class="n">method</span><span class="o">=</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;method&#39;</span><span class="p">),</span> <span class="n">tol</span><span class="o">=</span><span class="mf">1e-12</span><span class="p">)</span>
-</span><span id="L-494"><a href="#L-494"><span class="linenos">494</span></a>            <span class="n">output</span><span class="o">.</span><span class="n">iterations</span> <span class="o">=</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">nit</span>
-</span><span id="L-495"><a href="#L-495"><span class="linenos">495</span></a>
-</span><span id="L-496"><a href="#L-496"><span class="linenos">496</span></a>        <span class="n">chisquare</span> <span class="o">=</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">fun</span>
-</span><span id="L-497"><a href="#L-497"><span class="linenos">497</span></a>
-</span><span id="L-498"><a href="#L-498"><span class="linenos">498</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-499"><a href="#L-499"><span class="linenos">499</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;correlated_fit&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-500"><a href="#L-500"><span class="linenos">500</span></a>            <span class="k">def</span> <span class="nf">chisqfunc_residuals</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
-</span><span id="L-501"><a href="#L-501"><span class="linenos">501</span></a>                <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
-</span><span id="L-502"><a href="#L-502"><span class="linenos">502</span></a>                <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">chol_inv</span><span class="p">,</span> <span class="p">(</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">))</span>
-</span><span id="L-503"><a href="#L-503"><span class="linenos">503</span></a>                <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="L-504"><a href="#L-504"><span class="linenos">504</span></a>
-</span><span id="L-505"><a href="#L-505"><span class="linenos">505</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-506"><a href="#L-506"><span class="linenos">506</span></a>            <span class="k">def</span> <span class="nf">chisqfunc_residuals</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
-</span><span id="L-507"><a href="#L-507"><span class="linenos">507</span></a>                <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
-</span><span id="L-508"><a href="#L-508"><span class="linenos">508</span></a>                <span class="n">chisq</span> <span class="o">=</span> <span class="p">((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span>
-</span><span id="L-509"><a href="#L-509"><span class="linenos">509</span></a>                <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="L-510"><a href="#L-510"><span class="linenos">510</span></a>
-</span><span id="L-511"><a href="#L-511"><span class="linenos">511</span></a>        <span class="n">fit_result</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">optimize</span><span class="o">.</span><span class="n">least_squares</span><span class="p">(</span><span class="n">chisqfunc_residuals</span><span class="p">,</span> <span class="n">x0</span><span class="p">,</span> <span class="n">method</span><span class="o">=</span><span class="s1">&#39;lm&#39;</span><span class="p">,</span> <span class="n">ftol</span><span class="o">=</span><span class="mf">1e-15</span><span class="p">,</span> <span class="n">gtol</span><span class="o">=</span><span class="mf">1e-15</span><span class="p">,</span> <span class="n">xtol</span><span class="o">=</span><span class="mf">1e-15</span><span class="p">)</span>
-</span><span id="L-512"><a href="#L-512"><span class="linenos">512</span></a>
-</span><span id="L-513"><a href="#L-513"><span class="linenos">513</span></a>        <span class="n">chisquare</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">fit_result</span><span class="o">.</span><span class="n">fun</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-514"><a href="#L-514"><span class="linenos">514</span></a>
-</span><span id="L-515"><a href="#L-515"><span class="linenos">515</span></a>        <span class="n">output</span><span class="o">.</span><span class="n">iterations</span> <span class="o">=</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">nfev</span>
-</span><span id="L-516"><a href="#L-516"><span class="linenos">516</span></a>
-</span><span id="L-517"><a href="#L-517"><span class="linenos">517</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">success</span><span class="p">:</span>
-</span><span id="L-518"><a href="#L-518"><span class="linenos">518</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The minimization procedure did not converge.&#39;</span><span class="p">)</span>
-</span><span id="L-519"><a href="#L-519"><span class="linenos">519</span></a>
-</span><span id="L-520"><a href="#L-520"><span class="linenos">520</span></a>    <span class="k">if</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">n_parms</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-521"><a href="#L-521"><span class="linenos">521</span></a>        <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_dof</span> <span class="o">=</span> <span class="n">chisquare</span> <span class="o">/</span> <span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">n_parms</span><span class="p">)</span>
-</span><span id="L-522"><a href="#L-522"><span class="linenos">522</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-523"><a href="#L-523"><span class="linenos">523</span></a>        <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_dof</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="s1">&#39;nan&#39;</span><span class="p">)</span>
-</span><span id="L-524"><a href="#L-524"><span class="linenos">524</span></a>
-</span><span id="L-525"><a href="#L-525"><span class="linenos">525</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">message</span> <span class="o">=</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">message</span>
-</span><span id="L-526"><a href="#L-526"><span class="linenos">526</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="L-527"><a href="#L-527"><span class="linenos">527</span></a>        <span class="nb">print</span><span class="p">(</span><span class="n">fit_result</span><span class="o">.</span><span class="n">message</span><span class="p">)</span>
-</span><span id="L-528"><a href="#L-528"><span class="linenos">528</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;chisquare/d.o.f.:&#39;</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_dof</span><span class="p">)</span>
-</span><span id="L-529"><a href="#L-529"><span class="linenos">529</span></a>
-</span><span id="L-530"><a href="#L-530"><span class="linenos">530</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;expected_chisquare&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-531"><a href="#L-531"><span class="linenos">531</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;correlated_fit&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-532"><a href="#L-532"><span class="linenos">532</span></a>            <span class="n">W</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dy_f</span><span class="p">))</span>
-</span><span id="L-533"><a href="#L-533"><span class="linenos">533</span></a>            <span class="n">cov</span> <span class="o">=</span> <span class="n">covariance</span><span class="p">(</span><span class="n">y</span><span class="p">)</span>
-</span><span id="L-534"><a href="#L-534"><span class="linenos">534</span></a>            <span class="n">A</span> <span class="o">=</span> <span class="n">W</span> <span class="o">@</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">fit_result</span><span class="o">.</span><span class="n">x</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
-</span><span id="L-535"><a href="#L-535"><span class="linenos">535</span></a>            <span class="n">P_phi</span> <span class="o">=</span> <span class="n">A</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">A</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">A</span><span class="p">)</span> <span class="o">@</span> <span class="n">A</span><span class="o">.</span><span class="n">T</span>
-</span><span id="L-536"><a href="#L-536"><span class="linenos">536</span></a>            <span class="n">expected_chisquare</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">trace</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="n">P_phi</span><span class="p">)</span> <span class="o">@</span> <span class="n">W</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">W</span><span class="p">)</span>
-</span><span id="L-537"><a href="#L-537"><span class="linenos">537</span></a>            <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span> <span class="o">=</span> <span class="n">chisquare</span> <span class="o">/</span> <span class="n">expected_chisquare</span>
-</span><span id="L-538"><a href="#L-538"><span class="linenos">538</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="L-539"><a href="#L-539"><span class="linenos">539</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;chisquare/expected_chisquare:&#39;</span><span class="p">,</span>
-</span><span id="L-540"><a href="#L-540"><span class="linenos">540</span></a>                      <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span><span class="p">)</span>
-</span><span id="L-541"><a href="#L-541"><span class="linenos">541</span></a>
-</span><span id="L-542"><a href="#L-542"><span class="linenos">542</span></a>    <span class="n">fitp</span> <span class="o">=</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">x</span>
-</span><span id="L-543"><a href="#L-543"><span class="linenos">543</span></a>    <span class="k">try</span><span class="p">:</span>
-</span><span id="L-544"><a href="#L-544"><span class="linenos">544</span></a>        <span class="n">hess_inv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">chisqfunc</span><span class="p">))(</span><span class="n">fitp</span><span class="p">))</span>
-</span><span id="L-545"><a href="#L-545"><span class="linenos">545</span></a>    <span class="k">except</span> <span class="ne">TypeError</span><span class="p">:</span>
-</span><span id="L-546"><a href="#L-546"><span class="linenos">546</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It is required to use autograd.numpy instead of numpy within fit functions, see the documentation for details.&quot;</span><span class="p">)</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="L-547"><a href="#L-547"><span class="linenos">547</span></a>
-</span><span id="L-548"><a href="#L-548"><span class="linenos">548</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;correlated_fit&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-549"><a href="#L-549"><span class="linenos">549</span></a>        <span class="k">def</span> <span class="nf">chisqfunc_compact</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="L-550"><a href="#L-550"><span class="linenos">550</span></a>            <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">x</span><span class="p">)</span>
-</span><span id="L-551"><a href="#L-551"><span class="linenos">551</span></a>            <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">chol_inv</span><span class="p">,</span> <span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:]</span> <span class="o">-</span> <span class="n">model</span><span class="p">))</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-552"><a href="#L-552"><span class="linenos">552</span></a>            <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="L-553"><a href="#L-553"><span class="linenos">553</span></a>
-</span><span id="L-554"><a href="#L-554"><span class="linenos">554</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-555"><a href="#L-555"><span class="linenos">555</span></a>        <span class="k">def</span> <span class="nf">chisqfunc_compact</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="L-556"><a href="#L-556"><span class="linenos">556</span></a>            <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">x</span><span class="p">)</span>
-</span><span id="L-557"><a href="#L-557"><span class="linenos">557</span></a>            <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:]</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-558"><a href="#L-558"><span class="linenos">558</span></a>            <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="L-559"><a href="#L-559"><span class="linenos">559</span></a>
-</span><span id="L-560"><a href="#L-560"><span class="linenos">560</span></a>    <span class="n">jac_jac</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">chisqfunc_compact</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">y_f</span><span class="p">)))</span>
-</span><span id="L-561"><a href="#L-561"><span class="linenos">561</span></a>
-</span><span id="L-562"><a href="#L-562"><span class="linenos">562</span></a>    <span class="n">deriv</span> <span class="o">=</span> <span class="o">-</span><span class="n">hess_inv</span> <span class="o">@</span> <span class="n">jac_jac</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">,</span> <span class="n">n_parms</span><span class="p">:]</span>
-</span><span id="L-563"><a href="#L-563"><span class="linenos">563</span></a>
-</span><span id="L-564"><a href="#L-564"><span class="linenos">564</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-565"><a href="#L-565"><span class="linenos">565</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">n_parms</span><span class="p">):</span>
-</span><span id="L-566"><a href="#L-566"><span class="linenos">566</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">*</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">x</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="n">y</span><span class="p">),</span> <span class="n">man_grad</span><span class="o">=</span><span class="nb">list</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i</span><span class="p">])))</span>
-</span><span id="L-567"><a href="#L-567"><span class="linenos">567</span></a>
-</span><span id="L-568"><a href="#L-568"><span class="linenos">568</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="n">result</span>
-</span><span id="L-569"><a href="#L-569"><span class="linenos">569</span></a>
-</span><span id="L-570"><a href="#L-570"><span class="linenos">570</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">chisquare</span> <span class="o">=</span> <span class="n">chisqfunc</span><span class="p">(</span><span class="n">fit_result</span><span class="o">.</span><span class="n">x</span><span class="p">)</span>
-</span><span id="L-571"><a href="#L-571"><span class="linenos">571</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">dof</span> <span class="o">=</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">n_parms</span>
-</span><span id="L-572"><a href="#L-572"><span class="linenos">572</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">p_value</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">-</span> <span class="n">chi2</span><span class="o">.</span><span class="n">cdf</span><span class="p">(</span><span class="n">output</span><span class="o">.</span><span class="n">chisquare</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">dof</span><span class="p">)</span>
-</span><span id="L-573"><a href="#L-573"><span class="linenos">573</span></a>
-</span><span id="L-574"><a href="#L-574"><span class="linenos">574</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;resplot&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-575"><a href="#L-575"><span class="linenos">575</span></a>        <span class="n">residual_plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">result</span><span class="p">)</span>
-</span><span id="L-576"><a href="#L-576"><span class="linenos">576</span></a>
-</span><span id="L-577"><a href="#L-577"><span class="linenos">577</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;qqplot&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-578"><a href="#L-578"><span class="linenos">578</span></a>        <span class="n">qqplot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">result</span><span class="p">)</span>
-</span><span id="L-579"><a href="#L-579"><span class="linenos">579</span></a>
-</span><span id="L-580"><a href="#L-580"><span class="linenos">580</span></a>    <span class="k">return</span> <span class="n">output</span>
-</span><span id="L-581"><a href="#L-581"><span class="linenos">581</span></a>
+</span><span id="L-419"><a href="#L-419"><span class="linenos">419</span></a>
+</span><span id="L-420"><a href="#L-420"><span class="linenos">420</span></a><span class="k">def</span> <span class="nf">_standard_fit</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-421"><a href="#L-421"><span class="linenos">421</span></a>
+</span><span id="L-422"><a href="#L-422"><span class="linenos">422</span></a>    <span class="n">output</span> <span class="o">=</span> <span class="n">Fit_result</span><span class="p">()</span>
+</span><span id="L-423"><a href="#L-423"><span class="linenos">423</span></a>
+</span><span id="L-424"><a href="#L-424"><span class="linenos">424</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_function</span> <span class="o">=</span> <span class="n">func</span>
+</span><span id="L-425"><a href="#L-425"><span class="linenos">425</span></a>
+</span><span id="L-426"><a href="#L-426"><span class="linenos">426</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
+</span><span id="L-427"><a href="#L-427"><span class="linenos">427</span></a>
+</span><span id="L-428"><a href="#L-428"><span class="linenos">428</span></a>    <span class="k">if</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">y</span><span class="p">):</span>
+</span><span id="L-429"><a href="#L-429"><span class="linenos">429</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;x and y input have to have the same length&#39;</span><span class="p">)</span>
+</span><span id="L-430"><a href="#L-430"><span class="linenos">430</span></a>
+</span><span id="L-431"><a href="#L-431"><span class="linenos">431</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="L-432"><a href="#L-432"><span class="linenos">432</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown format for x values&#39;</span><span class="p">)</span>
+</span><span id="L-433"><a href="#L-433"><span class="linenos">433</span></a>
+</span><span id="L-434"><a href="#L-434"><span class="linenos">434</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">callable</span><span class="p">(</span><span class="n">func</span><span class="p">):</span>
+</span><span id="L-435"><a href="#L-435"><span class="linenos">435</span></a>        <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;func has to be a function.&#39;</span><span class="p">)</span>
+</span><span id="L-436"><a href="#L-436"><span class="linenos">436</span></a>
+</span><span id="L-437"><a href="#L-437"><span class="linenos">437</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">25</span><span class="p">):</span>
+</span><span id="L-438"><a href="#L-438"><span class="linenos">438</span></a>        <span class="k">try</span><span class="p">:</span>
+</span><span id="L-439"><a href="#L-439"><span class="linenos">439</span></a>            <span class="n">func</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">i</span><span class="p">),</span> <span class="n">x</span><span class="o">.</span><span class="n">T</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-440"><a href="#L-440"><span class="linenos">440</span></a>        <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="L-441"><a href="#L-441"><span class="linenos">441</span></a>            <span class="k">pass</span>
+</span><span id="L-442"><a href="#L-442"><span class="linenos">442</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-443"><a href="#L-443"><span class="linenos">443</span></a>            <span class="k">break</span>
+</span><span id="L-444"><a href="#L-444"><span class="linenos">444</span></a>
+</span><span id="L-445"><a href="#L-445"><span class="linenos">445</span></a>    <span class="n">n_parms</span> <span class="o">=</span> <span class="n">i</span>
+</span><span id="L-446"><a href="#L-446"><span class="linenos">446</span></a>
+</span><span id="L-447"><a href="#L-447"><span class="linenos">447</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="L-448"><a href="#L-448"><span class="linenos">448</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Fit with&#39;</span><span class="p">,</span> <span class="n">n_parms</span><span class="p">,</span> <span class="s1">&#39;parameter&#39;</span> <span class="o">+</span> <span class="s1">&#39;s&#39;</span> <span class="o">*</span> <span class="p">(</span><span class="n">n_parms</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-449"><a href="#L-449"><span class="linenos">449</span></a>
+</span><span id="L-450"><a href="#L-450"><span class="linenos">450</span></a>    <span class="n">y_f</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
+</span><span id="L-451"><a href="#L-451"><span class="linenos">451</span></a>    <span class="n">dy_f</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
+</span><span id="L-452"><a href="#L-452"><span class="linenos">452</span></a>
+</span><span id="L-453"><a href="#L-453"><span class="linenos">453</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dy_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
+</span><span id="L-454"><a href="#L-454"><span class="linenos">454</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No y errors available, run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="L-455"><a href="#L-455"><span class="linenos">455</span></a>
+</span><span id="L-456"><a href="#L-456"><span class="linenos">456</span></a>    <span class="k">if</span> <span class="s1">&#39;initial_guess&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-457"><a href="#L-457"><span class="linenos">457</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;initial_guess&#39;</span><span class="p">)</span>
+</span><span id="L-458"><a href="#L-458"><span class="linenos">458</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span> <span class="o">!=</span> <span class="n">n_parms</span><span class="p">:</span>
+</span><span id="L-459"><a href="#L-459"><span class="linenos">459</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Initial guess does not have the correct length: </span><span class="si">%d</span><span class="s1"> vs. </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">),</span> <span class="n">n_parms</span><span class="p">))</span>
+</span><span id="L-460"><a href="#L-460"><span class="linenos">460</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-461"><a href="#L-461"><span class="linenos">461</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="p">[</span><span class="mf">0.1</span><span class="p">]</span> <span class="o">*</span> <span class="n">n_parms</span>
+</span><span id="L-462"><a href="#L-462"><span class="linenos">462</span></a>
+</span><span id="L-463"><a href="#L-463"><span class="linenos">463</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;correlated_fit&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-464"><a href="#L-464"><span class="linenos">464</span></a>        <span class="n">corr</span> <span class="o">=</span> <span class="n">covariance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">correlation</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-465"><a href="#L-465"><span class="linenos">465</span></a>        <span class="n">covdiag</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dy_f</span><span class="p">))</span>
+</span><span id="L-466"><a href="#L-466"><span class="linenos">466</span></a>        <span class="n">condn</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">cond</span><span class="p">(</span><span class="n">corr</span><span class="p">)</span>
+</span><span id="L-467"><a href="#L-467"><span class="linenos">467</span></a>        <span class="k">if</span> <span class="n">condn</span> <span class="o">&gt;</span> <span class="mf">0.1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="nb">float</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">:</span>
+</span><span id="L-468"><a href="#L-468"><span class="linenos">468</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;Cannot invert correlation matrix as its condition number exceeds machine precision (</span><span class="si">{</span><span class="n">condn</span><span class="si">:</span><span class="s2">1.2e</span><span class="si">}</span><span class="s2">)&quot;</span><span class="p">)</span>
+</span><span id="L-469"><a href="#L-469"><span class="linenos">469</span></a>        <span class="k">if</span> <span class="n">condn</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="nb">float</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">):</span>
+</span><span id="L-470"><a href="#L-470"><span class="linenos">470</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Correlation matrix may be ill-conditioned, condition number: {</span><span class="si">%1.2e</span><span class="s2">}&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">condn</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-471"><a href="#L-471"><span class="linenos">471</span></a>        <span class="n">chol</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">cholesky</span><span class="p">(</span><span class="n">corr</span><span class="p">)</span>
+</span><span id="L-472"><a href="#L-472"><span class="linenos">472</span></a>        <span class="n">chol_inv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">inv</span><span class="p">(</span><span class="n">chol</span><span class="p">)</span>
+</span><span id="L-473"><a href="#L-473"><span class="linenos">473</span></a>        <span class="n">chol_inv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">chol_inv</span><span class="p">,</span> <span class="n">covdiag</span><span class="p">)</span>
+</span><span id="L-474"><a href="#L-474"><span class="linenos">474</span></a>
+</span><span id="L-475"><a href="#L-475"><span class="linenos">475</span></a>        <span class="k">def</span> <span class="nf">chisqfunc</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
+</span><span id="L-476"><a href="#L-476"><span class="linenos">476</span></a>            <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
+</span><span id="L-477"><a href="#L-477"><span class="linenos">477</span></a>            <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">chol_inv</span><span class="p">,</span> <span class="p">(</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">))</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-478"><a href="#L-478"><span class="linenos">478</span></a>            <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="L-479"><a href="#L-479"><span class="linenos">479</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-480"><a href="#L-480"><span class="linenos">480</span></a>        <span class="k">def</span> <span class="nf">chisqfunc</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
+</span><span id="L-481"><a href="#L-481"><span class="linenos">481</span></a>            <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
+</span><span id="L-482"><a href="#L-482"><span class="linenos">482</span></a>            <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-483"><a href="#L-483"><span class="linenos">483</span></a>            <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="L-484"><a href="#L-484"><span class="linenos">484</span></a>
+</span><span id="L-485"><a href="#L-485"><span class="linenos">485</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">method</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;method&#39;</span><span class="p">,</span> <span class="s1">&#39;Levenberg-Marquardt&#39;</span><span class="p">)</span>
+</span><span id="L-486"><a href="#L-486"><span class="linenos">486</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="L-487"><a href="#L-487"><span class="linenos">487</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Method:&#39;</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">method</span><span class="p">)</span>
+</span><span id="L-488"><a href="#L-488"><span class="linenos">488</span></a>
+</span><span id="L-489"><a href="#L-489"><span class="linenos">489</span></a>    <span class="k">if</span> <span class="n">output</span><span class="o">.</span><span class="n">method</span> <span class="o">!=</span> <span class="s1">&#39;Levenberg-Marquardt&#39;</span><span class="p">:</span>
+</span><span id="L-490"><a href="#L-490"><span class="linenos">490</span></a>        <span class="k">if</span> <span class="n">output</span><span class="o">.</span><span class="n">method</span> <span class="o">==</span> <span class="s1">&#39;migrad&#39;</span><span class="p">:</span>
+</span><span id="L-491"><a href="#L-491"><span class="linenos">491</span></a>            <span class="n">fit_result</span> <span class="o">=</span> <span class="n">iminuit</span><span class="o">.</span><span class="n">minimize</span><span class="p">(</span><span class="n">chisqfunc</span><span class="p">,</span> <span class="n">x0</span><span class="p">,</span> <span class="n">tol</span><span class="o">=</span><span class="mf">1e-4</span><span class="p">)</span>  <span class="c1"># Stopping criterion 0.002 * tol * errordef</span>
+</span><span id="L-492"><a href="#L-492"><span class="linenos">492</span></a>            <span class="n">output</span><span class="o">.</span><span class="n">iterations</span> <span class="o">=</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">nfev</span>
+</span><span id="L-493"><a href="#L-493"><span class="linenos">493</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-494"><a href="#L-494"><span class="linenos">494</span></a>            <span class="n">fit_result</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">optimize</span><span class="o">.</span><span class="n">minimize</span><span class="p">(</span><span class="n">chisqfunc</span><span class="p">,</span> <span class="n">x0</span><span class="p">,</span> <span class="n">method</span><span class="o">=</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;method&#39;</span><span class="p">),</span> <span class="n">tol</span><span class="o">=</span><span class="mf">1e-12</span><span class="p">)</span>
+</span><span id="L-495"><a href="#L-495"><span class="linenos">495</span></a>            <span class="n">output</span><span class="o">.</span><span class="n">iterations</span> <span class="o">=</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">nit</span>
+</span><span id="L-496"><a href="#L-496"><span class="linenos">496</span></a>
+</span><span id="L-497"><a href="#L-497"><span class="linenos">497</span></a>        <span class="n">chisquare</span> <span class="o">=</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">fun</span>
+</span><span id="L-498"><a href="#L-498"><span class="linenos">498</span></a>
+</span><span id="L-499"><a href="#L-499"><span class="linenos">499</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-500"><a href="#L-500"><span class="linenos">500</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;correlated_fit&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-501"><a href="#L-501"><span class="linenos">501</span></a>            <span class="k">def</span> <span class="nf">chisqfunc_residuals</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
+</span><span id="L-502"><a href="#L-502"><span class="linenos">502</span></a>                <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
+</span><span id="L-503"><a href="#L-503"><span class="linenos">503</span></a>                <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">chol_inv</span><span class="p">,</span> <span class="p">(</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">))</span>
+</span><span id="L-504"><a href="#L-504"><span class="linenos">504</span></a>                <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="L-505"><a href="#L-505"><span class="linenos">505</span></a>
+</span><span id="L-506"><a href="#L-506"><span class="linenos">506</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-507"><a href="#L-507"><span class="linenos">507</span></a>            <span class="k">def</span> <span class="nf">chisqfunc_residuals</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
+</span><span id="L-508"><a href="#L-508"><span class="linenos">508</span></a>                <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
+</span><span id="L-509"><a href="#L-509"><span class="linenos">509</span></a>                <span class="n">chisq</span> <span class="o">=</span> <span class="p">((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span>
+</span><span id="L-510"><a href="#L-510"><span class="linenos">510</span></a>                <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="L-511"><a href="#L-511"><span class="linenos">511</span></a>
+</span><span id="L-512"><a href="#L-512"><span class="linenos">512</span></a>        <span class="n">fit_result</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">optimize</span><span class="o">.</span><span class="n">least_squares</span><span class="p">(</span><span class="n">chisqfunc_residuals</span><span class="p">,</span> <span class="n">x0</span><span class="p">,</span> <span class="n">method</span><span class="o">=</span><span class="s1">&#39;lm&#39;</span><span class="p">,</span> <span class="n">ftol</span><span class="o">=</span><span class="mf">1e-15</span><span class="p">,</span> <span class="n">gtol</span><span class="o">=</span><span class="mf">1e-15</span><span class="p">,</span> <span class="n">xtol</span><span class="o">=</span><span class="mf">1e-15</span><span class="p">)</span>
+</span><span id="L-513"><a href="#L-513"><span class="linenos">513</span></a>
+</span><span id="L-514"><a href="#L-514"><span class="linenos">514</span></a>        <span class="n">chisquare</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">fit_result</span><span class="o">.</span><span class="n">fun</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-515"><a href="#L-515"><span class="linenos">515</span></a>
+</span><span id="L-516"><a href="#L-516"><span class="linenos">516</span></a>        <span class="n">output</span><span class="o">.</span><span class="n">iterations</span> <span class="o">=</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">nfev</span>
+</span><span id="L-517"><a href="#L-517"><span class="linenos">517</span></a>
+</span><span id="L-518"><a href="#L-518"><span class="linenos">518</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">success</span><span class="p">:</span>
+</span><span id="L-519"><a href="#L-519"><span class="linenos">519</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The minimization procedure did not converge.&#39;</span><span class="p">)</span>
+</span><span id="L-520"><a href="#L-520"><span class="linenos">520</span></a>
+</span><span id="L-521"><a href="#L-521"><span class="linenos">521</span></a>    <span class="k">if</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">n_parms</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-522"><a href="#L-522"><span class="linenos">522</span></a>        <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_dof</span> <span class="o">=</span> <span class="n">chisquare</span> <span class="o">/</span> <span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">n_parms</span><span class="p">)</span>
+</span><span id="L-523"><a href="#L-523"><span class="linenos">523</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-524"><a href="#L-524"><span class="linenos">524</span></a>        <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_dof</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="s1">&#39;nan&#39;</span><span class="p">)</span>
+</span><span id="L-525"><a href="#L-525"><span class="linenos">525</span></a>
+</span><span id="L-526"><a href="#L-526"><span class="linenos">526</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">message</span> <span class="o">=</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">message</span>
+</span><span id="L-527"><a href="#L-527"><span class="linenos">527</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="L-528"><a href="#L-528"><span class="linenos">528</span></a>        <span class="nb">print</span><span class="p">(</span><span class="n">fit_result</span><span class="o">.</span><span class="n">message</span><span class="p">)</span>
+</span><span id="L-529"><a href="#L-529"><span class="linenos">529</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;chisquare/d.o.f.:&#39;</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_dof</span><span class="p">)</span>
+</span><span id="L-530"><a href="#L-530"><span class="linenos">530</span></a>
+</span><span id="L-531"><a href="#L-531"><span class="linenos">531</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;expected_chisquare&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-532"><a href="#L-532"><span class="linenos">532</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;correlated_fit&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-533"><a href="#L-533"><span class="linenos">533</span></a>            <span class="n">W</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dy_f</span><span class="p">))</span>
+</span><span id="L-534"><a href="#L-534"><span class="linenos">534</span></a>            <span class="n">cov</span> <span class="o">=</span> <span class="n">covariance</span><span class="p">(</span><span class="n">y</span><span class="p">)</span>
+</span><span id="L-535"><a href="#L-535"><span class="linenos">535</span></a>            <span class="n">A</span> <span class="o">=</span> <span class="n">W</span> <span class="o">@</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">fit_result</span><span class="o">.</span><span class="n">x</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
+</span><span id="L-536"><a href="#L-536"><span class="linenos">536</span></a>            <span class="n">P_phi</span> <span class="o">=</span> <span class="n">A</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">A</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">A</span><span class="p">)</span> <span class="o">@</span> <span class="n">A</span><span class="o">.</span><span class="n">T</span>
+</span><span id="L-537"><a href="#L-537"><span class="linenos">537</span></a>            <span class="n">expected_chisquare</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">trace</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="n">P_phi</span><span class="p">)</span> <span class="o">@</span> <span class="n">W</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">W</span><span class="p">)</span>
+</span><span id="L-538"><a href="#L-538"><span class="linenos">538</span></a>            <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span> <span class="o">=</span> <span class="n">chisquare</span> <span class="o">/</span> <span class="n">expected_chisquare</span>
+</span><span id="L-539"><a href="#L-539"><span class="linenos">539</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="L-540"><a href="#L-540"><span class="linenos">540</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;chisquare/expected_chisquare:&#39;</span><span class="p">,</span>
+</span><span id="L-541"><a href="#L-541"><span class="linenos">541</span></a>                      <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span><span class="p">)</span>
+</span><span id="L-542"><a href="#L-542"><span class="linenos">542</span></a>
+</span><span id="L-543"><a href="#L-543"><span class="linenos">543</span></a>    <span class="n">fitp</span> <span class="o">=</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">x</span>
+</span><span id="L-544"><a href="#L-544"><span class="linenos">544</span></a>    <span class="k">try</span><span class="p">:</span>
+</span><span id="L-545"><a href="#L-545"><span class="linenos">545</span></a>        <span class="n">hess_inv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">chisqfunc</span><span class="p">))(</span><span class="n">fitp</span><span class="p">))</span>
+</span><span id="L-546"><a href="#L-546"><span class="linenos">546</span></a>    <span class="k">except</span> <span class="ne">TypeError</span><span class="p">:</span>
+</span><span id="L-547"><a href="#L-547"><span class="linenos">547</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It is required to use autograd.numpy instead of numpy within fit functions, see the documentation for details.&quot;</span><span class="p">)</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="L-548"><a href="#L-548"><span class="linenos">548</span></a>
+</span><span id="L-549"><a href="#L-549"><span class="linenos">549</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;correlated_fit&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-550"><a href="#L-550"><span class="linenos">550</span></a>        <span class="k">def</span> <span class="nf">chisqfunc_compact</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="L-551"><a href="#L-551"><span class="linenos">551</span></a>            <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">x</span><span class="p">)</span>
+</span><span id="L-552"><a href="#L-552"><span class="linenos">552</span></a>            <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">chol_inv</span><span class="p">,</span> <span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:]</span> <span class="o">-</span> <span class="n">model</span><span class="p">))</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-553"><a href="#L-553"><span class="linenos">553</span></a>            <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="L-554"><a href="#L-554"><span class="linenos">554</span></a>
+</span><span id="L-555"><a href="#L-555"><span class="linenos">555</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-556"><a href="#L-556"><span class="linenos">556</span></a>        <span class="k">def</span> <span class="nf">chisqfunc_compact</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="L-557"><a href="#L-557"><span class="linenos">557</span></a>            <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">x</span><span class="p">)</span>
+</span><span id="L-558"><a href="#L-558"><span class="linenos">558</span></a>            <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:]</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-559"><a href="#L-559"><span class="linenos">559</span></a>            <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="L-560"><a href="#L-560"><span class="linenos">560</span></a>
+</span><span id="L-561"><a href="#L-561"><span class="linenos">561</span></a>    <span class="n">jac_jac</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">chisqfunc_compact</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">y_f</span><span class="p">)))</span>
+</span><span id="L-562"><a href="#L-562"><span class="linenos">562</span></a>
+</span><span id="L-563"><a href="#L-563"><span class="linenos">563</span></a>    <span class="n">deriv</span> <span class="o">=</span> <span class="o">-</span><span class="n">hess_inv</span> <span class="o">@</span> <span class="n">jac_jac</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">,</span> <span class="n">n_parms</span><span class="p">:]</span>
+</span><span id="L-564"><a href="#L-564"><span class="linenos">564</span></a>
+</span><span id="L-565"><a href="#L-565"><span class="linenos">565</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-566"><a href="#L-566"><span class="linenos">566</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">n_parms</span><span class="p">):</span>
+</span><span id="L-567"><a href="#L-567"><span class="linenos">567</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">y</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">*</span> <span class="n">fit_result</span><span class="o">.</span><span class="n">x</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="n">y</span><span class="p">),</span> <span class="n">man_grad</span><span class="o">=</span><span class="nb">list</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i</span><span class="p">])))</span>
+</span><span id="L-568"><a href="#L-568"><span class="linenos">568</span></a>
+</span><span id="L-569"><a href="#L-569"><span class="linenos">569</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="n">result</span>
+</span><span id="L-570"><a href="#L-570"><span class="linenos">570</span></a>
+</span><span id="L-571"><a href="#L-571"><span class="linenos">571</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">chisquare</span> <span class="o">=</span> <span class="n">chisqfunc</span><span class="p">(</span><span class="n">fit_result</span><span class="o">.</span><span class="n">x</span><span class="p">)</span>
+</span><span id="L-572"><a href="#L-572"><span class="linenos">572</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">dof</span> <span class="o">=</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">n_parms</span>
+</span><span id="L-573"><a href="#L-573"><span class="linenos">573</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">p_value</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">-</span> <span class="n">chi2</span><span class="o">.</span><span class="n">cdf</span><span class="p">(</span><span class="n">output</span><span class="o">.</span><span class="n">chisquare</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">dof</span><span class="p">)</span>
+</span><span id="L-574"><a href="#L-574"><span class="linenos">574</span></a>
+</span><span id="L-575"><a href="#L-575"><span class="linenos">575</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;resplot&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-576"><a href="#L-576"><span class="linenos">576</span></a>        <span class="n">residual_plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">result</span><span class="p">)</span>
+</span><span id="L-577"><a href="#L-577"><span class="linenos">577</span></a>
+</span><span id="L-578"><a href="#L-578"><span class="linenos">578</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;qqplot&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-579"><a href="#L-579"><span class="linenos">579</span></a>        <span class="n">qqplot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">result</span><span class="p">)</span>
+</span><span id="L-580"><a href="#L-580"><span class="linenos">580</span></a>
+</span><span id="L-581"><a href="#L-581"><span class="linenos">581</span></a>    <span class="k">return</span> <span class="n">output</span>
 </span><span id="L-582"><a href="#L-582"><span class="linenos">582</span></a>
-</span><span id="L-583"><a href="#L-583"><span class="linenos">583</span></a><span class="k">def</span> <span class="nf">fit_lin</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-584"><a href="#L-584"><span class="linenos">584</span></a>    <span class="sd">&quot;&quot;&quot;Performs a linear fit to y = n + m * x and returns two Obs n, m.</span>
-</span><span id="L-585"><a href="#L-585"><span class="linenos">585</span></a>
-</span><span id="L-586"><a href="#L-586"><span class="linenos">586</span></a><span class="sd">    Parameters</span>
-</span><span id="L-587"><a href="#L-587"><span class="linenos">587</span></a><span class="sd">    ----------</span>
-</span><span id="L-588"><a href="#L-588"><span class="linenos">588</span></a><span class="sd">    x : list</span>
-</span><span id="L-589"><a href="#L-589"><span class="linenos">589</span></a><span class="sd">        Can either be a list of floats in which case no xerror is assumed, or</span>
-</span><span id="L-590"><a href="#L-590"><span class="linenos">590</span></a><span class="sd">        a list of Obs, where the dvalues of the Obs are used as xerror for the fit.</span>
-</span><span id="L-591"><a href="#L-591"><span class="linenos">591</span></a><span class="sd">    y : list</span>
-</span><span id="L-592"><a href="#L-592"><span class="linenos">592</span></a><span class="sd">        List of Obs, the dvalues of the Obs are used as yerror for the fit.</span>
-</span><span id="L-593"><a href="#L-593"><span class="linenos">593</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-594"><a href="#L-594"><span class="linenos">594</span></a>
-</span><span id="L-595"><a href="#L-595"><span class="linenos">595</span></a>    <span class="k">def</span> <span class="nf">f</span><span class="p">(</span><span class="n">a</span><span class="p">,</span> <span class="n">x</span><span class="p">):</span>
-</span><span id="L-596"><a href="#L-596"><span class="linenos">596</span></a>        <span class="n">y</span> <span class="o">=</span> <span class="n">a</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">a</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span>
-</span><span id="L-597"><a href="#L-597"><span class="linenos">597</span></a>        <span class="k">return</span> <span class="n">y</span>
-</span><span id="L-598"><a href="#L-598"><span class="linenos">598</span></a>
-</span><span id="L-599"><a href="#L-599"><span class="linenos">599</span></a>    <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">x</span><span class="p">):</span>
-</span><span id="L-600"><a href="#L-600"><span class="linenos">600</span></a>        <span class="n">out</span> <span class="o">=</span> <span class="n">total_least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">f</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-601"><a href="#L-601"><span class="linenos">601</span></a>        <span class="k">return</span> <span class="n">out</span><span class="o">.</span><span class="n">fit_parameters</span>
-</span><span id="L-602"><a href="#L-602"><span class="linenos">602</span></a>    <span class="k">elif</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="nb">float</span><span class="p">)</span> <span class="ow">or</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="nb">int</span><span class="p">)</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">x</span><span class="p">)</span> <span class="ow">or</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-603"><a href="#L-603"><span class="linenos">603</span></a>        <span class="n">out</span> <span class="o">=</span> <span class="n">least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">f</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-604"><a href="#L-604"><span class="linenos">604</span></a>        <span class="k">return</span> <span class="n">out</span><span class="o">.</span><span class="n">fit_parameters</span>
-</span><span id="L-605"><a href="#L-605"><span class="linenos">605</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-606"><a href="#L-606"><span class="linenos">606</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unsupported types for x&#39;</span><span class="p">)</span>
-</span><span id="L-607"><a href="#L-607"><span class="linenos">607</span></a>
+</span><span id="L-583"><a href="#L-583"><span class="linenos">583</span></a>
+</span><span id="L-584"><a href="#L-584"><span class="linenos">584</span></a><span class="k">def</span> <span class="nf">fit_lin</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-585"><a href="#L-585"><span class="linenos">585</span></a>    <span class="sd">&quot;&quot;&quot;Performs a linear fit to y = n + m * x and returns two Obs n, m.</span>
+</span><span id="L-586"><a href="#L-586"><span class="linenos">586</span></a>
+</span><span id="L-587"><a href="#L-587"><span class="linenos">587</span></a><span class="sd">    Parameters</span>
+</span><span id="L-588"><a href="#L-588"><span class="linenos">588</span></a><span class="sd">    ----------</span>
+</span><span id="L-589"><a href="#L-589"><span class="linenos">589</span></a><span class="sd">    x : list</span>
+</span><span id="L-590"><a href="#L-590"><span class="linenos">590</span></a><span class="sd">        Can either be a list of floats in which case no xerror is assumed, or</span>
+</span><span id="L-591"><a href="#L-591"><span class="linenos">591</span></a><span class="sd">        a list of Obs, where the dvalues of the Obs are used as xerror for the fit.</span>
+</span><span id="L-592"><a href="#L-592"><span class="linenos">592</span></a><span class="sd">    y : list</span>
+</span><span id="L-593"><a href="#L-593"><span class="linenos">593</span></a><span class="sd">        List of Obs, the dvalues of the Obs are used as yerror for the fit.</span>
+</span><span id="L-594"><a href="#L-594"><span class="linenos">594</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-595"><a href="#L-595"><span class="linenos">595</span></a>
+</span><span id="L-596"><a href="#L-596"><span class="linenos">596</span></a>    <span class="k">def</span> <span class="nf">f</span><span class="p">(</span><span class="n">a</span><span class="p">,</span> <span class="n">x</span><span class="p">):</span>
+</span><span id="L-597"><a href="#L-597"><span class="linenos">597</span></a>        <span class="n">y</span> <span class="o">=</span> <span class="n">a</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">a</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span>
+</span><span id="L-598"><a href="#L-598"><span class="linenos">598</span></a>        <span class="k">return</span> <span class="n">y</span>
+</span><span id="L-599"><a href="#L-599"><span class="linenos">599</span></a>
+</span><span id="L-600"><a href="#L-600"><span class="linenos">600</span></a>    <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">x</span><span class="p">):</span>
+</span><span id="L-601"><a href="#L-601"><span class="linenos">601</span></a>        <span class="n">out</span> <span class="o">=</span> <span class="n">total_least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">f</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-602"><a href="#L-602"><span class="linenos">602</span></a>        <span class="k">return</span> <span class="n">out</span><span class="o">.</span><span class="n">fit_parameters</span>
+</span><span id="L-603"><a href="#L-603"><span class="linenos">603</span></a>    <span class="k">elif</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="nb">float</span><span class="p">)</span> <span class="ow">or</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="nb">int</span><span class="p">)</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">x</span><span class="p">)</span> <span class="ow">or</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-604"><a href="#L-604"><span class="linenos">604</span></a>        <span class="n">out</span> <span class="o">=</span> <span class="n">least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">f</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-605"><a href="#L-605"><span class="linenos">605</span></a>        <span class="k">return</span> <span class="n">out</span><span class="o">.</span><span class="n">fit_parameters</span>
+</span><span id="L-606"><a href="#L-606"><span class="linenos">606</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-607"><a href="#L-607"><span class="linenos">607</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unsupported types for x&#39;</span><span class="p">)</span>
 </span><span id="L-608"><a href="#L-608"><span class="linenos">608</span></a>
-</span><span id="L-609"><a href="#L-609"><span class="linenos">609</span></a><span class="k">def</span> <span class="nf">qqplot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">o_y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">p</span><span class="p">):</span>
-</span><span id="L-610"><a href="#L-610"><span class="linenos">610</span></a>    <span class="sd">&quot;&quot;&quot;Generates a quantile-quantile plot of the fit result which can be used to</span>
-</span><span id="L-611"><a href="#L-611"><span class="linenos">611</span></a><span class="sd">       check if the residuals of the fit are gaussian distributed.</span>
-</span><span id="L-612"><a href="#L-612"><span class="linenos">612</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-613"><a href="#L-613"><span class="linenos">613</span></a>
-</span><span id="L-614"><a href="#L-614"><span class="linenos">614</span></a>    <span class="n">residuals</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-615"><a href="#L-615"><span class="linenos">615</span></a>    <span class="k">for</span> <span class="n">i_x</span><span class="p">,</span> <span class="n">i_y</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">o_y</span><span class="p">):</span>
-</span><span id="L-616"><a href="#L-616"><span class="linenos">616</span></a>        <span class="n">residuals</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">i_y</span> <span class="o">-</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">i_x</span><span class="p">))</span> <span class="o">/</span> <span class="n">i_y</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span>
-</span><span id="L-617"><a href="#L-617"><span class="linenos">617</span></a>    <span class="n">residuals</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">residuals</span><span class="p">)</span>
-</span><span id="L-618"><a href="#L-618"><span class="linenos">618</span></a>    <span class="n">my_y</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">residuals</span><span class="p">]</span>
-</span><span id="L-619"><a href="#L-619"><span class="linenos">619</span></a>    <span class="n">probplot</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">stats</span><span class="o">.</span><span class="n">probplot</span><span class="p">(</span><span class="n">my_y</span><span class="p">)</span>
-</span><span id="L-620"><a href="#L-620"><span class="linenos">620</span></a>    <span class="n">my_x</span> <span class="o">=</span> <span class="n">probplot</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-621"><a href="#L-621"><span class="linenos">621</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">8</span><span class="p">,</span> <span class="mi">8</span> <span class="o">/</span> <span class="mf">1.618</span><span class="p">))</span>
-</span><span id="L-622"><a href="#L-622"><span class="linenos">622</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">my_x</span><span class="p">,</span> <span class="n">my_y</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">)</span>
-</span><span id="L-623"><a href="#L-623"><span class="linenos">623</span></a>    <span class="n">fit_start</span> <span class="o">=</span> <span class="n">my_x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-624"><a href="#L-624"><span class="linenos">624</span></a>    <span class="n">fit_stop</span> <span class="o">=</span> <span class="n">my_x</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-625"><a href="#L-625"><span class="linenos">625</span></a>    <span class="n">samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">fit_start</span><span class="p">,</span> <span class="n">fit_stop</span><span class="p">,</span> <span class="mf">0.01</span><span class="p">)</span>
-</span><span id="L-626"><a href="#L-626"><span class="linenos">626</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="s1">&#39;k--&#39;</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">11</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Standard normal distribution&#39;</span><span class="p">)</span>
-</span><span id="L-627"><a href="#L-627"><span class="linenos">627</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">probplot</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">samples</span> <span class="o">+</span> <span class="n">probplot</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">1</span><span class="p">],</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Least squares fit, r=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="n">probplot</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">2</span><span class="p">],</span> <span class="mi">3</span><span class="p">)),</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">)</span>
-</span><span id="L-628"><a href="#L-628"><span class="linenos">628</span></a>
-</span><span id="L-629"><a href="#L-629"><span class="linenos">629</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;Theoretical quantiles&#39;</span><span class="p">)</span>
-</span><span id="L-630"><a href="#L-630"><span class="linenos">630</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;Ordered Values&#39;</span><span class="p">)</span>
-</span><span id="L-631"><a href="#L-631"><span class="linenos">631</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
-</span><span id="L-632"><a href="#L-632"><span class="linenos">632</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="L-633"><a href="#L-633"><span class="linenos">633</span></a>
+</span><span id="L-609"><a href="#L-609"><span class="linenos">609</span></a>
+</span><span id="L-610"><a href="#L-610"><span class="linenos">610</span></a><span class="k">def</span> <span class="nf">qqplot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">o_y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">p</span><span class="p">):</span>
+</span><span id="L-611"><a href="#L-611"><span class="linenos">611</span></a>    <span class="sd">&quot;&quot;&quot;Generates a quantile-quantile plot of the fit result which can be used to</span>
+</span><span id="L-612"><a href="#L-612"><span class="linenos">612</span></a><span class="sd">       check if the residuals of the fit are gaussian distributed.</span>
+</span><span id="L-613"><a href="#L-613"><span class="linenos">613</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-614"><a href="#L-614"><span class="linenos">614</span></a>
+</span><span id="L-615"><a href="#L-615"><span class="linenos">615</span></a>    <span class="n">residuals</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-616"><a href="#L-616"><span class="linenos">616</span></a>    <span class="k">for</span> <span class="n">i_x</span><span class="p">,</span> <span class="n">i_y</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">o_y</span><span class="p">):</span>
+</span><span id="L-617"><a href="#L-617"><span class="linenos">617</span></a>        <span class="n">residuals</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">i_y</span> <span class="o">-</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">i_x</span><span class="p">))</span> <span class="o">/</span> <span class="n">i_y</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span>
+</span><span id="L-618"><a href="#L-618"><span class="linenos">618</span></a>    <span class="n">residuals</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">residuals</span><span class="p">)</span>
+</span><span id="L-619"><a href="#L-619"><span class="linenos">619</span></a>    <span class="n">my_y</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">residuals</span><span class="p">]</span>
+</span><span id="L-620"><a href="#L-620"><span class="linenos">620</span></a>    <span class="n">probplot</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">stats</span><span class="o">.</span><span class="n">probplot</span><span class="p">(</span><span class="n">my_y</span><span class="p">)</span>
+</span><span id="L-621"><a href="#L-621"><span class="linenos">621</span></a>    <span class="n">my_x</span> <span class="o">=</span> <span class="n">probplot</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-622"><a href="#L-622"><span class="linenos">622</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">8</span><span class="p">,</span> <span class="mi">8</span> <span class="o">/</span> <span class="mf">1.618</span><span class="p">))</span>
+</span><span id="L-623"><a href="#L-623"><span class="linenos">623</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">my_x</span><span class="p">,</span> <span class="n">my_y</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">)</span>
+</span><span id="L-624"><a href="#L-624"><span class="linenos">624</span></a>    <span class="n">fit_start</span> <span class="o">=</span> <span class="n">my_x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-625"><a href="#L-625"><span class="linenos">625</span></a>    <span class="n">fit_stop</span> <span class="o">=</span> <span class="n">my_x</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-626"><a href="#L-626"><span class="linenos">626</span></a>    <span class="n">samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">fit_start</span><span class="p">,</span> <span class="n">fit_stop</span><span class="p">,</span> <span class="mf">0.01</span><span class="p">)</span>
+</span><span id="L-627"><a href="#L-627"><span class="linenos">627</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="s1">&#39;k--&#39;</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">11</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Standard normal distribution&#39;</span><span class="p">)</span>
+</span><span id="L-628"><a href="#L-628"><span class="linenos">628</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">probplot</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">samples</span> <span class="o">+</span> <span class="n">probplot</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">1</span><span class="p">],</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Least squares fit, r=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="n">probplot</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">2</span><span class="p">],</span> <span class="mi">3</span><span class="p">)),</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">)</span>
+</span><span id="L-629"><a href="#L-629"><span class="linenos">629</span></a>
+</span><span id="L-630"><a href="#L-630"><span class="linenos">630</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;Theoretical quantiles&#39;</span><span class="p">)</span>
+</span><span id="L-631"><a href="#L-631"><span class="linenos">631</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;Ordered Values&#39;</span><span class="p">)</span>
+</span><span id="L-632"><a href="#L-632"><span class="linenos">632</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
+</span><span id="L-633"><a href="#L-633"><span class="linenos">633</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
 </span><span id="L-634"><a href="#L-634"><span class="linenos">634</span></a>
-</span><span id="L-635"><a href="#L-635"><span class="linenos">635</span></a><span class="k">def</span> <span class="nf">residual_plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">fit_res</span><span class="p">):</span>
-</span><span id="L-636"><a href="#L-636"><span class="linenos">636</span></a>    <span class="sd">&quot;&quot;&quot; Generates a plot which compares the fit to the data and displays the corresponding residuals&quot;&quot;&quot;</span>
-</span><span id="L-637"><a href="#L-637"><span class="linenos">637</span></a>    <span class="n">sorted_x</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
-</span><span id="L-638"><a href="#L-638"><span class="linenos">638</span></a>    <span class="n">xstart</span> <span class="o">=</span> <span class="n">sorted_x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">sorted_x</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">sorted_x</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-639"><a href="#L-639"><span class="linenos">639</span></a>    <span class="n">xstop</span> <span class="o">=</span> <span class="n">sorted_x</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">sorted_x</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">sorted_x</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">])</span>
-</span><span id="L-640"><a href="#L-640"><span class="linenos">640</span></a>    <span class="n">x_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">xstart</span><span class="p">,</span> <span class="n">xstop</span> <span class="o">+</span> <span class="mf">0.01</span><span class="p">,</span> <span class="mf">0.01</span><span class="p">)</span>
-</span><span id="L-641"><a href="#L-641"><span class="linenos">641</span></a>
-</span><span id="L-642"><a href="#L-642"><span class="linenos">642</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">8</span><span class="p">,</span> <span class="mi">8</span> <span class="o">/</span> <span class="mf">1.618</span><span class="p">))</span>
-</span><span id="L-643"><a href="#L-643"><span class="linenos">643</span></a>    <span class="n">gs</span> <span class="o">=</span> <span class="n">gridspec</span><span class="o">.</span><span class="n">GridSpec</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">height_ratios</span><span class="o">=</span><span class="p">[</span><span class="mi">3</span><span class="p">,</span> <span class="mi">1</span><span class="p">],</span> <span class="n">wspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">)</span>
-</span><span id="L-644"><a href="#L-644"><span class="linenos">644</span></a>    <span class="n">ax0</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-645"><a href="#L-645"><span class="linenos">645</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">],</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">3</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Data&#39;</span><span class="p">)</span>
-</span><span id="L-646"><a href="#L-646"><span class="linenos">646</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span> <span class="n">func</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="p">],</span> <span class="n">x_samples</span><span class="p">),</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Fit&#39;</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">ms</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="L-647"><a href="#L-647"><span class="linenos">647</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">set_xticklabels</span><span class="p">([])</span>
-</span><span id="L-648"><a href="#L-648"><span class="linenos">648</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">xstart</span><span class="p">,</span> <span class="n">xstop</span><span class="p">])</span>
-</span><span id="L-649"><a href="#L-649"><span class="linenos">649</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">set_xticklabels</span><span class="p">([])</span>
-</span><span id="L-650"><a href="#L-650"><span class="linenos">650</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
-</span><span id="L-651"><a href="#L-651"><span class="linenos">651</span></a>
-</span><span id="L-652"><a href="#L-652"><span class="linenos">652</span></a>    <span class="n">residuals</span> <span class="o">=</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span> <span class="o">-</span> <span class="n">func</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="p">],</span> <span class="n">x</span><span class="p">))</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="L-653"><a href="#L-653"><span class="linenos">653</span></a>    <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-654"><a href="#L-654"><span class="linenos">654</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">residuals</span><span class="p">,</span> <span class="s1">&#39;ko&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">)</span>
-</span><span id="L-655"><a href="#L-655"><span class="linenos">655</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">direction</span><span class="o">=</span><span class="s1">&#39;out&#39;</span><span class="p">)</span>
-</span><span id="L-656"><a href="#L-656"><span class="linenos">656</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="s2">&quot;x&quot;</span><span class="p">,</span> <span class="n">bottom</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">labelbottom</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="L-657"><a href="#L-657"><span class="linenos">657</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s2">&quot; &quot;</span><span class="p">)</span>
-</span><span id="L-658"><a href="#L-658"><span class="linenos">658</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span> <span class="o">-</span><span class="mf">1.0</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.1</span><span class="p">,</span> <span class="n">facecolor</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
-</span><span id="L-659"><a href="#L-659"><span class="linenos">659</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">xstart</span><span class="p">,</span> <span class="n">xstop</span><span class="p">])</span>
-</span><span id="L-660"><a href="#L-660"><span class="linenos">660</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="s1">&#39;Residuals&#39;</span><span class="p">)</span>
-</span><span id="L-661"><a href="#L-661"><span class="linenos">661</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">subplots_adjust</span><span class="p">(</span><span class="n">wspace</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="L-662"><a href="#L-662"><span class="linenos">662</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="L-663"><a href="#L-663"><span class="linenos">663</span></a>
+</span><span id="L-635"><a href="#L-635"><span class="linenos">635</span></a>
+</span><span id="L-636"><a href="#L-636"><span class="linenos">636</span></a><span class="k">def</span> <span class="nf">residual_plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">fit_res</span><span class="p">):</span>
+</span><span id="L-637"><a href="#L-637"><span class="linenos">637</span></a>    <span class="sd">&quot;&quot;&quot; Generates a plot which compares the fit to the data and displays the corresponding residuals&quot;&quot;&quot;</span>
+</span><span id="L-638"><a href="#L-638"><span class="linenos">638</span></a>    <span class="n">sorted_x</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
+</span><span id="L-639"><a href="#L-639"><span class="linenos">639</span></a>    <span class="n">xstart</span> <span class="o">=</span> <span class="n">sorted_x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">sorted_x</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">sorted_x</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-640"><a href="#L-640"><span class="linenos">640</span></a>    <span class="n">xstop</span> <span class="o">=</span> <span class="n">sorted_x</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">sorted_x</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">sorted_x</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">])</span>
+</span><span id="L-641"><a href="#L-641"><span class="linenos">641</span></a>    <span class="n">x_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">xstart</span><span class="p">,</span> <span class="n">xstop</span> <span class="o">+</span> <span class="mf">0.01</span><span class="p">,</span> <span class="mf">0.01</span><span class="p">)</span>
+</span><span id="L-642"><a href="#L-642"><span class="linenos">642</span></a>
+</span><span id="L-643"><a href="#L-643"><span class="linenos">643</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">8</span><span class="p">,</span> <span class="mi">8</span> <span class="o">/</span> <span class="mf">1.618</span><span class="p">))</span>
+</span><span id="L-644"><a href="#L-644"><span class="linenos">644</span></a>    <span class="n">gs</span> <span class="o">=</span> <span class="n">gridspec</span><span class="o">.</span><span class="n">GridSpec</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">height_ratios</span><span class="o">=</span><span class="p">[</span><span class="mi">3</span><span class="p">,</span> <span class="mi">1</span><span class="p">],</span> <span class="n">wspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">)</span>
+</span><span id="L-645"><a href="#L-645"><span class="linenos">645</span></a>    <span class="n">ax0</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-646"><a href="#L-646"><span class="linenos">646</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">],</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">3</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Data&#39;</span><span class="p">)</span>
+</span><span id="L-647"><a href="#L-647"><span class="linenos">647</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span> <span class="n">func</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="p">],</span> <span class="n">x_samples</span><span class="p">),</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Fit&#39;</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">ms</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="L-648"><a href="#L-648"><span class="linenos">648</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">set_xticklabels</span><span class="p">([])</span>
+</span><span id="L-649"><a href="#L-649"><span class="linenos">649</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">xstart</span><span class="p">,</span> <span class="n">xstop</span><span class="p">])</span>
+</span><span id="L-650"><a href="#L-650"><span class="linenos">650</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">set_xticklabels</span><span class="p">([])</span>
+</span><span id="L-651"><a href="#L-651"><span class="linenos">651</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
+</span><span id="L-652"><a href="#L-652"><span class="linenos">652</span></a>
+</span><span id="L-653"><a href="#L-653"><span class="linenos">653</span></a>    <span class="n">residuals</span> <span class="o">=</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span> <span class="o">-</span> <span class="n">func</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="p">],</span> <span class="n">x</span><span class="p">))</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="L-654"><a href="#L-654"><span class="linenos">654</span></a>    <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-655"><a href="#L-655"><span class="linenos">655</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">residuals</span><span class="p">,</span> <span class="s1">&#39;ko&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">)</span>
+</span><span id="L-656"><a href="#L-656"><span class="linenos">656</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">direction</span><span class="o">=</span><span class="s1">&#39;out&#39;</span><span class="p">)</span>
+</span><span id="L-657"><a href="#L-657"><span class="linenos">657</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="s2">&quot;x&quot;</span><span class="p">,</span> <span class="n">bottom</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">labelbottom</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="L-658"><a href="#L-658"><span class="linenos">658</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s2">&quot; &quot;</span><span class="p">)</span>
+</span><span id="L-659"><a href="#L-659"><span class="linenos">659</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span> <span class="o">-</span><span class="mf">1.0</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.1</span><span class="p">,</span> <span class="n">facecolor</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
+</span><span id="L-660"><a href="#L-660"><span class="linenos">660</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">xstart</span><span class="p">,</span> <span class="n">xstop</span><span class="p">])</span>
+</span><span id="L-661"><a href="#L-661"><span class="linenos">661</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="s1">&#39;Residuals&#39;</span><span class="p">)</span>
+</span><span id="L-662"><a href="#L-662"><span class="linenos">662</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">subplots_adjust</span><span class="p">(</span><span class="n">wspace</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="L-663"><a href="#L-663"><span class="linenos">663</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
 </span><span id="L-664"><a href="#L-664"><span class="linenos">664</span></a>
-</span><span id="L-665"><a href="#L-665"><span class="linenos">665</span></a><span class="k">def</span> <span class="nf">error_band</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">beta</span><span class="p">):</span>
-</span><span id="L-666"><a href="#L-666"><span class="linenos">666</span></a>    <span class="sd">&quot;&quot;&quot;Returns the error band for an array of sample values x, for given fit function func with optimized parameters beta.&quot;&quot;&quot;</span>
-</span><span id="L-667"><a href="#L-667"><span class="linenos">667</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">covariance</span><span class="p">(</span><span class="n">beta</span><span class="p">)</span>
-</span><span id="L-668"><a href="#L-668"><span class="linenos">668</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">cov</span> <span class="o">-</span> <span class="n">cov</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1000</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">):</span>
-</span><span id="L-669"><a href="#L-669"><span class="linenos">669</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Covariance matrix is not symmetric within floating point precision&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-670"><a href="#L-670"><span class="linenos">670</span></a>
-</span><span id="L-671"><a href="#L-671"><span class="linenos">671</span></a>    <span class="n">deriv</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-672"><a href="#L-672"><span class="linenos">672</span></a>    <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
-</span><span id="L-673"><a href="#L-673"><span class="linenos">673</span></a>        <span class="n">deriv</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">egrad</span><span class="p">(</span><span class="n">func</span><span class="p">)([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">beta</span><span class="p">],</span> <span class="n">item</span><span class="p">)))</span>
-</span><span id="L-674"><a href="#L-674"><span class="linenos">674</span></a>
-</span><span id="L-675"><a href="#L-675"><span class="linenos">675</span></a>    <span class="n">err</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-676"><a href="#L-676"><span class="linenos">676</span></a>    <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
-</span><span id="L-677"><a href="#L-677"><span class="linenos">677</span></a>        <span class="n">err</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">deriv</span><span class="p">[</span><span class="n">i</span><span class="p">]))</span>
-</span><span id="L-678"><a href="#L-678"><span class="linenos">678</span></a>    <span class="n">err</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">err</span><span class="p">)</span>
-</span><span id="L-679"><a href="#L-679"><span class="linenos">679</span></a>
-</span><span id="L-680"><a href="#L-680"><span class="linenos">680</span></a>    <span class="k">return</span> <span class="n">err</span>
-</span><span id="L-681"><a href="#L-681"><span class="linenos">681</span></a>
+</span><span id="L-665"><a href="#L-665"><span class="linenos">665</span></a>
+</span><span id="L-666"><a href="#L-666"><span class="linenos">666</span></a><span class="k">def</span> <span class="nf">error_band</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">beta</span><span class="p">):</span>
+</span><span id="L-667"><a href="#L-667"><span class="linenos">667</span></a>    <span class="sd">&quot;&quot;&quot;Returns the error band for an array of sample values x, for given fit function func with optimized parameters beta.&quot;&quot;&quot;</span>
+</span><span id="L-668"><a href="#L-668"><span class="linenos">668</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">covariance</span><span class="p">(</span><span class="n">beta</span><span class="p">)</span>
+</span><span id="L-669"><a href="#L-669"><span class="linenos">669</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">cov</span> <span class="o">-</span> <span class="n">cov</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1000</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">):</span>
+</span><span id="L-670"><a href="#L-670"><span class="linenos">670</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Covariance matrix is not symmetric within floating point precision&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-671"><a href="#L-671"><span class="linenos">671</span></a>
+</span><span id="L-672"><a href="#L-672"><span class="linenos">672</span></a>    <span class="n">deriv</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-673"><a href="#L-673"><span class="linenos">673</span></a>    <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
+</span><span id="L-674"><a href="#L-674"><span class="linenos">674</span></a>        <span class="n">deriv</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">egrad</span><span class="p">(</span><span class="n">func</span><span class="p">)([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">beta</span><span class="p">],</span> <span class="n">item</span><span class="p">)))</span>
+</span><span id="L-675"><a href="#L-675"><span class="linenos">675</span></a>
+</span><span id="L-676"><a href="#L-676"><span class="linenos">676</span></a>    <span class="n">err</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-677"><a href="#L-677"><span class="linenos">677</span></a>    <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
+</span><span id="L-678"><a href="#L-678"><span class="linenos">678</span></a>        <span class="n">err</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">deriv</span><span class="p">[</span><span class="n">i</span><span class="p">]))</span>
+</span><span id="L-679"><a href="#L-679"><span class="linenos">679</span></a>    <span class="n">err</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">err</span><span class="p">)</span>
+</span><span id="L-680"><a href="#L-680"><span class="linenos">680</span></a>
+</span><span id="L-681"><a href="#L-681"><span class="linenos">681</span></a>    <span class="k">return</span> <span class="n">err</span>
 </span><span id="L-682"><a href="#L-682"><span class="linenos">682</span></a>
-</span><span id="L-683"><a href="#L-683"><span class="linenos">683</span></a><span class="k">def</span> <span class="nf">ks_test</span><span class="p">(</span><span class="n">objects</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-684"><a href="#L-684"><span class="linenos">684</span></a>    <span class="sd">&quot;&quot;&quot;Performs a Kolmogorov–Smirnov test for the p-values of all fit object.</span>
-</span><span id="L-685"><a href="#L-685"><span class="linenos">685</span></a>
-</span><span id="L-686"><a href="#L-686"><span class="linenos">686</span></a><span class="sd">    Parameters</span>
-</span><span id="L-687"><a href="#L-687"><span class="linenos">687</span></a><span class="sd">    ----------</span>
-</span><span id="L-688"><a href="#L-688"><span class="linenos">688</span></a><span class="sd">    objects : list</span>
-</span><span id="L-689"><a href="#L-689"><span class="linenos">689</span></a><span class="sd">        List of fit results to include in the analysis (optional).</span>
-</span><span id="L-690"><a href="#L-690"><span class="linenos">690</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-691"><a href="#L-691"><span class="linenos">691</span></a>
-</span><span id="L-692"><a href="#L-692"><span class="linenos">692</span></a>    <span class="k">if</span> <span class="n">objects</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-693"><a href="#L-693"><span class="linenos">693</span></a>        <span class="n">obs_list</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-694"><a href="#L-694"><span class="linenos">694</span></a>        <span class="k">for</span> <span class="n">obj</span> <span class="ow">in</span> <span class="n">gc</span><span class="o">.</span><span class="n">get_objects</span><span class="p">():</span>
-</span><span id="L-695"><a href="#L-695"><span class="linenos">695</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="n">Fit_result</span><span class="p">):</span>
-</span><span id="L-696"><a href="#L-696"><span class="linenos">696</span></a>                <span class="n">obs_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">obj</span><span class="p">)</span>
-</span><span id="L-697"><a href="#L-697"><span class="linenos">697</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-698"><a href="#L-698"><span class="linenos">698</span></a>        <span class="n">obs_list</span> <span class="o">=</span> <span class="n">objects</span>
-</span><span id="L-699"><a href="#L-699"><span class="linenos">699</span></a>
-</span><span id="L-700"><a href="#L-700"><span class="linenos">700</span></a>    <span class="n">p_values</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">p_value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs_list</span><span class="p">]</span>
-</span><span id="L-701"><a href="#L-701"><span class="linenos">701</span></a>
-</span><span id="L-702"><a href="#L-702"><span class="linenos">702</span></a>    <span class="n">bins</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">p_values</span><span class="p">)</span>
-</span><span id="L-703"><a href="#L-703"><span class="linenos">703</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mf">1.001</span><span class="p">,</span> <span class="mf">0.001</span><span class="p">)</span>
-</span><span id="L-704"><a href="#L-704"><span class="linenos">704</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">x</span><span class="p">,</span> <span class="s1">&#39;k&#39;</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="L-705"><a href="#L-705"><span class="linenos">705</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-706"><a href="#L-706"><span class="linenos">706</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-707"><a href="#L-707"><span class="linenos">707</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;p-value&#39;</span><span class="p">)</span>
-</span><span id="L-708"><a href="#L-708"><span class="linenos">708</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;Cumulative probability&#39;</span><span class="p">)</span>
-</span><span id="L-709"><a href="#L-709"><span class="linenos">709</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">bins</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39; p-values&#39;</span><span class="p">)</span>
-</span><span id="L-710"><a href="#L-710"><span class="linenos">710</span></a>
-</span><span id="L-711"><a href="#L-711"><span class="linenos">711</span></a>    <span class="n">n</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">bins</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">(</span><span class="n">bins</span><span class="p">)</span>
-</span><span id="L-712"><a href="#L-712"><span class="linenos">712</span></a>    <span class="n">Xs</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">p_values</span><span class="p">)</span>
-</span><span id="L-713"><a href="#L-713"><span class="linenos">713</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">step</span><span class="p">(</span><span class="n">Xs</span><span class="p">,</span> <span class="n">n</span><span class="p">)</span>
-</span><span id="L-714"><a href="#L-714"><span class="linenos">714</span></a>    <span class="n">diffs</span> <span class="o">=</span> <span class="n">n</span> <span class="o">-</span> <span class="n">Xs</span>
-</span><span id="L-715"><a href="#L-715"><span class="linenos">715</span></a>    <span class="n">loc_max_diff</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">diffs</span><span class="p">))</span>
-</span><span id="L-716"><a href="#L-716"><span class="linenos">716</span></a>    <span class="n">loc</span> <span class="o">=</span> <span class="n">Xs</span><span class="p">[</span><span class="n">loc_max_diff</span><span class="p">]</span>
-</span><span id="L-717"><a href="#L-717"><span class="linenos">717</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">annotate</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">xy</span><span class="o">=</span><span class="p">(</span><span class="n">loc</span><span class="p">,</span> <span class="n">loc</span><span class="p">),</span> <span class="n">xytext</span><span class="o">=</span><span class="p">(</span><span class="n">loc</span><span class="p">,</span> <span class="n">loc</span> <span class="o">+</span> <span class="n">diffs</span><span class="p">[</span><span class="n">loc_max_diff</span><span class="p">]),</span> <span class="n">arrowprops</span><span class="o">=</span><span class="nb">dict</span><span class="p">(</span><span class="n">arrowstyle</span><span class="o">=</span><span class="s1">&#39;&lt;-&gt;&#39;</span><span class="p">,</span> <span class="n">shrinkA</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">shrinkB</span><span class="o">=</span><span class="mi">0</span><span class="p">))</span>
-</span><span id="L-718"><a href="#L-718"><span class="linenos">718</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="L-719"><a href="#L-719"><span class="linenos">719</span></a>
-</span><span id="L-720"><a href="#L-720"><span class="linenos">720</span></a>    <span class="nb">print</span><span class="p">(</span><span class="n">scipy</span><span class="o">.</span><span class="n">stats</span><span class="o">.</span><span class="n">kstest</span><span class="p">(</span><span class="n">p_values</span><span class="p">,</span> <span class="s1">&#39;uniform&#39;</span><span class="p">))</span>
+</span><span id="L-683"><a href="#L-683"><span class="linenos">683</span></a>
+</span><span id="L-684"><a href="#L-684"><span class="linenos">684</span></a><span class="k">def</span> <span class="nf">ks_test</span><span class="p">(</span><span class="n">objects</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-685"><a href="#L-685"><span class="linenos">685</span></a>    <span class="sd">&quot;&quot;&quot;Performs a Kolmogorov–Smirnov test for the p-values of all fit object.</span>
+</span><span id="L-686"><a href="#L-686"><span class="linenos">686</span></a>
+</span><span id="L-687"><a href="#L-687"><span class="linenos">687</span></a><span class="sd">    Parameters</span>
+</span><span id="L-688"><a href="#L-688"><span class="linenos">688</span></a><span class="sd">    ----------</span>
+</span><span id="L-689"><a href="#L-689"><span class="linenos">689</span></a><span class="sd">    objects : list</span>
+</span><span id="L-690"><a href="#L-690"><span class="linenos">690</span></a><span class="sd">        List of fit results to include in the analysis (optional).</span>
+</span><span id="L-691"><a href="#L-691"><span class="linenos">691</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-692"><a href="#L-692"><span class="linenos">692</span></a>
+</span><span id="L-693"><a href="#L-693"><span class="linenos">693</span></a>    <span class="k">if</span> <span class="n">objects</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-694"><a href="#L-694"><span class="linenos">694</span></a>        <span class="n">obs_list</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-695"><a href="#L-695"><span class="linenos">695</span></a>        <span class="k">for</span> <span class="n">obj</span> <span class="ow">in</span> <span class="n">gc</span><span class="o">.</span><span class="n">get_objects</span><span class="p">():</span>
+</span><span id="L-696"><a href="#L-696"><span class="linenos">696</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="n">Fit_result</span><span class="p">):</span>
+</span><span id="L-697"><a href="#L-697"><span class="linenos">697</span></a>                <span class="n">obs_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">obj</span><span class="p">)</span>
+</span><span id="L-698"><a href="#L-698"><span class="linenos">698</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-699"><a href="#L-699"><span class="linenos">699</span></a>        <span class="n">obs_list</span> <span class="o">=</span> <span class="n">objects</span>
+</span><span id="L-700"><a href="#L-700"><span class="linenos">700</span></a>
+</span><span id="L-701"><a href="#L-701"><span class="linenos">701</span></a>    <span class="n">p_values</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">p_value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs_list</span><span class="p">]</span>
+</span><span id="L-702"><a href="#L-702"><span class="linenos">702</span></a>
+</span><span id="L-703"><a href="#L-703"><span class="linenos">703</span></a>    <span class="n">bins</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">p_values</span><span class="p">)</span>
+</span><span id="L-704"><a href="#L-704"><span class="linenos">704</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mf">1.001</span><span class="p">,</span> <span class="mf">0.001</span><span class="p">)</span>
+</span><span id="L-705"><a href="#L-705"><span class="linenos">705</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">x</span><span class="p">,</span> <span class="s1">&#39;k&#39;</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="L-706"><a href="#L-706"><span class="linenos">706</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-707"><a href="#L-707"><span class="linenos">707</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-708"><a href="#L-708"><span class="linenos">708</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;p-value&#39;</span><span class="p">)</span>
+</span><span id="L-709"><a href="#L-709"><span class="linenos">709</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;Cumulative probability&#39;</span><span class="p">)</span>
+</span><span id="L-710"><a href="#L-710"><span class="linenos">710</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">bins</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39; p-values&#39;</span><span class="p">)</span>
+</span><span id="L-711"><a href="#L-711"><span class="linenos">711</span></a>
+</span><span id="L-712"><a href="#L-712"><span class="linenos">712</span></a>    <span class="n">n</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">bins</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">(</span><span class="n">bins</span><span class="p">)</span>
+</span><span id="L-713"><a href="#L-713"><span class="linenos">713</span></a>    <span class="n">Xs</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">p_values</span><span class="p">)</span>
+</span><span id="L-714"><a href="#L-714"><span class="linenos">714</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">step</span><span class="p">(</span><span class="n">Xs</span><span class="p">,</span> <span class="n">n</span><span class="p">)</span>
+</span><span id="L-715"><a href="#L-715"><span class="linenos">715</span></a>    <span class="n">diffs</span> <span class="o">=</span> <span class="n">n</span> <span class="o">-</span> <span class="n">Xs</span>
+</span><span id="L-716"><a href="#L-716"><span class="linenos">716</span></a>    <span class="n">loc_max_diff</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">diffs</span><span class="p">))</span>
+</span><span id="L-717"><a href="#L-717"><span class="linenos">717</span></a>    <span class="n">loc</span> <span class="o">=</span> <span class="n">Xs</span><span class="p">[</span><span class="n">loc_max_diff</span><span class="p">]</span>
+</span><span id="L-718"><a href="#L-718"><span class="linenos">718</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">annotate</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">xy</span><span class="o">=</span><span class="p">(</span><span class="n">loc</span><span class="p">,</span> <span class="n">loc</span><span class="p">),</span> <span class="n">xytext</span><span class="o">=</span><span class="p">(</span><span class="n">loc</span><span class="p">,</span> <span class="n">loc</span> <span class="o">+</span> <span class="n">diffs</span><span class="p">[</span><span class="n">loc_max_diff</span><span class="p">]),</span> <span class="n">arrowprops</span><span class="o">=</span><span class="nb">dict</span><span class="p">(</span><span class="n">arrowstyle</span><span class="o">=</span><span class="s1">&#39;&lt;-&gt;&#39;</span><span class="p">,</span> <span class="n">shrinkA</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">shrinkB</span><span class="o">=</span><span class="mi">0</span><span class="p">))</span>
+</span><span id="L-719"><a href="#L-719"><span class="linenos">719</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="L-720"><a href="#L-720"><span class="linenos">720</span></a>
+</span><span id="L-721"><a href="#L-721"><span class="linenos">721</span></a>    <span class="nb">print</span><span class="p">(</span><span class="n">scipy</span><span class="o">.</span><span class="n">stats</span><span class="o">.</span><span class="n">kstest</span><span class="p">(</span><span class="n">p_values</span><span class="p">,</span> <span class="s1">&#39;uniform&#39;</span><span class="p">))</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="Fit_result">
-                                <div class="attr class">
-        <a class="headerlink" href="#Fit_result">#&nbsp;&nbsp</a>
+                            <input id="Fit_result-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr class">
+            
+    <span class="def">class</span>
+    <span class="name">Fit_result</span><wbr>(<span class="base">collections.abc.Sequence</span>):
+
+                <label class="view-source-button" for="Fit_result-view-source"><span>View Source</span></label>
 
-        
-        <span class="def">class</span>
-        <span class="name">Fit_result</span><wbr>(<span class="base">collections.abc.Sequence</span>):
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Fit_result-18"><a href="#Fit_result-18"><span class="linenos">18</span></a><span class="k">class</span> <span class="nc">Fit_result</span><span class="p">(</span><span class="n">Sequence</span><span class="p">):</span>
-</span><span id="Fit_result-19"><a href="#Fit_result-19"><span class="linenos">19</span></a>    <span class="sd">&quot;&quot;&quot;Represents fit results.</span>
-</span><span id="Fit_result-20"><a href="#Fit_result-20"><span class="linenos">20</span></a>
-</span><span id="Fit_result-21"><a href="#Fit_result-21"><span class="linenos">21</span></a><span class="sd">    Attributes</span>
-</span><span id="Fit_result-22"><a href="#Fit_result-22"><span class="linenos">22</span></a><span class="sd">    ----------</span>
-</span><span id="Fit_result-23"><a href="#Fit_result-23"><span class="linenos">23</span></a><span class="sd">    fit_parameters : list</span>
-</span><span id="Fit_result-24"><a href="#Fit_result-24"><span class="linenos">24</span></a><span class="sd">        results for the individual fit parameters,</span>
-</span><span id="Fit_result-25"><a href="#Fit_result-25"><span class="linenos">25</span></a><span class="sd">        also accessible via indices.</span>
-</span><span id="Fit_result-26"><a href="#Fit_result-26"><span class="linenos">26</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="Fit_result-27"><a href="#Fit_result-27"><span class="linenos">27</span></a>
-</span><span id="Fit_result-28"><a href="#Fit_result-28"><span class="linenos">28</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Fit_result-29"><a href="#Fit_result-29"><span class="linenos">29</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="Fit_result-30"><a href="#Fit_result-30"><span class="linenos">30</span></a>
-</span><span id="Fit_result-31"><a href="#Fit_result-31"><span class="linenos">31</span></a>    <span class="k">def</span> <span class="fm">__getitem__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">idx</span><span class="p">):</span>
-</span><span id="Fit_result-32"><a href="#Fit_result-32"><span class="linenos">32</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span>
-</span><span id="Fit_result-33"><a href="#Fit_result-33"><span class="linenos">33</span></a>
-</span><span id="Fit_result-34"><a href="#Fit_result-34"><span class="linenos">34</span></a>    <span class="k">def</span> <span class="fm">__len__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Fit_result-35"><a href="#Fit_result-35"><span class="linenos">35</span></a>        <span class="k">return</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">)</span>
-</span><span id="Fit_result-36"><a href="#Fit_result-36"><span class="linenos">36</span></a>
-</span><span id="Fit_result-37"><a href="#Fit_result-37"><span class="linenos">37</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Fit_result-38"><a href="#Fit_result-38"><span class="linenos">38</span></a>        <span class="sd">&quot;&quot;&quot;Apply the gamma method to all fit parameters&quot;&quot;&quot;</span>
-</span><span id="Fit_result-39"><a href="#Fit_result-39"><span class="linenos">39</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">]</span>
-</span><span id="Fit_result-40"><a href="#Fit_result-40"><span class="linenos">40</span></a>
-</span><span id="Fit_result-41"><a href="#Fit_result-41"><span class="linenos">41</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Fit_result-42"><a href="#Fit_result-42"><span class="linenos">42</span></a>        <span class="n">my_str</span> <span class="o">=</span> <span class="s1">&#39;Goodness of fit:</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="Fit_result-43"><a href="#Fit_result-43"><span class="linenos">43</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;chisquare_by_dof&#39;</span><span class="p">):</span>
-</span><span id="Fit_result-44"><a href="#Fit_result-44"><span class="linenos">44</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\u03C7\u00b2</span><span class="s1">/d.o.f. = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">chisquare_by_dof</span><span class="si">:</span><span class="s1">2.6f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="Fit_result-45"><a href="#Fit_result-45"><span class="linenos">45</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;residual_variance&#39;</span><span class="p">):</span>
-</span><span id="Fit_result-46"><a href="#Fit_result-46"><span class="linenos">46</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;residual variance = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">residual_variance</span><span class="si">:</span><span class="s1">2.6f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="Fit_result-47"><a href="#Fit_result-47"><span class="linenos">47</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;chisquare_by_expected_chisquare&#39;</span><span class="p">):</span>
-</span><span id="Fit_result-48"><a href="#Fit_result-48"><span class="linenos">48</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\u03C7\u00b2</span><span class="s1">/</span><span class="se">\u03C7\u00b2</span><span class="s1">exp  = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span><span class="si">:</span><span class="s1">2.6f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="Fit_result-49"><a href="#Fit_result-49"><span class="linenos">49</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;p_value&#39;</span><span class="p">):</span>
-</span><span id="Fit_result-50"><a href="#Fit_result-50"><span class="linenos">50</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;p-value   = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">p_value</span><span class="si">:</span><span class="s1">2.4f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="Fit_result-51"><a href="#Fit_result-51"><span class="linenos">51</span></a>        <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;Fit parameters:</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="Fit_result-52"><a href="#Fit_result-52"><span class="linenos">52</span></a>        <span class="k">for</span> <span class="n">i_par</span><span class="p">,</span> <span class="n">par</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">):</span>
-</span><span id="Fit_result-53"><a href="#Fit_result-53"><span class="linenos">53</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="nb">str</span><span class="p">(</span><span class="n">i_par</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">*</span> <span class="nb">int</span><span class="p">(</span><span class="n">par</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">par</span><span class="p">)</span><span class="o">.</span><span class="n">rjust</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">par</span> <span class="o">&lt;</span> <span class="mf">0.0</span><span class="p">))</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="Fit_result-54"><a href="#Fit_result-54"><span class="linenos">54</span></a>        <span class="k">return</span> <span class="n">my_str</span>
-</span><span id="Fit_result-55"><a href="#Fit_result-55"><span class="linenos">55</span></a>
-</span><span id="Fit_result-56"><a href="#Fit_result-56"><span class="linenos">56</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Fit_result-57"><a href="#Fit_result-57"><span class="linenos">57</span></a>        <span class="n">m</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">len</span><span class="p">,</span> <span class="nb">list</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="vm">__dict__</span><span class="o">.</span><span class="n">keys</span><span class="p">())))</span> <span class="o">+</span> <span class="mi">1</span>
-</span><span id="Fit_result-58"><a href="#Fit_result-58"><span class="linenos">58</span></a>        <span class="k">return</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="n">key</span><span class="o">.</span><span class="n">rjust</span><span class="p">(</span><span class="n">m</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;: &#39;</span> <span class="o">+</span> <span class="nb">repr</span><span class="p">(</span><span class="n">value</span><span class="p">)</span> <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="vm">__dict__</span><span class="o">.</span><span class="n">items</span><span class="p">())])</span>
+    <a class="headerlink" href="#Fit_result"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Fit_result-19"><a href="#Fit_result-19"><span class="linenos">19</span></a><span class="k">class</span> <span class="nc">Fit_result</span><span class="p">(</span><span class="n">Sequence</span><span class="p">):</span>
+</span><span id="Fit_result-20"><a href="#Fit_result-20"><span class="linenos">20</span></a>    <span class="sd">&quot;&quot;&quot;Represents fit results.</span>
+</span><span id="Fit_result-21"><a href="#Fit_result-21"><span class="linenos">21</span></a>
+</span><span id="Fit_result-22"><a href="#Fit_result-22"><span class="linenos">22</span></a><span class="sd">    Attributes</span>
+</span><span id="Fit_result-23"><a href="#Fit_result-23"><span class="linenos">23</span></a><span class="sd">    ----------</span>
+</span><span id="Fit_result-24"><a href="#Fit_result-24"><span class="linenos">24</span></a><span class="sd">    fit_parameters : list</span>
+</span><span id="Fit_result-25"><a href="#Fit_result-25"><span class="linenos">25</span></a><span class="sd">        results for the individual fit parameters,</span>
+</span><span id="Fit_result-26"><a href="#Fit_result-26"><span class="linenos">26</span></a><span class="sd">        also accessible via indices.</span>
+</span><span id="Fit_result-27"><a href="#Fit_result-27"><span class="linenos">27</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="Fit_result-28"><a href="#Fit_result-28"><span class="linenos">28</span></a>
+</span><span id="Fit_result-29"><a href="#Fit_result-29"><span class="linenos">29</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Fit_result-30"><a href="#Fit_result-30"><span class="linenos">30</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="Fit_result-31"><a href="#Fit_result-31"><span class="linenos">31</span></a>
+</span><span id="Fit_result-32"><a href="#Fit_result-32"><span class="linenos">32</span></a>    <span class="k">def</span> <span class="fm">__getitem__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">idx</span><span class="p">):</span>
+</span><span id="Fit_result-33"><a href="#Fit_result-33"><span class="linenos">33</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">[</span><span class="n">idx</span><span class="p">]</span>
+</span><span id="Fit_result-34"><a href="#Fit_result-34"><span class="linenos">34</span></a>
+</span><span id="Fit_result-35"><a href="#Fit_result-35"><span class="linenos">35</span></a>    <span class="k">def</span> <span class="fm">__len__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Fit_result-36"><a href="#Fit_result-36"><span class="linenos">36</span></a>        <span class="k">return</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">)</span>
+</span><span id="Fit_result-37"><a href="#Fit_result-37"><span class="linenos">37</span></a>
+</span><span id="Fit_result-38"><a href="#Fit_result-38"><span class="linenos">38</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Fit_result-39"><a href="#Fit_result-39"><span class="linenos">39</span></a>        <span class="sd">&quot;&quot;&quot;Apply the gamma method to all fit parameters&quot;&quot;&quot;</span>
+</span><span id="Fit_result-40"><a href="#Fit_result-40"><span class="linenos">40</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">]</span>
+</span><span id="Fit_result-41"><a href="#Fit_result-41"><span class="linenos">41</span></a>
+</span><span id="Fit_result-42"><a href="#Fit_result-42"><span class="linenos">42</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Fit_result-43"><a href="#Fit_result-43"><span class="linenos">43</span></a>        <span class="n">my_str</span> <span class="o">=</span> <span class="s1">&#39;Goodness of fit:</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="Fit_result-44"><a href="#Fit_result-44"><span class="linenos">44</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;chisquare_by_dof&#39;</span><span class="p">):</span>
+</span><span id="Fit_result-45"><a href="#Fit_result-45"><span class="linenos">45</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\u03C7\u00b2</span><span class="s1">/d.o.f. = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">chisquare_by_dof</span><span class="si">:</span><span class="s1">2.6f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="Fit_result-46"><a href="#Fit_result-46"><span class="linenos">46</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;residual_variance&#39;</span><span class="p">):</span>
+</span><span id="Fit_result-47"><a href="#Fit_result-47"><span class="linenos">47</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;residual variance = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">residual_variance</span><span class="si">:</span><span class="s1">2.6f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="Fit_result-48"><a href="#Fit_result-48"><span class="linenos">48</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;chisquare_by_expected_chisquare&#39;</span><span class="p">):</span>
+</span><span id="Fit_result-49"><a href="#Fit_result-49"><span class="linenos">49</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\u03C7\u00b2</span><span class="s1">/</span><span class="se">\u03C7\u00b2</span><span class="s1">exp  = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span><span class="si">:</span><span class="s1">2.6f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="Fit_result-50"><a href="#Fit_result-50"><span class="linenos">50</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;p_value&#39;</span><span class="p">):</span>
+</span><span id="Fit_result-51"><a href="#Fit_result-51"><span class="linenos">51</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;p-value   = &#39;</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">p_value</span><span class="si">:</span><span class="s1">2.4f</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="Fit_result-52"><a href="#Fit_result-52"><span class="linenos">52</span></a>        <span class="n">my_str</span> <span class="o">+=</span> <span class="s1">&#39;Fit parameters:</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="Fit_result-53"><a href="#Fit_result-53"><span class="linenos">53</span></a>        <span class="k">for</span> <span class="n">i_par</span><span class="p">,</span> <span class="n">par</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">):</span>
+</span><span id="Fit_result-54"><a href="#Fit_result-54"><span class="linenos">54</span></a>            <span class="n">my_str</span> <span class="o">+=</span> <span class="nb">str</span><span class="p">(</span><span class="n">i_par</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">*</span> <span class="nb">int</span><span class="p">(</span><span class="n">par</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">par</span><span class="p">)</span><span class="o">.</span><span class="n">rjust</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">par</span> <span class="o">&lt;</span> <span class="mf">0.0</span><span class="p">))</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="Fit_result-55"><a href="#Fit_result-55"><span class="linenos">55</span></a>        <span class="k">return</span> <span class="n">my_str</span>
+</span><span id="Fit_result-56"><a href="#Fit_result-56"><span class="linenos">56</span></a>
+</span><span id="Fit_result-57"><a href="#Fit_result-57"><span class="linenos">57</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Fit_result-58"><a href="#Fit_result-58"><span class="linenos">58</span></a>        <span class="n">m</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">len</span><span class="p">,</span> <span class="nb">list</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="vm">__dict__</span><span class="o">.</span><span class="n">keys</span><span class="p">())))</span> <span class="o">+</span> <span class="mi">1</span>
+</span><span id="Fit_result-59"><a href="#Fit_result-59"><span class="linenos">59</span></a>        <span class="k">return</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="n">key</span><span class="o">.</span><span class="n">rjust</span><span class="p">(</span><span class="n">m</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;: &#39;</span> <span class="o">+</span> <span class="nb">repr</span><span class="p">(</span><span class="n">value</span><span class="p">)</span> <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="vm">__dict__</span><span class="o">.</span><span class="n">items</span><span class="p">())])</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Represents fit results.</p>
 
@@ -894,39 +894,39 @@ also accessible via indices.</li>
 
 
                             <div id="Fit_result.__init__" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Fit_result.__init__">#&nbsp;&nbsp</a>
+                                        <input id="Fit_result.__init__-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="name">Fit_result</span><span class="signature pdoc-code condensed">()</span>
+
+                <label class="view-source-button" for="Fit_result.__init__-view-source"><span>View Source</span></label>
 
-        
-            <span class="name">Fit_result</span><span class="signature">()</span>
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Fit_result.__init__-28"><a href="#Fit_result.__init__-28"><span class="linenos">28</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Fit_result.__init__-29"><a href="#Fit_result.__init__-29"><span class="linenos">29</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="kc">None</span>
+    <a class="headerlink" href="#Fit_result.__init__"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Fit_result.__init__-29"><a href="#Fit_result.__init__-29"><span class="linenos">29</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Fit_result.__init__-30"><a href="#Fit_result.__init__-30"><span class="linenos">30</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="kc">None</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Fit_result.gamma_method" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Fit_result.gamma_method">#&nbsp;&nbsp</a>
+                                        <input id="Fit_result.gamma_method-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">gamma_method</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Fit_result.gamma_method-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">gamma_method</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Fit_result.gamma_method-37"><a href="#Fit_result.gamma_method-37"><span class="linenos">37</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Fit_result.gamma_method-38"><a href="#Fit_result.gamma_method-38"><span class="linenos">38</span></a>        <span class="sd">&quot;&quot;&quot;Apply the gamma method to all fit parameters&quot;&quot;&quot;</span>
-</span><span id="Fit_result.gamma_method-39"><a href="#Fit_result.gamma_method-39"><span class="linenos">39</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">]</span>
+    <a class="headerlink" href="#Fit_result.gamma_method"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Fit_result.gamma_method-38"><a href="#Fit_result.gamma_method-38"><span class="linenos">38</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Fit_result.gamma_method-39"><a href="#Fit_result.gamma_method-39"><span class="linenos">39</span></a>        <span class="sd">&quot;&quot;&quot;Apply the gamma method to all fit parameters&quot;&quot;&quot;</span>
+</span><span id="Fit_result.gamma_method-40"><a href="#Fit_result.gamma_method-40"><span class="linenos">40</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">fit_parameters</span><span class="p">]</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Apply the gamma method to all fit parameters</p>
 </div>
@@ -945,79 +945,79 @@ also accessible via indices.</li>
                             </div>
                 </section>
                 <section id="least_squares">
-                            <div class="attr function"><a class="headerlink" href="#least_squares">#&nbsp;&nbsp</a>
+                            <input id="least_squares-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">least_squares</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">x</span>, </span><span class="param"><span class="n">y</span>, </span><span class="param"><span class="n">func</span>, </span><span class="param"><span class="n">priors</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="n">silent</span><span class="o">=</span><span class="kc">False</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="least_squares-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">least_squares</span><span class="signature">(x, y, func, priors=None, silent=False, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="least_squares-61"><a href="#least_squares-61"><span class="linenos"> 61</span></a><span class="k">def</span> <span class="nf">least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">priors</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="least_squares-62"><a href="#least_squares-62"><span class="linenos"> 62</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Performs a non-linear fit to y = func(x).</span>
-</span><span id="least_squares-63"><a href="#least_squares-63"><span class="linenos"> 63</span></a>
-</span><span id="least_squares-64"><a href="#least_squares-64"><span class="linenos"> 64</span></a><span class="sd">    Parameters</span>
-</span><span id="least_squares-65"><a href="#least_squares-65"><span class="linenos"> 65</span></a><span class="sd">    ----------</span>
-</span><span id="least_squares-66"><a href="#least_squares-66"><span class="linenos"> 66</span></a><span class="sd">    x : list</span>
-</span><span id="least_squares-67"><a href="#least_squares-67"><span class="linenos"> 67</span></a><span class="sd">        list of floats.</span>
-</span><span id="least_squares-68"><a href="#least_squares-68"><span class="linenos"> 68</span></a><span class="sd">    y : list</span>
-</span><span id="least_squares-69"><a href="#least_squares-69"><span class="linenos"> 69</span></a><span class="sd">        list of Obs.</span>
-</span><span id="least_squares-70"><a href="#least_squares-70"><span class="linenos"> 70</span></a><span class="sd">    func : object</span>
-</span><span id="least_squares-71"><a href="#least_squares-71"><span class="linenos"> 71</span></a><span class="sd">        fit function, has to be of the form</span>
-</span><span id="least_squares-72"><a href="#least_squares-72"><span class="linenos"> 72</span></a>
-</span><span id="least_squares-73"><a href="#least_squares-73"><span class="linenos"> 73</span></a><span class="sd">        ```python</span>
-</span><span id="least_squares-74"><a href="#least_squares-74"><span class="linenos"> 74</span></a><span class="sd">        import autograd.numpy as anp</span>
-</span><span id="least_squares-75"><a href="#least_squares-75"><span class="linenos"> 75</span></a>
-</span><span id="least_squares-76"><a href="#least_squares-76"><span class="linenos"> 76</span></a><span class="sd">        def func(a, x):</span>
-</span><span id="least_squares-77"><a href="#least_squares-77"><span class="linenos"> 77</span></a><span class="sd">            return a[0] + a[1] * x + a[2] * anp.sinh(x)</span>
-</span><span id="least_squares-78"><a href="#least_squares-78"><span class="linenos"> 78</span></a><span class="sd">        ```</span>
-</span><span id="least_squares-79"><a href="#least_squares-79"><span class="linenos"> 79</span></a>
-</span><span id="least_squares-80"><a href="#least_squares-80"><span class="linenos"> 80</span></a><span class="sd">        For multiple x values func can be of the form</span>
-</span><span id="least_squares-81"><a href="#least_squares-81"><span class="linenos"> 81</span></a>
-</span><span id="least_squares-82"><a href="#least_squares-82"><span class="linenos"> 82</span></a><span class="sd">        ```python</span>
-</span><span id="least_squares-83"><a href="#least_squares-83"><span class="linenos"> 83</span></a><span class="sd">        def func(a, x):</span>
-</span><span id="least_squares-84"><a href="#least_squares-84"><span class="linenos"> 84</span></a><span class="sd">            (x1, x2) = x</span>
-</span><span id="least_squares-85"><a href="#least_squares-85"><span class="linenos"> 85</span></a><span class="sd">            return a[0] * x1 ** 2 + a[1] * x2</span>
-</span><span id="least_squares-86"><a href="#least_squares-86"><span class="linenos"> 86</span></a><span class="sd">        ```</span>
-</span><span id="least_squares-87"><a href="#least_squares-87"><span class="linenos"> 87</span></a>
-</span><span id="least_squares-88"><a href="#least_squares-88"><span class="linenos"> 88</span></a><span class="sd">        It is important that all numpy functions refer to autograd.numpy, otherwise the differentiation</span>
-</span><span id="least_squares-89"><a href="#least_squares-89"><span class="linenos"> 89</span></a><span class="sd">        will not work.</span>
-</span><span id="least_squares-90"><a href="#least_squares-90"><span class="linenos"> 90</span></a><span class="sd">    priors : list, optional</span>
-</span><span id="least_squares-91"><a href="#least_squares-91"><span class="linenos"> 91</span></a><span class="sd">        priors has to be a list with an entry for every parameter in the fit. The entries can either be</span>
-</span><span id="least_squares-92"><a href="#least_squares-92"><span class="linenos"> 92</span></a><span class="sd">        Obs (e.g. results from a previous fit) or strings containing a value and an error formatted like</span>
-</span><span id="least_squares-93"><a href="#least_squares-93"><span class="linenos"> 93</span></a><span class="sd">        0.548(23), 500(40) or 0.5(0.4)</span>
-</span><span id="least_squares-94"><a href="#least_squares-94"><span class="linenos"> 94</span></a><span class="sd">    silent : bool, optional</span>
-</span><span id="least_squares-95"><a href="#least_squares-95"><span class="linenos"> 95</span></a><span class="sd">        If true all output to the console is omitted (default False).</span>
-</span><span id="least_squares-96"><a href="#least_squares-96"><span class="linenos"> 96</span></a><span class="sd">    initial_guess : list</span>
-</span><span id="least_squares-97"><a href="#least_squares-97"><span class="linenos"> 97</span></a><span class="sd">        can provide an initial guess for the input parameters. Relevant for</span>
-</span><span id="least_squares-98"><a href="#least_squares-98"><span class="linenos"> 98</span></a><span class="sd">        non-linear fits with many parameters.</span>
-</span><span id="least_squares-99"><a href="#least_squares-99"><span class="linenos"> 99</span></a><span class="sd">    method : str, optional</span>
-</span><span id="least_squares-100"><a href="#least_squares-100"><span class="linenos">100</span></a><span class="sd">        can be used to choose an alternative method for the minimization of chisquare.</span>
-</span><span id="least_squares-101"><a href="#least_squares-101"><span class="linenos">101</span></a><span class="sd">        The possible methods are the ones which can be used for scipy.optimize.minimize and</span>
-</span><span id="least_squares-102"><a href="#least_squares-102"><span class="linenos">102</span></a><span class="sd">        migrad of iminuit. If no method is specified, Levenberg-Marquard is used.</span>
-</span><span id="least_squares-103"><a href="#least_squares-103"><span class="linenos">103</span></a><span class="sd">        Reliable alternatives are migrad, Powell and Nelder-Mead.</span>
-</span><span id="least_squares-104"><a href="#least_squares-104"><span class="linenos">104</span></a><span class="sd">    correlated_fit : bool</span>
-</span><span id="least_squares-105"><a href="#least_squares-105"><span class="linenos">105</span></a><span class="sd">        If True, use the full inverse covariance matrix in the definition of the chisquare cost function.</span>
-</span><span id="least_squares-106"><a href="#least_squares-106"><span class="linenos">106</span></a><span class="sd">        For details about how the covariance matrix is estimated see `pyerrors.obs.covariance`.</span>
-</span><span id="least_squares-107"><a href="#least_squares-107"><span class="linenos">107</span></a><span class="sd">        In practice the correlation matrix is Cholesky decomposed and inverted (instead of the covariance matrix).</span>
-</span><span id="least_squares-108"><a href="#least_squares-108"><span class="linenos">108</span></a><span class="sd">        This procedure should be numerically more stable as the correlation matrix is typically better conditioned (Jacobi preconditioning).</span>
-</span><span id="least_squares-109"><a href="#least_squares-109"><span class="linenos">109</span></a><span class="sd">        At the moment this option only works for `prior==None` and when no `method` is given.</span>
-</span><span id="least_squares-110"><a href="#least_squares-110"><span class="linenos">110</span></a><span class="sd">    expected_chisquare : bool</span>
-</span><span id="least_squares-111"><a href="#least_squares-111"><span class="linenos">111</span></a><span class="sd">        If True estimates the expected chisquare which is</span>
-</span><span id="least_squares-112"><a href="#least_squares-112"><span class="linenos">112</span></a><span class="sd">        corrected by effects caused by correlated input data (default False).</span>
-</span><span id="least_squares-113"><a href="#least_squares-113"><span class="linenos">113</span></a><span class="sd">    resplot : bool</span>
-</span><span id="least_squares-114"><a href="#least_squares-114"><span class="linenos">114</span></a><span class="sd">        If True, a plot which displays fit, data and residuals is generated (default False).</span>
-</span><span id="least_squares-115"><a href="#least_squares-115"><span class="linenos">115</span></a><span class="sd">    qqplot : bool</span>
-</span><span id="least_squares-116"><a href="#least_squares-116"><span class="linenos">116</span></a><span class="sd">        If True, a quantile-quantile plot of the fit result is generated (default False).</span>
-</span><span id="least_squares-117"><a href="#least_squares-117"><span class="linenos">117</span></a><span class="sd">    &#39;&#39;&#39;</span>
-</span><span id="least_squares-118"><a href="#least_squares-118"><span class="linenos">118</span></a>    <span class="k">if</span> <span class="n">priors</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="least_squares-119"><a href="#least_squares-119"><span class="linenos">119</span></a>        <span class="k">return</span> <span class="n">_prior_fit</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">priors</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="least_squares-120"><a href="#least_squares-120"><span class="linenos">120</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="least_squares-121"><a href="#least_squares-121"><span class="linenos">121</span></a>        <span class="k">return</span> <span class="n">_standard_fit</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+    <a class="headerlink" href="#least_squares"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="least_squares-62"><a href="#least_squares-62"><span class="linenos"> 62</span></a><span class="k">def</span> <span class="nf">least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">priors</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="least_squares-63"><a href="#least_squares-63"><span class="linenos"> 63</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Performs a non-linear fit to y = func(x).</span>
+</span><span id="least_squares-64"><a href="#least_squares-64"><span class="linenos"> 64</span></a>
+</span><span id="least_squares-65"><a href="#least_squares-65"><span class="linenos"> 65</span></a><span class="sd">    Parameters</span>
+</span><span id="least_squares-66"><a href="#least_squares-66"><span class="linenos"> 66</span></a><span class="sd">    ----------</span>
+</span><span id="least_squares-67"><a href="#least_squares-67"><span class="linenos"> 67</span></a><span class="sd">    x : list</span>
+</span><span id="least_squares-68"><a href="#least_squares-68"><span class="linenos"> 68</span></a><span class="sd">        list of floats.</span>
+</span><span id="least_squares-69"><a href="#least_squares-69"><span class="linenos"> 69</span></a><span class="sd">    y : list</span>
+</span><span id="least_squares-70"><a href="#least_squares-70"><span class="linenos"> 70</span></a><span class="sd">        list of Obs.</span>
+</span><span id="least_squares-71"><a href="#least_squares-71"><span class="linenos"> 71</span></a><span class="sd">    func : object</span>
+</span><span id="least_squares-72"><a href="#least_squares-72"><span class="linenos"> 72</span></a><span class="sd">        fit function, has to be of the form</span>
+</span><span id="least_squares-73"><a href="#least_squares-73"><span class="linenos"> 73</span></a>
+</span><span id="least_squares-74"><a href="#least_squares-74"><span class="linenos"> 74</span></a><span class="sd">        ```python</span>
+</span><span id="least_squares-75"><a href="#least_squares-75"><span class="linenos"> 75</span></a><span class="sd">        import autograd.numpy as anp</span>
+</span><span id="least_squares-76"><a href="#least_squares-76"><span class="linenos"> 76</span></a>
+</span><span id="least_squares-77"><a href="#least_squares-77"><span class="linenos"> 77</span></a><span class="sd">        def func(a, x):</span>
+</span><span id="least_squares-78"><a href="#least_squares-78"><span class="linenos"> 78</span></a><span class="sd">            return a[0] + a[1] * x + a[2] * anp.sinh(x)</span>
+</span><span id="least_squares-79"><a href="#least_squares-79"><span class="linenos"> 79</span></a><span class="sd">        ```</span>
+</span><span id="least_squares-80"><a href="#least_squares-80"><span class="linenos"> 80</span></a>
+</span><span id="least_squares-81"><a href="#least_squares-81"><span class="linenos"> 81</span></a><span class="sd">        For multiple x values func can be of the form</span>
+</span><span id="least_squares-82"><a href="#least_squares-82"><span class="linenos"> 82</span></a>
+</span><span id="least_squares-83"><a href="#least_squares-83"><span class="linenos"> 83</span></a><span class="sd">        ```python</span>
+</span><span id="least_squares-84"><a href="#least_squares-84"><span class="linenos"> 84</span></a><span class="sd">        def func(a, x):</span>
+</span><span id="least_squares-85"><a href="#least_squares-85"><span class="linenos"> 85</span></a><span class="sd">            (x1, x2) = x</span>
+</span><span id="least_squares-86"><a href="#least_squares-86"><span class="linenos"> 86</span></a><span class="sd">            return a[0] * x1 ** 2 + a[1] * x2</span>
+</span><span id="least_squares-87"><a href="#least_squares-87"><span class="linenos"> 87</span></a><span class="sd">        ```</span>
+</span><span id="least_squares-88"><a href="#least_squares-88"><span class="linenos"> 88</span></a>
+</span><span id="least_squares-89"><a href="#least_squares-89"><span class="linenos"> 89</span></a><span class="sd">        It is important that all numpy functions refer to autograd.numpy, otherwise the differentiation</span>
+</span><span id="least_squares-90"><a href="#least_squares-90"><span class="linenos"> 90</span></a><span class="sd">        will not work.</span>
+</span><span id="least_squares-91"><a href="#least_squares-91"><span class="linenos"> 91</span></a><span class="sd">    priors : list, optional</span>
+</span><span id="least_squares-92"><a href="#least_squares-92"><span class="linenos"> 92</span></a><span class="sd">        priors has to be a list with an entry for every parameter in the fit. The entries can either be</span>
+</span><span id="least_squares-93"><a href="#least_squares-93"><span class="linenos"> 93</span></a><span class="sd">        Obs (e.g. results from a previous fit) or strings containing a value and an error formatted like</span>
+</span><span id="least_squares-94"><a href="#least_squares-94"><span class="linenos"> 94</span></a><span class="sd">        0.548(23), 500(40) or 0.5(0.4)</span>
+</span><span id="least_squares-95"><a href="#least_squares-95"><span class="linenos"> 95</span></a><span class="sd">    silent : bool, optional</span>
+</span><span id="least_squares-96"><a href="#least_squares-96"><span class="linenos"> 96</span></a><span class="sd">        If true all output to the console is omitted (default False).</span>
+</span><span id="least_squares-97"><a href="#least_squares-97"><span class="linenos"> 97</span></a><span class="sd">    initial_guess : list</span>
+</span><span id="least_squares-98"><a href="#least_squares-98"><span class="linenos"> 98</span></a><span class="sd">        can provide an initial guess for the input parameters. Relevant for</span>
+</span><span id="least_squares-99"><a href="#least_squares-99"><span class="linenos"> 99</span></a><span class="sd">        non-linear fits with many parameters.</span>
+</span><span id="least_squares-100"><a href="#least_squares-100"><span class="linenos">100</span></a><span class="sd">    method : str, optional</span>
+</span><span id="least_squares-101"><a href="#least_squares-101"><span class="linenos">101</span></a><span class="sd">        can be used to choose an alternative method for the minimization of chisquare.</span>
+</span><span id="least_squares-102"><a href="#least_squares-102"><span class="linenos">102</span></a><span class="sd">        The possible methods are the ones which can be used for scipy.optimize.minimize and</span>
+</span><span id="least_squares-103"><a href="#least_squares-103"><span class="linenos">103</span></a><span class="sd">        migrad of iminuit. If no method is specified, Levenberg-Marquard is used.</span>
+</span><span id="least_squares-104"><a href="#least_squares-104"><span class="linenos">104</span></a><span class="sd">        Reliable alternatives are migrad, Powell and Nelder-Mead.</span>
+</span><span id="least_squares-105"><a href="#least_squares-105"><span class="linenos">105</span></a><span class="sd">    correlated_fit : bool</span>
+</span><span id="least_squares-106"><a href="#least_squares-106"><span class="linenos">106</span></a><span class="sd">        If True, use the full inverse covariance matrix in the definition of the chisquare cost function.</span>
+</span><span id="least_squares-107"><a href="#least_squares-107"><span class="linenos">107</span></a><span class="sd">        For details about how the covariance matrix is estimated see `pyerrors.obs.covariance`.</span>
+</span><span id="least_squares-108"><a href="#least_squares-108"><span class="linenos">108</span></a><span class="sd">        In practice the correlation matrix is Cholesky decomposed and inverted (instead of the covariance matrix).</span>
+</span><span id="least_squares-109"><a href="#least_squares-109"><span class="linenos">109</span></a><span class="sd">        This procedure should be numerically more stable as the correlation matrix is typically better conditioned (Jacobi preconditioning).</span>
+</span><span id="least_squares-110"><a href="#least_squares-110"><span class="linenos">110</span></a><span class="sd">        At the moment this option only works for `prior==None` and when no `method` is given.</span>
+</span><span id="least_squares-111"><a href="#least_squares-111"><span class="linenos">111</span></a><span class="sd">    expected_chisquare : bool</span>
+</span><span id="least_squares-112"><a href="#least_squares-112"><span class="linenos">112</span></a><span class="sd">        If True estimates the expected chisquare which is</span>
+</span><span id="least_squares-113"><a href="#least_squares-113"><span class="linenos">113</span></a><span class="sd">        corrected by effects caused by correlated input data (default False).</span>
+</span><span id="least_squares-114"><a href="#least_squares-114"><span class="linenos">114</span></a><span class="sd">    resplot : bool</span>
+</span><span id="least_squares-115"><a href="#least_squares-115"><span class="linenos">115</span></a><span class="sd">        If True, a plot which displays fit, data and residuals is generated (default False).</span>
+</span><span id="least_squares-116"><a href="#least_squares-116"><span class="linenos">116</span></a><span class="sd">    qqplot : bool</span>
+</span><span id="least_squares-117"><a href="#least_squares-117"><span class="linenos">117</span></a><span class="sd">        If True, a quantile-quantile plot of the fit result is generated (default False).</span>
+</span><span id="least_squares-118"><a href="#least_squares-118"><span class="linenos">118</span></a><span class="sd">    &#39;&#39;&#39;</span>
+</span><span id="least_squares-119"><a href="#least_squares-119"><span class="linenos">119</span></a>    <span class="k">if</span> <span class="n">priors</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="least_squares-120"><a href="#least_squares-120"><span class="linenos">120</span></a>        <span class="k">return</span> <span class="n">_prior_fit</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">priors</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="least_squares-121"><a href="#least_squares-121"><span class="linenos">121</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="least_squares-122"><a href="#least_squares-122"><span class="linenos">122</span></a>        <span class="k">return</span> <span class="n">_standard_fit</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="n">silent</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Performs a non-linear fit to y = func(x).</p>
 
@@ -1079,194 +1079,194 @@ If True, a quantile-quantile plot of the fit result is generated (default False)
 
                 </section>
                 <section id="total_least_squares">
-                            <div class="attr function"><a class="headerlink" href="#total_least_squares">#&nbsp;&nbsp</a>
+                            <input id="total_least_squares-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">total_least_squares</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">x</span>, </span><span class="param"><span class="n">y</span>, </span><span class="param"><span class="n">func</span>, </span><span class="param"><span class="n">silent</span><span class="o">=</span><span class="kc">False</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="total_least_squares-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">total_least_squares</span><span class="signature">(x, y, func, silent=False, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="total_least_squares-124"><a href="#total_least_squares-124"><span class="linenos">124</span></a><span class="k">def</span> <span class="nf">total_least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="total_least_squares-125"><a href="#total_least_squares-125"><span class="linenos">125</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Performs a non-linear fit to y = func(x) and returns a list of Obs corresponding to the fit parameters.</span>
-</span><span id="total_least_squares-126"><a href="#total_least_squares-126"><span class="linenos">126</span></a>
-</span><span id="total_least_squares-127"><a href="#total_least_squares-127"><span class="linenos">127</span></a><span class="sd">    Parameters</span>
-</span><span id="total_least_squares-128"><a href="#total_least_squares-128"><span class="linenos">128</span></a><span class="sd">    ----------</span>
-</span><span id="total_least_squares-129"><a href="#total_least_squares-129"><span class="linenos">129</span></a><span class="sd">    x : list</span>
-</span><span id="total_least_squares-130"><a href="#total_least_squares-130"><span class="linenos">130</span></a><span class="sd">        list of Obs, or a tuple of lists of Obs</span>
-</span><span id="total_least_squares-131"><a href="#total_least_squares-131"><span class="linenos">131</span></a><span class="sd">    y : list</span>
-</span><span id="total_least_squares-132"><a href="#total_least_squares-132"><span class="linenos">132</span></a><span class="sd">        list of Obs. The dvalues of the Obs are used as x- and yerror for the fit.</span>
-</span><span id="total_least_squares-133"><a href="#total_least_squares-133"><span class="linenos">133</span></a><span class="sd">    func : object</span>
-</span><span id="total_least_squares-134"><a href="#total_least_squares-134"><span class="linenos">134</span></a><span class="sd">        func has to be of the form</span>
-</span><span id="total_least_squares-135"><a href="#total_least_squares-135"><span class="linenos">135</span></a>
-</span><span id="total_least_squares-136"><a href="#total_least_squares-136"><span class="linenos">136</span></a><span class="sd">        ```python</span>
-</span><span id="total_least_squares-137"><a href="#total_least_squares-137"><span class="linenos">137</span></a><span class="sd">        import autograd.numpy as anp</span>
-</span><span id="total_least_squares-138"><a href="#total_least_squares-138"><span class="linenos">138</span></a>
-</span><span id="total_least_squares-139"><a href="#total_least_squares-139"><span class="linenos">139</span></a><span class="sd">        def func(a, x):</span>
-</span><span id="total_least_squares-140"><a href="#total_least_squares-140"><span class="linenos">140</span></a><span class="sd">            return a[0] + a[1] * x + a[2] * anp.sinh(x)</span>
-</span><span id="total_least_squares-141"><a href="#total_least_squares-141"><span class="linenos">141</span></a><span class="sd">        ```</span>
-</span><span id="total_least_squares-142"><a href="#total_least_squares-142"><span class="linenos">142</span></a>
-</span><span id="total_least_squares-143"><a href="#total_least_squares-143"><span class="linenos">143</span></a><span class="sd">        For multiple x values func can be of the form</span>
-</span><span id="total_least_squares-144"><a href="#total_least_squares-144"><span class="linenos">144</span></a>
-</span><span id="total_least_squares-145"><a href="#total_least_squares-145"><span class="linenos">145</span></a><span class="sd">        ```python</span>
-</span><span id="total_least_squares-146"><a href="#total_least_squares-146"><span class="linenos">146</span></a><span class="sd">        def func(a, x):</span>
-</span><span id="total_least_squares-147"><a href="#total_least_squares-147"><span class="linenos">147</span></a><span class="sd">            (x1, x2) = x</span>
-</span><span id="total_least_squares-148"><a href="#total_least_squares-148"><span class="linenos">148</span></a><span class="sd">            return a[0] * x1 ** 2 + a[1] * x2</span>
-</span><span id="total_least_squares-149"><a href="#total_least_squares-149"><span class="linenos">149</span></a><span class="sd">        ```</span>
-</span><span id="total_least_squares-150"><a href="#total_least_squares-150"><span class="linenos">150</span></a>
-</span><span id="total_least_squares-151"><a href="#total_least_squares-151"><span class="linenos">151</span></a><span class="sd">        It is important that all numpy functions refer to autograd.numpy, otherwise the differentiation</span>
-</span><span id="total_least_squares-152"><a href="#total_least_squares-152"><span class="linenos">152</span></a><span class="sd">        will not work.</span>
-</span><span id="total_least_squares-153"><a href="#total_least_squares-153"><span class="linenos">153</span></a><span class="sd">    silent : bool, optional</span>
-</span><span id="total_least_squares-154"><a href="#total_least_squares-154"><span class="linenos">154</span></a><span class="sd">        If true all output to the console is omitted (default False).</span>
-</span><span id="total_least_squares-155"><a href="#total_least_squares-155"><span class="linenos">155</span></a><span class="sd">    initial_guess : list</span>
-</span><span id="total_least_squares-156"><a href="#total_least_squares-156"><span class="linenos">156</span></a><span class="sd">        can provide an initial guess for the input parameters. Relevant for non-linear</span>
-</span><span id="total_least_squares-157"><a href="#total_least_squares-157"><span class="linenos">157</span></a><span class="sd">        fits with many parameters.</span>
-</span><span id="total_least_squares-158"><a href="#total_least_squares-158"><span class="linenos">158</span></a><span class="sd">    expected_chisquare : bool</span>
-</span><span id="total_least_squares-159"><a href="#total_least_squares-159"><span class="linenos">159</span></a><span class="sd">        If true prints the expected chisquare which is</span>
-</span><span id="total_least_squares-160"><a href="#total_least_squares-160"><span class="linenos">160</span></a><span class="sd">        corrected by effects caused by correlated input data.</span>
-</span><span id="total_least_squares-161"><a href="#total_least_squares-161"><span class="linenos">161</span></a><span class="sd">        This can take a while as the full correlation matrix</span>
-</span><span id="total_least_squares-162"><a href="#total_least_squares-162"><span class="linenos">162</span></a><span class="sd">        has to be calculated (default False).</span>
-</span><span id="total_least_squares-163"><a href="#total_least_squares-163"><span class="linenos">163</span></a>
-</span><span id="total_least_squares-164"><a href="#total_least_squares-164"><span class="linenos">164</span></a><span class="sd">    Notes</span>
-</span><span id="total_least_squares-165"><a href="#total_least_squares-165"><span class="linenos">165</span></a><span class="sd">    -----</span>
-</span><span id="total_least_squares-166"><a href="#total_least_squares-166"><span class="linenos">166</span></a><span class="sd">    Based on the orthogonal distance regression module of scipy</span>
-</span><span id="total_least_squares-167"><a href="#total_least_squares-167"><span class="linenos">167</span></a><span class="sd">    &#39;&#39;&#39;</span>
-</span><span id="total_least_squares-168"><a href="#total_least_squares-168"><span class="linenos">168</span></a>
-</span><span id="total_least_squares-169"><a href="#total_least_squares-169"><span class="linenos">169</span></a>    <span class="n">output</span> <span class="o">=</span> <span class="n">Fit_result</span><span class="p">()</span>
-</span><span id="total_least_squares-170"><a href="#total_least_squares-170"><span class="linenos">170</span></a>
-</span><span id="total_least_squares-171"><a href="#total_least_squares-171"><span class="linenos">171</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_function</span> <span class="o">=</span> <span class="n">func</span>
-</span><span id="total_least_squares-172"><a href="#total_least_squares-172"><span class="linenos">172</span></a>
-</span><span id="total_least_squares-173"><a href="#total_least_squares-173"><span class="linenos">173</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
-</span><span id="total_least_squares-174"><a href="#total_least_squares-174"><span class="linenos">174</span></a>
-</span><span id="total_least_squares-175"><a href="#total_least_squares-175"><span class="linenos">175</span></a>    <span class="n">x_shape</span> <span class="o">=</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span>
-</span><span id="total_least_squares-176"><a href="#total_least_squares-176"><span class="linenos">176</span></a>
-</span><span id="total_least_squares-177"><a href="#total_least_squares-177"><span class="linenos">177</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">callable</span><span class="p">(</span><span class="n">func</span><span class="p">):</span>
-</span><span id="total_least_squares-178"><a href="#total_least_squares-178"><span class="linenos">178</span></a>        <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;func has to be a function.&#39;</span><span class="p">)</span>
-</span><span id="total_least_squares-179"><a href="#total_least_squares-179"><span class="linenos">179</span></a>
-</span><span id="total_least_squares-180"><a href="#total_least_squares-180"><span class="linenos">180</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">25</span><span class="p">):</span>
-</span><span id="total_least_squares-181"><a href="#total_least_squares-181"><span class="linenos">181</span></a>        <span class="k">try</span><span class="p">:</span>
-</span><span id="total_least_squares-182"><a href="#total_least_squares-182"><span class="linenos">182</span></a>            <span class="n">func</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">i</span><span class="p">),</span> <span class="n">x</span><span class="o">.</span><span class="n">T</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="total_least_squares-183"><a href="#total_least_squares-183"><span class="linenos">183</span></a>        <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="total_least_squares-184"><a href="#total_least_squares-184"><span class="linenos">184</span></a>            <span class="k">pass</span>
-</span><span id="total_least_squares-185"><a href="#total_least_squares-185"><span class="linenos">185</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="total_least_squares-186"><a href="#total_least_squares-186"><span class="linenos">186</span></a>            <span class="k">break</span>
-</span><span id="total_least_squares-187"><a href="#total_least_squares-187"><span class="linenos">187</span></a>
-</span><span id="total_least_squares-188"><a href="#total_least_squares-188"><span class="linenos">188</span></a>    <span class="n">n_parms</span> <span class="o">=</span> <span class="n">i</span>
-</span><span id="total_least_squares-189"><a href="#total_least_squares-189"><span class="linenos">189</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="total_least_squares-190"><a href="#total_least_squares-190"><span class="linenos">190</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Fit with&#39;</span><span class="p">,</span> <span class="n">n_parms</span><span class="p">,</span> <span class="s1">&#39;parameter&#39;</span> <span class="o">+</span> <span class="s1">&#39;s&#39;</span> <span class="o">*</span> <span class="p">(</span><span class="n">n_parms</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="total_least_squares-191"><a href="#total_least_squares-191"><span class="linenos">191</span></a>
-</span><span id="total_least_squares-192"><a href="#total_least_squares-192"><span class="linenos">192</span></a>    <span class="n">x_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">value</span><span class="p">)(</span><span class="n">x</span><span class="p">)</span>
-</span><span id="total_least_squares-193"><a href="#total_least_squares-193"><span class="linenos">193</span></a>    <span class="n">dx_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)(</span><span class="n">x</span><span class="p">)</span>
-</span><span id="total_least_squares-194"><a href="#total_least_squares-194"><span class="linenos">194</span></a>    <span class="n">y_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="total_least_squares-195"><a href="#total_least_squares-195"><span class="linenos">195</span></a>    <span class="n">dy_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="total_least_squares-196"><a href="#total_least_squares-196"><span class="linenos">196</span></a>
-</span><span id="total_least_squares-197"><a href="#total_least_squares-197"><span class="linenos">197</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dx_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
-</span><span id="total_least_squares-198"><a href="#total_least_squares-198"><span class="linenos">198</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No x errors available, run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="total_least_squares-199"><a href="#total_least_squares-199"><span class="linenos">199</span></a>
-</span><span id="total_least_squares-200"><a href="#total_least_squares-200"><span class="linenos">200</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dy_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
-</span><span id="total_least_squares-201"><a href="#total_least_squares-201"><span class="linenos">201</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No y errors available, run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="total_least_squares-202"><a href="#total_least_squares-202"><span class="linenos">202</span></a>
-</span><span id="total_least_squares-203"><a href="#total_least_squares-203"><span class="linenos">203</span></a>    <span class="k">if</span> <span class="s1">&#39;initial_guess&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="total_least_squares-204"><a href="#total_least_squares-204"><span class="linenos">204</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;initial_guess&#39;</span><span class="p">)</span>
-</span><span id="total_least_squares-205"><a href="#total_least_squares-205"><span class="linenos">205</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span> <span class="o">!=</span> <span class="n">n_parms</span><span class="p">:</span>
-</span><span id="total_least_squares-206"><a href="#total_least_squares-206"><span class="linenos">206</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Initial guess does not have the correct length: </span><span class="si">%d</span><span class="s1"> vs. </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">),</span> <span class="n">n_parms</span><span class="p">))</span>
-</span><span id="total_least_squares-207"><a href="#total_least_squares-207"><span class="linenos">207</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="total_least_squares-208"><a href="#total_least_squares-208"><span class="linenos">208</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">n_parms</span>
-</span><span id="total_least_squares-209"><a href="#total_least_squares-209"><span class="linenos">209</span></a>
-</span><span id="total_least_squares-210"><a href="#total_least_squares-210"><span class="linenos">210</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="n">RealData</span><span class="p">(</span><span class="n">x_f</span><span class="p">,</span> <span class="n">y_f</span><span class="p">,</span> <span class="n">sx</span><span class="o">=</span><span class="n">dx_f</span><span class="p">,</span> <span class="n">sy</span><span class="o">=</span><span class="n">dy_f</span><span class="p">)</span>
-</span><span id="total_least_squares-211"><a href="#total_least_squares-211"><span class="linenos">211</span></a>    <span class="n">model</span> <span class="o">=</span> <span class="n">Model</span><span class="p">(</span><span class="n">func</span><span class="p">)</span>
-</span><span id="total_least_squares-212"><a href="#total_least_squares-212"><span class="linenos">212</span></a>    <span class="n">odr</span> <span class="o">=</span> <span class="n">ODR</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">model</span><span class="p">,</span> <span class="n">x0</span><span class="p">,</span> <span class="n">partol</span><span class="o">=</span><span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span>
-</span><span id="total_least_squares-213"><a href="#total_least_squares-213"><span class="linenos">213</span></a>    <span class="n">odr</span><span class="o">.</span><span class="n">set_job</span><span class="p">(</span><span class="n">fit_type</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">deriv</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="total_least_squares-214"><a href="#total_least_squares-214"><span class="linenos">214</span></a>    <span class="n">out</span> <span class="o">=</span> <span class="n">odr</span><span class="o">.</span><span class="n">run</span><span class="p">()</span>
-</span><span id="total_least_squares-215"><a href="#total_least_squares-215"><span class="linenos">215</span></a>
-</span><span id="total_least_squares-216"><a href="#total_least_squares-216"><span class="linenos">216</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">residual_variance</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">res_var</span>
-</span><span id="total_least_squares-217"><a href="#total_least_squares-217"><span class="linenos">217</span></a>
-</span><span id="total_least_squares-218"><a href="#total_least_squares-218"><span class="linenos">218</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">method</span> <span class="o">=</span> <span class="s1">&#39;ODR&#39;</span>
-</span><span id="total_least_squares-219"><a href="#total_least_squares-219"><span class="linenos">219</span></a>
-</span><span id="total_least_squares-220"><a href="#total_least_squares-220"><span class="linenos">220</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">message</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">stopreason</span>
-</span><span id="total_least_squares-221"><a href="#total_least_squares-221"><span class="linenos">221</span></a>
-</span><span id="total_least_squares-222"><a href="#total_least_squares-222"><span class="linenos">222</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">xplus</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span>
-</span><span id="total_least_squares-223"><a href="#total_least_squares-223"><span class="linenos">223</span></a>
-</span><span id="total_least_squares-224"><a href="#total_least_squares-224"><span class="linenos">224</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="total_least_squares-225"><a href="#total_least_squares-225"><span class="linenos">225</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Method: ODR&#39;</span><span class="p">)</span>
-</span><span id="total_least_squares-226"><a href="#total_least_squares-226"><span class="linenos">226</span></a>        <span class="nb">print</span><span class="p">(</span><span class="o">*</span><span class="n">out</span><span class="o">.</span><span class="n">stopreason</span><span class="p">)</span>
-</span><span id="total_least_squares-227"><a href="#total_least_squares-227"><span class="linenos">227</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Residual variance:&#39;</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">residual_variance</span><span class="p">)</span>
-</span><span id="total_least_squares-228"><a href="#total_least_squares-228"><span class="linenos">228</span></a>
-</span><span id="total_least_squares-229"><a href="#total_least_squares-229"><span class="linenos">229</span></a>    <span class="k">if</span> <span class="n">out</span><span class="o">.</span><span class="n">info</span> <span class="o">&gt;</span> <span class="mi">3</span><span class="p">:</span>
-</span><span id="total_least_squares-230"><a href="#total_least_squares-230"><span class="linenos">230</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The minimization procedure did not converge.&#39;</span><span class="p">)</span>
-</span><span id="total_least_squares-231"><a href="#total_least_squares-231"><span class="linenos">231</span></a>
-</span><span id="total_least_squares-232"><a href="#total_least_squares-232"><span class="linenos">232</span></a>    <span class="n">m</span> <span class="o">=</span> <span class="n">x_f</span><span class="o">.</span><span class="n">size</span>
-</span><span id="total_least_squares-233"><a href="#total_least_squares-233"><span class="linenos">233</span></a>
-</span><span id="total_least_squares-234"><a href="#total_least_squares-234"><span class="linenos">234</span></a>    <span class="k">def</span> <span class="nf">odr_chisquare</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
-</span><span id="total_least_squares-235"><a href="#total_least_squares-235"><span class="linenos">235</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">p</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span>
-</span><span id="total_least_squares-236"><a href="#total_least_squares-236"><span class="linenos">236</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">x_f</span> <span class="o">-</span> <span class="n">p</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span> <span class="o">/</span> <span class="n">dx_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="total_least_squares-237"><a href="#total_least_squares-237"><span class="linenos">237</span></a>        <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="total_least_squares-238"><a href="#total_least_squares-238"><span class="linenos">238</span></a>
-</span><span id="total_least_squares-239"><a href="#total_least_squares-239"><span class="linenos">239</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;expected_chisquare&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="total_least_squares-240"><a href="#total_least_squares-240"><span class="linenos">240</span></a>        <span class="n">W</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">dy_f</span><span class="o">.</span><span class="n">ravel</span><span class="p">(),</span> <span class="n">dx_f</span><span class="o">.</span><span class="n">ravel</span><span class="p">()))))</span>
-</span><span id="total_least_squares-241"><a href="#total_least_squares-241"><span class="linenos">241</span></a>
-</span><span id="total_least_squares-242"><a href="#total_least_squares-242"><span class="linenos">242</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;covariance&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="total_least_squares-243"><a href="#total_least_squares-243"><span class="linenos">243</span></a>            <span class="n">cov</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;covariance&#39;</span><span class="p">)</span>
-</span><span id="total_least_squares-244"><a href="#total_least_squares-244"><span class="linenos">244</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="total_least_squares-245"><a href="#total_least_squares-245"><span class="linenos">245</span></a>            <span class="n">cov</span> <span class="o">=</span> <span class="n">covariance</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">y</span><span class="p">,</span> <span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span>
-</span><span id="total_least_squares-246"><a href="#total_least_squares-246"><span class="linenos">246</span></a>
-</span><span id="total_least_squares-247"><a href="#total_least_squares-247"><span class="linenos">247</span></a>        <span class="n">number_of_x_parameters</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">m</span> <span class="o">/</span> <span class="n">x_f</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="total_least_squares-248"><a href="#total_least_squares-248"><span class="linenos">248</span></a>
-</span><span id="total_least_squares-249"><a href="#total_least_squares-249"><span class="linenos">249</span></a>        <span class="n">old_jac</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="p">)</span>
-</span><span id="total_least_squares-250"><a href="#total_least_squares-250"><span class="linenos">250</span></a>        <span class="n">fused_row1</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">old_jac</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">number_of_x_parameters</span> <span class="o">*</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">old_jac</span><span class="o">.</span><span class="n">shape</span><span class="p">)]),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)))</span>
-</span><span id="total_least_squares-251"><a href="#total_least_squares-251"><span class="linenos">251</span></a>        <span class="n">fused_row2</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">jacobian</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">:</span> <span class="n">func</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">x</span><span class="p">))(</span><span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_f</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">x_f</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">number_of_x_parameters</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">number_of_x_parameters</span> <span class="o">*</span> <span class="n">old_jac</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">])))</span>
-</span><span id="total_least_squares-252"><a href="#total_least_squares-252"><span class="linenos">252</span></a>        <span class="n">new_jac</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fused_row1</span><span class="p">,</span> <span class="n">fused_row2</span><span class="p">),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="total_least_squares-253"><a href="#total_least_squares-253"><span class="linenos">253</span></a>
-</span><span id="total_least_squares-254"><a href="#total_least_squares-254"><span class="linenos">254</span></a>        <span class="n">A</span> <span class="o">=</span> <span class="n">W</span> <span class="o">@</span> <span class="n">new_jac</span>
-</span><span id="total_least_squares-255"><a href="#total_least_squares-255"><span class="linenos">255</span></a>        <span class="n">P_phi</span> <span class="o">=</span> <span class="n">A</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">A</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">A</span><span class="p">)</span> <span class="o">@</span> <span class="n">A</span><span class="o">.</span><span class="n">T</span>
-</span><span id="total_least_squares-256"><a href="#total_least_squares-256"><span class="linenos">256</span></a>        <span class="n">expected_chisquare</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">trace</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">P_phi</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">-</span> <span class="n">P_phi</span><span class="p">)</span> <span class="o">@</span> <span class="n">W</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">W</span><span class="p">)</span>
-</span><span id="total_least_squares-257"><a href="#total_least_squares-257"><span class="linenos">257</span></a>        <span class="k">if</span> <span class="n">expected_chisquare</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="total_least_squares-258"><a href="#total_least_squares-258"><span class="linenos">258</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Negative expected_chisquare.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="total_least_squares-259"><a href="#total_least_squares-259"><span class="linenos">259</span></a>            <span class="n">expected_chisquare</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">expected_chisquare</span><span class="p">)</span>
-</span><span id="total_least_squares-260"><a href="#total_least_squares-260"><span class="linenos">260</span></a>        <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span> <span class="o">=</span> <span class="n">odr_chisquare</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span> <span class="o">/</span> <span class="n">expected_chisquare</span>
-</span><span id="total_least_squares-261"><a href="#total_least_squares-261"><span class="linenos">261</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
-</span><span id="total_least_squares-262"><a href="#total_least_squares-262"><span class="linenos">262</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;chisquare/expected_chisquare:&#39;</span><span class="p">,</span>
-</span><span id="total_least_squares-263"><a href="#total_least_squares-263"><span class="linenos">263</span></a>                  <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span><span class="p">)</span>
-</span><span id="total_least_squares-264"><a href="#total_least_squares-264"><span class="linenos">264</span></a>
-</span><span id="total_least_squares-265"><a href="#total_least_squares-265"><span class="linenos">265</span></a>    <span class="n">fitp</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">beta</span>
-</span><span id="total_least_squares-266"><a href="#total_least_squares-266"><span class="linenos">266</span></a>    <span class="k">try</span><span class="p">:</span>
-</span><span id="total_least_squares-267"><a href="#total_least_squares-267"><span class="linenos">267</span></a>        <span class="n">hess_inv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">odr_chisquare</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">()))))</span>
-</span><span id="total_least_squares-268"><a href="#total_least_squares-268"><span class="linenos">268</span></a>    <span class="k">except</span> <span class="ne">TypeError</span><span class="p">:</span>
-</span><span id="total_least_squares-269"><a href="#total_least_squares-269"><span class="linenos">269</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It is required to use autograd.numpy instead of numpy within fit functions, see the documentation for details.&quot;</span><span class="p">)</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="total_least_squares-270"><a href="#total_least_squares-270"><span class="linenos">270</span></a>
-</span><span id="total_least_squares-271"><a href="#total_least_squares-271"><span class="linenos">271</span></a>    <span class="k">def</span> <span class="nf">odr_chisquare_compact_x</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="total_least_squares-272"><a href="#total_least_squares-272"><span class="linenos">272</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span>
-</span><span id="total_least_squares-273"><a href="#total_least_squares-273"><span class="linenos">273</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">)</span> <span class="o">-</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span> <span class="o">/</span> <span class="n">dx_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="total_least_squares-274"><a href="#total_least_squares-274"><span class="linenos">274</span></a>        <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="total_least_squares-275"><a href="#total_least_squares-275"><span class="linenos">275</span></a>
-</span><span id="total_least_squares-276"><a href="#total_least_squares-276"><span class="linenos">276</span></a>    <span class="n">jac_jac_x</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">odr_chisquare_compact_x</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">(),</span> <span class="n">x_f</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span>
-</span><span id="total_least_squares-277"><a href="#total_least_squares-277"><span class="linenos">277</span></a>
-</span><span id="total_least_squares-278"><a href="#total_least_squares-278"><span class="linenos">278</span></a>    <span class="n">deriv_x</span> <span class="o">=</span> <span class="o">-</span><span class="n">hess_inv</span> <span class="o">@</span> <span class="n">jac_jac_x</span><span class="p">[:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">,</span> <span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span>
-</span><span id="total_least_squares-279"><a href="#total_least_squares-279"><span class="linenos">279</span></a>
-</span><span id="total_least_squares-280"><a href="#total_least_squares-280"><span class="linenos">280</span></a>    <span class="k">def</span> <span class="nf">odr_chisquare_compact_y</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="total_least_squares-281"><a href="#total_least_squares-281"><span class="linenos">281</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span>
-</span><span id="total_least_squares-282"><a href="#total_least_squares-282"><span class="linenos">282</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">x_f</span> <span class="o">-</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span> <span class="o">/</span> <span class="n">dx_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="total_least_squares-283"><a href="#total_least_squares-283"><span class="linenos">283</span></a>        <span class="k">return</span> <span class="n">chisq</span>
-</span><span id="total_least_squares-284"><a href="#total_least_squares-284"><span class="linenos">284</span></a>
-</span><span id="total_least_squares-285"><a href="#total_least_squares-285"><span class="linenos">285</span></a>    <span class="n">jac_jac_y</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">odr_chisquare_compact_y</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">(),</span> <span class="n">y_f</span><span class="p">)))</span>
-</span><span id="total_least_squares-286"><a href="#total_least_squares-286"><span class="linenos">286</span></a>
-</span><span id="total_least_squares-287"><a href="#total_least_squares-287"><span class="linenos">287</span></a>    <span class="n">deriv_y</span> <span class="o">=</span> <span class="o">-</span><span class="n">hess_inv</span> <span class="o">@</span> <span class="n">jac_jac_y</span><span class="p">[:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">,</span> <span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span>
-</span><span id="total_least_squares-288"><a href="#total_least_squares-288"><span class="linenos">288</span></a>
-</span><span id="total_least_squares-289"><a href="#total_least_squares-289"><span class="linenos">289</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="total_least_squares-290"><a href="#total_least_squares-290"><span class="linenos">290</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">n_parms</span><span class="p">):</span>
-</span><span id="total_least_squares-291"><a href="#total_least_squares-291"><span class="linenos">291</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">my_var</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="p">(</span><span class="n">my_var</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">()[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">*</span> <span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">())</span> <span class="o">+</span> <span class="nb">list</span><span class="p">(</span><span class="n">y</span><span class="p">),</span> <span class="n">man_grad</span><span class="o">=</span><span class="nb">list</span><span class="p">(</span><span class="n">deriv_x</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">+</span> <span class="nb">list</span><span class="p">(</span><span class="n">deriv_y</span><span class="p">[</span><span class="n">i</span><span class="p">])))</span>
-</span><span id="total_least_squares-292"><a href="#total_least_squares-292"><span class="linenos">292</span></a>
-</span><span id="total_least_squares-293"><a href="#total_least_squares-293"><span class="linenos">293</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="n">result</span>
-</span><span id="total_least_squares-294"><a href="#total_least_squares-294"><span class="linenos">294</span></a>
-</span><span id="total_least_squares-295"><a href="#total_least_squares-295"><span class="linenos">295</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">odr_chisquare</span> <span class="o">=</span> <span class="n">odr_chisquare</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span>
-</span><span id="total_least_squares-296"><a href="#total_least_squares-296"><span class="linenos">296</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">dof</span> <span class="o">=</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">n_parms</span>
-</span><span id="total_least_squares-297"><a href="#total_least_squares-297"><span class="linenos">297</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">p_value</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">-</span> <span class="n">chi2</span><span class="o">.</span><span class="n">cdf</span><span class="p">(</span><span class="n">output</span><span class="o">.</span><span class="n">odr_chisquare</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">dof</span><span class="p">)</span>
-</span><span id="total_least_squares-298"><a href="#total_least_squares-298"><span class="linenos">298</span></a>
-</span><span id="total_least_squares-299"><a href="#total_least_squares-299"><span class="linenos">299</span></a>    <span class="k">return</span> <span class="n">output</span>
+    <a class="headerlink" href="#total_least_squares"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="total_least_squares-125"><a href="#total_least_squares-125"><span class="linenos">125</span></a><span class="k">def</span> <span class="nf">total_least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">silent</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="total_least_squares-126"><a href="#total_least_squares-126"><span class="linenos">126</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Performs a non-linear fit to y = func(x) and returns a list of Obs corresponding to the fit parameters.</span>
+</span><span id="total_least_squares-127"><a href="#total_least_squares-127"><span class="linenos">127</span></a>
+</span><span id="total_least_squares-128"><a href="#total_least_squares-128"><span class="linenos">128</span></a><span class="sd">    Parameters</span>
+</span><span id="total_least_squares-129"><a href="#total_least_squares-129"><span class="linenos">129</span></a><span class="sd">    ----------</span>
+</span><span id="total_least_squares-130"><a href="#total_least_squares-130"><span class="linenos">130</span></a><span class="sd">    x : list</span>
+</span><span id="total_least_squares-131"><a href="#total_least_squares-131"><span class="linenos">131</span></a><span class="sd">        list of Obs, or a tuple of lists of Obs</span>
+</span><span id="total_least_squares-132"><a href="#total_least_squares-132"><span class="linenos">132</span></a><span class="sd">    y : list</span>
+</span><span id="total_least_squares-133"><a href="#total_least_squares-133"><span class="linenos">133</span></a><span class="sd">        list of Obs. The dvalues of the Obs are used as x- and yerror for the fit.</span>
+</span><span id="total_least_squares-134"><a href="#total_least_squares-134"><span class="linenos">134</span></a><span class="sd">    func : object</span>
+</span><span id="total_least_squares-135"><a href="#total_least_squares-135"><span class="linenos">135</span></a><span class="sd">        func has to be of the form</span>
+</span><span id="total_least_squares-136"><a href="#total_least_squares-136"><span class="linenos">136</span></a>
+</span><span id="total_least_squares-137"><a href="#total_least_squares-137"><span class="linenos">137</span></a><span class="sd">        ```python</span>
+</span><span id="total_least_squares-138"><a href="#total_least_squares-138"><span class="linenos">138</span></a><span class="sd">        import autograd.numpy as anp</span>
+</span><span id="total_least_squares-139"><a href="#total_least_squares-139"><span class="linenos">139</span></a>
+</span><span id="total_least_squares-140"><a href="#total_least_squares-140"><span class="linenos">140</span></a><span class="sd">        def func(a, x):</span>
+</span><span id="total_least_squares-141"><a href="#total_least_squares-141"><span class="linenos">141</span></a><span class="sd">            return a[0] + a[1] * x + a[2] * anp.sinh(x)</span>
+</span><span id="total_least_squares-142"><a href="#total_least_squares-142"><span class="linenos">142</span></a><span class="sd">        ```</span>
+</span><span id="total_least_squares-143"><a href="#total_least_squares-143"><span class="linenos">143</span></a>
+</span><span id="total_least_squares-144"><a href="#total_least_squares-144"><span class="linenos">144</span></a><span class="sd">        For multiple x values func can be of the form</span>
+</span><span id="total_least_squares-145"><a href="#total_least_squares-145"><span class="linenos">145</span></a>
+</span><span id="total_least_squares-146"><a href="#total_least_squares-146"><span class="linenos">146</span></a><span class="sd">        ```python</span>
+</span><span id="total_least_squares-147"><a href="#total_least_squares-147"><span class="linenos">147</span></a><span class="sd">        def func(a, x):</span>
+</span><span id="total_least_squares-148"><a href="#total_least_squares-148"><span class="linenos">148</span></a><span class="sd">            (x1, x2) = x</span>
+</span><span id="total_least_squares-149"><a href="#total_least_squares-149"><span class="linenos">149</span></a><span class="sd">            return a[0] * x1 ** 2 + a[1] * x2</span>
+</span><span id="total_least_squares-150"><a href="#total_least_squares-150"><span class="linenos">150</span></a><span class="sd">        ```</span>
+</span><span id="total_least_squares-151"><a href="#total_least_squares-151"><span class="linenos">151</span></a>
+</span><span id="total_least_squares-152"><a href="#total_least_squares-152"><span class="linenos">152</span></a><span class="sd">        It is important that all numpy functions refer to autograd.numpy, otherwise the differentiation</span>
+</span><span id="total_least_squares-153"><a href="#total_least_squares-153"><span class="linenos">153</span></a><span class="sd">        will not work.</span>
+</span><span id="total_least_squares-154"><a href="#total_least_squares-154"><span class="linenos">154</span></a><span class="sd">    silent : bool, optional</span>
+</span><span id="total_least_squares-155"><a href="#total_least_squares-155"><span class="linenos">155</span></a><span class="sd">        If true all output to the console is omitted (default False).</span>
+</span><span id="total_least_squares-156"><a href="#total_least_squares-156"><span class="linenos">156</span></a><span class="sd">    initial_guess : list</span>
+</span><span id="total_least_squares-157"><a href="#total_least_squares-157"><span class="linenos">157</span></a><span class="sd">        can provide an initial guess for the input parameters. Relevant for non-linear</span>
+</span><span id="total_least_squares-158"><a href="#total_least_squares-158"><span class="linenos">158</span></a><span class="sd">        fits with many parameters.</span>
+</span><span id="total_least_squares-159"><a href="#total_least_squares-159"><span class="linenos">159</span></a><span class="sd">    expected_chisquare : bool</span>
+</span><span id="total_least_squares-160"><a href="#total_least_squares-160"><span class="linenos">160</span></a><span class="sd">        If true prints the expected chisquare which is</span>
+</span><span id="total_least_squares-161"><a href="#total_least_squares-161"><span class="linenos">161</span></a><span class="sd">        corrected by effects caused by correlated input data.</span>
+</span><span id="total_least_squares-162"><a href="#total_least_squares-162"><span class="linenos">162</span></a><span class="sd">        This can take a while as the full correlation matrix</span>
+</span><span id="total_least_squares-163"><a href="#total_least_squares-163"><span class="linenos">163</span></a><span class="sd">        has to be calculated (default False).</span>
+</span><span id="total_least_squares-164"><a href="#total_least_squares-164"><span class="linenos">164</span></a>
+</span><span id="total_least_squares-165"><a href="#total_least_squares-165"><span class="linenos">165</span></a><span class="sd">    Notes</span>
+</span><span id="total_least_squares-166"><a href="#total_least_squares-166"><span class="linenos">166</span></a><span class="sd">    -----</span>
+</span><span id="total_least_squares-167"><a href="#total_least_squares-167"><span class="linenos">167</span></a><span class="sd">    Based on the orthogonal distance regression module of scipy</span>
+</span><span id="total_least_squares-168"><a href="#total_least_squares-168"><span class="linenos">168</span></a><span class="sd">    &#39;&#39;&#39;</span>
+</span><span id="total_least_squares-169"><a href="#total_least_squares-169"><span class="linenos">169</span></a>
+</span><span id="total_least_squares-170"><a href="#total_least_squares-170"><span class="linenos">170</span></a>    <span class="n">output</span> <span class="o">=</span> <span class="n">Fit_result</span><span class="p">()</span>
+</span><span id="total_least_squares-171"><a href="#total_least_squares-171"><span class="linenos">171</span></a>
+</span><span id="total_least_squares-172"><a href="#total_least_squares-172"><span class="linenos">172</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_function</span> <span class="o">=</span> <span class="n">func</span>
+</span><span id="total_least_squares-173"><a href="#total_least_squares-173"><span class="linenos">173</span></a>
+</span><span id="total_least_squares-174"><a href="#total_least_squares-174"><span class="linenos">174</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
+</span><span id="total_least_squares-175"><a href="#total_least_squares-175"><span class="linenos">175</span></a>
+</span><span id="total_least_squares-176"><a href="#total_least_squares-176"><span class="linenos">176</span></a>    <span class="n">x_shape</span> <span class="o">=</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span>
+</span><span id="total_least_squares-177"><a href="#total_least_squares-177"><span class="linenos">177</span></a>
+</span><span id="total_least_squares-178"><a href="#total_least_squares-178"><span class="linenos">178</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">callable</span><span class="p">(</span><span class="n">func</span><span class="p">):</span>
+</span><span id="total_least_squares-179"><a href="#total_least_squares-179"><span class="linenos">179</span></a>        <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;func has to be a function.&#39;</span><span class="p">)</span>
+</span><span id="total_least_squares-180"><a href="#total_least_squares-180"><span class="linenos">180</span></a>
+</span><span id="total_least_squares-181"><a href="#total_least_squares-181"><span class="linenos">181</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">25</span><span class="p">):</span>
+</span><span id="total_least_squares-182"><a href="#total_least_squares-182"><span class="linenos">182</span></a>        <span class="k">try</span><span class="p">:</span>
+</span><span id="total_least_squares-183"><a href="#total_least_squares-183"><span class="linenos">183</span></a>            <span class="n">func</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">i</span><span class="p">),</span> <span class="n">x</span><span class="o">.</span><span class="n">T</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="total_least_squares-184"><a href="#total_least_squares-184"><span class="linenos">184</span></a>        <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="total_least_squares-185"><a href="#total_least_squares-185"><span class="linenos">185</span></a>            <span class="k">pass</span>
+</span><span id="total_least_squares-186"><a href="#total_least_squares-186"><span class="linenos">186</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="total_least_squares-187"><a href="#total_least_squares-187"><span class="linenos">187</span></a>            <span class="k">break</span>
+</span><span id="total_least_squares-188"><a href="#total_least_squares-188"><span class="linenos">188</span></a>
+</span><span id="total_least_squares-189"><a href="#total_least_squares-189"><span class="linenos">189</span></a>    <span class="n">n_parms</span> <span class="o">=</span> <span class="n">i</span>
+</span><span id="total_least_squares-190"><a href="#total_least_squares-190"><span class="linenos">190</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="total_least_squares-191"><a href="#total_least_squares-191"><span class="linenos">191</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Fit with&#39;</span><span class="p">,</span> <span class="n">n_parms</span><span class="p">,</span> <span class="s1">&#39;parameter&#39;</span> <span class="o">+</span> <span class="s1">&#39;s&#39;</span> <span class="o">*</span> <span class="p">(</span><span class="n">n_parms</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="total_least_squares-192"><a href="#total_least_squares-192"><span class="linenos">192</span></a>
+</span><span id="total_least_squares-193"><a href="#total_least_squares-193"><span class="linenos">193</span></a>    <span class="n">x_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">value</span><span class="p">)(</span><span class="n">x</span><span class="p">)</span>
+</span><span id="total_least_squares-194"><a href="#total_least_squares-194"><span class="linenos">194</span></a>    <span class="n">dx_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)(</span><span class="n">x</span><span class="p">)</span>
+</span><span id="total_least_squares-195"><a href="#total_least_squares-195"><span class="linenos">195</span></a>    <span class="n">y_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="total_least_squares-196"><a href="#total_least_squares-196"><span class="linenos">196</span></a>    <span class="n">dy_f</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="total_least_squares-197"><a href="#total_least_squares-197"><span class="linenos">197</span></a>
+</span><span id="total_least_squares-198"><a href="#total_least_squares-198"><span class="linenos">198</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dx_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
+</span><span id="total_least_squares-199"><a href="#total_least_squares-199"><span class="linenos">199</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No x errors available, run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="total_least_squares-200"><a href="#total_least_squares-200"><span class="linenos">200</span></a>
+</span><span id="total_least_squares-201"><a href="#total_least_squares-201"><span class="linenos">201</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">dy_f</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">):</span>
+</span><span id="total_least_squares-202"><a href="#total_least_squares-202"><span class="linenos">202</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No y errors available, run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="total_least_squares-203"><a href="#total_least_squares-203"><span class="linenos">203</span></a>
+</span><span id="total_least_squares-204"><a href="#total_least_squares-204"><span class="linenos">204</span></a>    <span class="k">if</span> <span class="s1">&#39;initial_guess&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="total_least_squares-205"><a href="#total_least_squares-205"><span class="linenos">205</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;initial_guess&#39;</span><span class="p">)</span>
+</span><span id="total_least_squares-206"><a href="#total_least_squares-206"><span class="linenos">206</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">)</span> <span class="o">!=</span> <span class="n">n_parms</span><span class="p">:</span>
+</span><span id="total_least_squares-207"><a href="#total_least_squares-207"><span class="linenos">207</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Initial guess does not have the correct length: </span><span class="si">%d</span><span class="s1"> vs. </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x0</span><span class="p">),</span> <span class="n">n_parms</span><span class="p">))</span>
+</span><span id="total_least_squares-208"><a href="#total_least_squares-208"><span class="linenos">208</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="total_least_squares-209"><a href="#total_least_squares-209"><span class="linenos">209</span></a>        <span class="n">x0</span> <span class="o">=</span> <span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">n_parms</span>
+</span><span id="total_least_squares-210"><a href="#total_least_squares-210"><span class="linenos">210</span></a>
+</span><span id="total_least_squares-211"><a href="#total_least_squares-211"><span class="linenos">211</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="n">RealData</span><span class="p">(</span><span class="n">x_f</span><span class="p">,</span> <span class="n">y_f</span><span class="p">,</span> <span class="n">sx</span><span class="o">=</span><span class="n">dx_f</span><span class="p">,</span> <span class="n">sy</span><span class="o">=</span><span class="n">dy_f</span><span class="p">)</span>
+</span><span id="total_least_squares-212"><a href="#total_least_squares-212"><span class="linenos">212</span></a>    <span class="n">model</span> <span class="o">=</span> <span class="n">Model</span><span class="p">(</span><span class="n">func</span><span class="p">)</span>
+</span><span id="total_least_squares-213"><a href="#total_least_squares-213"><span class="linenos">213</span></a>    <span class="n">odr</span> <span class="o">=</span> <span class="n">ODR</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">model</span><span class="p">,</span> <span class="n">x0</span><span class="p">,</span> <span class="n">partol</span><span class="o">=</span><span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span>
+</span><span id="total_least_squares-214"><a href="#total_least_squares-214"><span class="linenos">214</span></a>    <span class="n">odr</span><span class="o">.</span><span class="n">set_job</span><span class="p">(</span><span class="n">fit_type</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">deriv</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="total_least_squares-215"><a href="#total_least_squares-215"><span class="linenos">215</span></a>    <span class="n">out</span> <span class="o">=</span> <span class="n">odr</span><span class="o">.</span><span class="n">run</span><span class="p">()</span>
+</span><span id="total_least_squares-216"><a href="#total_least_squares-216"><span class="linenos">216</span></a>
+</span><span id="total_least_squares-217"><a href="#total_least_squares-217"><span class="linenos">217</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">residual_variance</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">res_var</span>
+</span><span id="total_least_squares-218"><a href="#total_least_squares-218"><span class="linenos">218</span></a>
+</span><span id="total_least_squares-219"><a href="#total_least_squares-219"><span class="linenos">219</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">method</span> <span class="o">=</span> <span class="s1">&#39;ODR&#39;</span>
+</span><span id="total_least_squares-220"><a href="#total_least_squares-220"><span class="linenos">220</span></a>
+</span><span id="total_least_squares-221"><a href="#total_least_squares-221"><span class="linenos">221</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">message</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">stopreason</span>
+</span><span id="total_least_squares-222"><a href="#total_least_squares-222"><span class="linenos">222</span></a>
+</span><span id="total_least_squares-223"><a href="#total_least_squares-223"><span class="linenos">223</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">xplus</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span>
+</span><span id="total_least_squares-224"><a href="#total_least_squares-224"><span class="linenos">224</span></a>
+</span><span id="total_least_squares-225"><a href="#total_least_squares-225"><span class="linenos">225</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="total_least_squares-226"><a href="#total_least_squares-226"><span class="linenos">226</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Method: ODR&#39;</span><span class="p">)</span>
+</span><span id="total_least_squares-227"><a href="#total_least_squares-227"><span class="linenos">227</span></a>        <span class="nb">print</span><span class="p">(</span><span class="o">*</span><span class="n">out</span><span class="o">.</span><span class="n">stopreason</span><span class="p">)</span>
+</span><span id="total_least_squares-228"><a href="#total_least_squares-228"><span class="linenos">228</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Residual variance:&#39;</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">residual_variance</span><span class="p">)</span>
+</span><span id="total_least_squares-229"><a href="#total_least_squares-229"><span class="linenos">229</span></a>
+</span><span id="total_least_squares-230"><a href="#total_least_squares-230"><span class="linenos">230</span></a>    <span class="k">if</span> <span class="n">out</span><span class="o">.</span><span class="n">info</span> <span class="o">&gt;</span> <span class="mi">3</span><span class="p">:</span>
+</span><span id="total_least_squares-231"><a href="#total_least_squares-231"><span class="linenos">231</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The minimization procedure did not converge.&#39;</span><span class="p">)</span>
+</span><span id="total_least_squares-232"><a href="#total_least_squares-232"><span class="linenos">232</span></a>
+</span><span id="total_least_squares-233"><a href="#total_least_squares-233"><span class="linenos">233</span></a>    <span class="n">m</span> <span class="o">=</span> <span class="n">x_f</span><span class="o">.</span><span class="n">size</span>
+</span><span id="total_least_squares-234"><a href="#total_least_squares-234"><span class="linenos">234</span></a>
+</span><span id="total_least_squares-235"><a href="#total_least_squares-235"><span class="linenos">235</span></a>    <span class="k">def</span> <span class="nf">odr_chisquare</span><span class="p">(</span><span class="n">p</span><span class="p">):</span>
+</span><span id="total_least_squares-236"><a href="#total_least_squares-236"><span class="linenos">236</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">p</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span>
+</span><span id="total_least_squares-237"><a href="#total_least_squares-237"><span class="linenos">237</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">x_f</span> <span class="o">-</span> <span class="n">p</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span> <span class="o">/</span> <span class="n">dx_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="total_least_squares-238"><a href="#total_least_squares-238"><span class="linenos">238</span></a>        <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="total_least_squares-239"><a href="#total_least_squares-239"><span class="linenos">239</span></a>
+</span><span id="total_least_squares-240"><a href="#total_least_squares-240"><span class="linenos">240</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;expected_chisquare&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="total_least_squares-241"><a href="#total_least_squares-241"><span class="linenos">241</span></a>        <span class="n">W</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">dy_f</span><span class="o">.</span><span class="n">ravel</span><span class="p">(),</span> <span class="n">dx_f</span><span class="o">.</span><span class="n">ravel</span><span class="p">()))))</span>
+</span><span id="total_least_squares-242"><a href="#total_least_squares-242"><span class="linenos">242</span></a>
+</span><span id="total_least_squares-243"><a href="#total_least_squares-243"><span class="linenos">243</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;covariance&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="total_least_squares-244"><a href="#total_least_squares-244"><span class="linenos">244</span></a>            <span class="n">cov</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;covariance&#39;</span><span class="p">)</span>
+</span><span id="total_least_squares-245"><a href="#total_least_squares-245"><span class="linenos">245</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="total_least_squares-246"><a href="#total_least_squares-246"><span class="linenos">246</span></a>            <span class="n">cov</span> <span class="o">=</span> <span class="n">covariance</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">y</span><span class="p">,</span> <span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span>
+</span><span id="total_least_squares-247"><a href="#total_least_squares-247"><span class="linenos">247</span></a>
+</span><span id="total_least_squares-248"><a href="#total_least_squares-248"><span class="linenos">248</span></a>        <span class="n">number_of_x_parameters</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">m</span> <span class="o">/</span> <span class="n">x_f</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="total_least_squares-249"><a href="#total_least_squares-249"><span class="linenos">249</span></a>
+</span><span id="total_least_squares-250"><a href="#total_least_squares-250"><span class="linenos">250</span></a>        <span class="n">old_jac</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="p">)</span>
+</span><span id="total_least_squares-251"><a href="#total_least_squares-251"><span class="linenos">251</span></a>        <span class="n">fused_row1</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">old_jac</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">number_of_x_parameters</span> <span class="o">*</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">old_jac</span><span class="o">.</span><span class="n">shape</span><span class="p">)]),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)))</span>
+</span><span id="total_least_squares-252"><a href="#total_least_squares-252"><span class="linenos">252</span></a>        <span class="n">fused_row2</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">jacobian</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">:</span> <span class="n">func</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">x</span><span class="p">))(</span><span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_f</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">x_f</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">number_of_x_parameters</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">number_of_x_parameters</span> <span class="o">*</span> <span class="n">old_jac</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">])))</span>
+</span><span id="total_least_squares-253"><a href="#total_least_squares-253"><span class="linenos">253</span></a>        <span class="n">new_jac</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fused_row1</span><span class="p">,</span> <span class="n">fused_row2</span><span class="p">),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="total_least_squares-254"><a href="#total_least_squares-254"><span class="linenos">254</span></a>
+</span><span id="total_least_squares-255"><a href="#total_least_squares-255"><span class="linenos">255</span></a>        <span class="n">A</span> <span class="o">=</span> <span class="n">W</span> <span class="o">@</span> <span class="n">new_jac</span>
+</span><span id="total_least_squares-256"><a href="#total_least_squares-256"><span class="linenos">256</span></a>        <span class="n">P_phi</span> <span class="o">=</span> <span class="n">A</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">A</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">A</span><span class="p">)</span> <span class="o">@</span> <span class="n">A</span><span class="o">.</span><span class="n">T</span>
+</span><span id="total_least_squares-257"><a href="#total_least_squares-257"><span class="linenos">257</span></a>        <span class="n">expected_chisquare</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">trace</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">P_phi</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">-</span> <span class="n">P_phi</span><span class="p">)</span> <span class="o">@</span> <span class="n">W</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">W</span><span class="p">)</span>
+</span><span id="total_least_squares-258"><a href="#total_least_squares-258"><span class="linenos">258</span></a>        <span class="k">if</span> <span class="n">expected_chisquare</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="total_least_squares-259"><a href="#total_least_squares-259"><span class="linenos">259</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Negative expected_chisquare.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="total_least_squares-260"><a href="#total_least_squares-260"><span class="linenos">260</span></a>            <span class="n">expected_chisquare</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">expected_chisquare</span><span class="p">)</span>
+</span><span id="total_least_squares-261"><a href="#total_least_squares-261"><span class="linenos">261</span></a>        <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span> <span class="o">=</span> <span class="n">odr_chisquare</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span> <span class="o">/</span> <span class="n">expected_chisquare</span>
+</span><span id="total_least_squares-262"><a href="#total_least_squares-262"><span class="linenos">262</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">silent</span><span class="p">:</span>
+</span><span id="total_least_squares-263"><a href="#total_least_squares-263"><span class="linenos">263</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;chisquare/expected_chisquare:&#39;</span><span class="p">,</span>
+</span><span id="total_least_squares-264"><a href="#total_least_squares-264"><span class="linenos">264</span></a>                  <span class="n">output</span><span class="o">.</span><span class="n">chisquare_by_expected_chisquare</span><span class="p">)</span>
+</span><span id="total_least_squares-265"><a href="#total_least_squares-265"><span class="linenos">265</span></a>
+</span><span id="total_least_squares-266"><a href="#total_least_squares-266"><span class="linenos">266</span></a>    <span class="n">fitp</span> <span class="o">=</span> <span class="n">out</span><span class="o">.</span><span class="n">beta</span>
+</span><span id="total_least_squares-267"><a href="#total_least_squares-267"><span class="linenos">267</span></a>    <span class="k">try</span><span class="p">:</span>
+</span><span id="total_least_squares-268"><a href="#total_least_squares-268"><span class="linenos">268</span></a>        <span class="n">hess_inv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">odr_chisquare</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">()))))</span>
+</span><span id="total_least_squares-269"><a href="#total_least_squares-269"><span class="linenos">269</span></a>    <span class="k">except</span> <span class="ne">TypeError</span><span class="p">:</span>
+</span><span id="total_least_squares-270"><a href="#total_least_squares-270"><span class="linenos">270</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It is required to use autograd.numpy instead of numpy within fit functions, see the documentation for details.&quot;</span><span class="p">)</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="total_least_squares-271"><a href="#total_least_squares-271"><span class="linenos">271</span></a>
+</span><span id="total_least_squares-272"><a href="#total_least_squares-272"><span class="linenos">272</span></a>    <span class="k">def</span> <span class="nf">odr_chisquare_compact_x</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="total_least_squares-273"><a href="#total_least_squares-273"><span class="linenos">273</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span>
+</span><span id="total_least_squares-274"><a href="#total_least_squares-274"><span class="linenos">274</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">y_f</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">)</span> <span class="o">-</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span> <span class="o">/</span> <span class="n">dx_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="total_least_squares-275"><a href="#total_least_squares-275"><span class="linenos">275</span></a>        <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="total_least_squares-276"><a href="#total_least_squares-276"><span class="linenos">276</span></a>
+</span><span id="total_least_squares-277"><a href="#total_least_squares-277"><span class="linenos">277</span></a>    <span class="n">jac_jac_x</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">odr_chisquare_compact_x</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">(),</span> <span class="n">x_f</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span>
+</span><span id="total_least_squares-278"><a href="#total_least_squares-278"><span class="linenos">278</span></a>
+</span><span id="total_least_squares-279"><a href="#total_least_squares-279"><span class="linenos">279</span></a>    <span class="n">deriv_x</span> <span class="o">=</span> <span class="o">-</span><span class="n">hess_inv</span> <span class="o">@</span> <span class="n">jac_jac_x</span><span class="p">[:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">,</span> <span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span>
+</span><span id="total_least_squares-280"><a href="#total_least_squares-280"><span class="linenos">280</span></a>
+</span><span id="total_least_squares-281"><a href="#total_least_squares-281"><span class="linenos">281</span></a>    <span class="k">def</span> <span class="nf">odr_chisquare_compact_y</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="total_least_squares-282"><a href="#total_least_squares-282"><span class="linenos">282</span></a>        <span class="n">model</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">d</span><span class="p">[:</span><span class="n">n_parms</span><span class="p">],</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span>
+</span><span id="total_least_squares-283"><a href="#total_least_squares-283"><span class="linenos">283</span></a>        <span class="n">chisq</span> <span class="o">=</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">d</span><span class="p">[</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span> <span class="o">-</span> <span class="n">model</span><span class="p">)</span> <span class="o">/</span> <span class="n">dy_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="n">anp</span><span class="o">.</span><span class="n">sum</span><span class="p">(((</span><span class="n">x_f</span> <span class="o">-</span> <span class="n">d</span><span class="p">[</span><span class="n">n_parms</span><span class="p">:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">]</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">x_shape</span><span class="p">))</span> <span class="o">/</span> <span class="n">dx_f</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="total_least_squares-284"><a href="#total_least_squares-284"><span class="linenos">284</span></a>        <span class="k">return</span> <span class="n">chisq</span>
+</span><span id="total_least_squares-285"><a href="#total_least_squares-285"><span class="linenos">285</span></a>
+</span><span id="total_least_squares-286"><a href="#total_least_squares-286"><span class="linenos">286</span></a>    <span class="n">jac_jac_y</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">jacobian</span><span class="p">(</span><span class="n">odr_chisquare_compact_y</span><span class="p">))(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">fitp</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">(),</span> <span class="n">y_f</span><span class="p">)))</span>
+</span><span id="total_least_squares-287"><a href="#total_least_squares-287"><span class="linenos">287</span></a>
+</span><span id="total_least_squares-288"><a href="#total_least_squares-288"><span class="linenos">288</span></a>    <span class="n">deriv_y</span> <span class="o">=</span> <span class="o">-</span><span class="n">hess_inv</span> <span class="o">@</span> <span class="n">jac_jac_y</span><span class="p">[:</span><span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">,</span> <span class="n">n_parms</span> <span class="o">+</span> <span class="n">m</span><span class="p">:]</span>
+</span><span id="total_least_squares-289"><a href="#total_least_squares-289"><span class="linenos">289</span></a>
+</span><span id="total_least_squares-290"><a href="#total_least_squares-290"><span class="linenos">290</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="total_least_squares-291"><a href="#total_least_squares-291"><span class="linenos">291</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">n_parms</span><span class="p">):</span>
+</span><span id="total_least_squares-292"><a href="#total_least_squares-292"><span class="linenos">292</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">my_var</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="p">(</span><span class="n">my_var</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">()[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">*</span> <span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">())</span> <span class="o">+</span> <span class="nb">list</span><span class="p">(</span><span class="n">y</span><span class="p">),</span> <span class="n">man_grad</span><span class="o">=</span><span class="nb">list</span><span class="p">(</span><span class="n">deriv_x</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">+</span> <span class="nb">list</span><span class="p">(</span><span class="n">deriv_y</span><span class="p">[</span><span class="n">i</span><span class="p">])))</span>
+</span><span id="total_least_squares-293"><a href="#total_least_squares-293"><span class="linenos">293</span></a>
+</span><span id="total_least_squares-294"><a href="#total_least_squares-294"><span class="linenos">294</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">fit_parameters</span> <span class="o">=</span> <span class="n">result</span>
+</span><span id="total_least_squares-295"><a href="#total_least_squares-295"><span class="linenos">295</span></a>
+</span><span id="total_least_squares-296"><a href="#total_least_squares-296"><span class="linenos">296</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">odr_chisquare</span> <span class="o">=</span> <span class="n">odr_chisquare</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="n">out</span><span class="o">.</span><span class="n">beta</span><span class="p">,</span> <span class="n">out</span><span class="o">.</span><span class="n">xplus</span><span class="o">.</span><span class="n">ravel</span><span class="p">())))</span>
+</span><span id="total_least_squares-297"><a href="#total_least_squares-297"><span class="linenos">297</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">dof</span> <span class="o">=</span> <span class="n">x</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">n_parms</span>
+</span><span id="total_least_squares-298"><a href="#total_least_squares-298"><span class="linenos">298</span></a>    <span class="n">output</span><span class="o">.</span><span class="n">p_value</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">-</span> <span class="n">chi2</span><span class="o">.</span><span class="n">cdf</span><span class="p">(</span><span class="n">output</span><span class="o">.</span><span class="n">odr_chisquare</span><span class="p">,</span> <span class="n">output</span><span class="o">.</span><span class="n">dof</span><span class="p">)</span>
+</span><span id="total_least_squares-299"><a href="#total_least_squares-299"><span class="linenos">299</span></a>
+</span><span id="total_least_squares-300"><a href="#total_least_squares-300"><span class="linenos">300</span></a>    <span class="k">return</span> <span class="n">output</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Performs a non-linear fit to y = func(x) and returns a list of Obs corresponding to the fit parameters.</p>
 
@@ -1315,42 +1315,42 @@ has to be calculated (default False).</li>
 
                 </section>
                 <section id="fit_lin">
-                            <div class="attr function"><a class="headerlink" href="#fit_lin">#&nbsp;&nbsp</a>
+                            <input id="fit_lin-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">fit_lin</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">x</span>, </span><span class="param"><span class="n">y</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="fit_lin-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">fit_lin</span><span class="signature">(x, y, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="fit_lin-584"><a href="#fit_lin-584"><span class="linenos">584</span></a><span class="k">def</span> <span class="nf">fit_lin</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="fit_lin-585"><a href="#fit_lin-585"><span class="linenos">585</span></a>    <span class="sd">&quot;&quot;&quot;Performs a linear fit to y = n + m * x and returns two Obs n, m.</span>
-</span><span id="fit_lin-586"><a href="#fit_lin-586"><span class="linenos">586</span></a>
-</span><span id="fit_lin-587"><a href="#fit_lin-587"><span class="linenos">587</span></a><span class="sd">    Parameters</span>
-</span><span id="fit_lin-588"><a href="#fit_lin-588"><span class="linenos">588</span></a><span class="sd">    ----------</span>
-</span><span id="fit_lin-589"><a href="#fit_lin-589"><span class="linenos">589</span></a><span class="sd">    x : list</span>
-</span><span id="fit_lin-590"><a href="#fit_lin-590"><span class="linenos">590</span></a><span class="sd">        Can either be a list of floats in which case no xerror is assumed, or</span>
-</span><span id="fit_lin-591"><a href="#fit_lin-591"><span class="linenos">591</span></a><span class="sd">        a list of Obs, where the dvalues of the Obs are used as xerror for the fit.</span>
-</span><span id="fit_lin-592"><a href="#fit_lin-592"><span class="linenos">592</span></a><span class="sd">    y : list</span>
-</span><span id="fit_lin-593"><a href="#fit_lin-593"><span class="linenos">593</span></a><span class="sd">        List of Obs, the dvalues of the Obs are used as yerror for the fit.</span>
-</span><span id="fit_lin-594"><a href="#fit_lin-594"><span class="linenos">594</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="fit_lin-595"><a href="#fit_lin-595"><span class="linenos">595</span></a>
-</span><span id="fit_lin-596"><a href="#fit_lin-596"><span class="linenos">596</span></a>    <span class="k">def</span> <span class="nf">f</span><span class="p">(</span><span class="n">a</span><span class="p">,</span> <span class="n">x</span><span class="p">):</span>
-</span><span id="fit_lin-597"><a href="#fit_lin-597"><span class="linenos">597</span></a>        <span class="n">y</span> <span class="o">=</span> <span class="n">a</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">a</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span>
-</span><span id="fit_lin-598"><a href="#fit_lin-598"><span class="linenos">598</span></a>        <span class="k">return</span> <span class="n">y</span>
-</span><span id="fit_lin-599"><a href="#fit_lin-599"><span class="linenos">599</span></a>
-</span><span id="fit_lin-600"><a href="#fit_lin-600"><span class="linenos">600</span></a>    <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">x</span><span class="p">):</span>
-</span><span id="fit_lin-601"><a href="#fit_lin-601"><span class="linenos">601</span></a>        <span class="n">out</span> <span class="o">=</span> <span class="n">total_least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">f</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="fit_lin-602"><a href="#fit_lin-602"><span class="linenos">602</span></a>        <span class="k">return</span> <span class="n">out</span><span class="o">.</span><span class="n">fit_parameters</span>
-</span><span id="fit_lin-603"><a href="#fit_lin-603"><span class="linenos">603</span></a>    <span class="k">elif</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="nb">float</span><span class="p">)</span> <span class="ow">or</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="nb">int</span><span class="p">)</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">x</span><span class="p">)</span> <span class="ow">or</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="fit_lin-604"><a href="#fit_lin-604"><span class="linenos">604</span></a>        <span class="n">out</span> <span class="o">=</span> <span class="n">least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">f</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="fit_lin-605"><a href="#fit_lin-605"><span class="linenos">605</span></a>        <span class="k">return</span> <span class="n">out</span><span class="o">.</span><span class="n">fit_parameters</span>
-</span><span id="fit_lin-606"><a href="#fit_lin-606"><span class="linenos">606</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="fit_lin-607"><a href="#fit_lin-607"><span class="linenos">607</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unsupported types for x&#39;</span><span class="p">)</span>
+    <a class="headerlink" href="#fit_lin"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="fit_lin-585"><a href="#fit_lin-585"><span class="linenos">585</span></a><span class="k">def</span> <span class="nf">fit_lin</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="fit_lin-586"><a href="#fit_lin-586"><span class="linenos">586</span></a>    <span class="sd">&quot;&quot;&quot;Performs a linear fit to y = n + m * x and returns two Obs n, m.</span>
+</span><span id="fit_lin-587"><a href="#fit_lin-587"><span class="linenos">587</span></a>
+</span><span id="fit_lin-588"><a href="#fit_lin-588"><span class="linenos">588</span></a><span class="sd">    Parameters</span>
+</span><span id="fit_lin-589"><a href="#fit_lin-589"><span class="linenos">589</span></a><span class="sd">    ----------</span>
+</span><span id="fit_lin-590"><a href="#fit_lin-590"><span class="linenos">590</span></a><span class="sd">    x : list</span>
+</span><span id="fit_lin-591"><a href="#fit_lin-591"><span class="linenos">591</span></a><span class="sd">        Can either be a list of floats in which case no xerror is assumed, or</span>
+</span><span id="fit_lin-592"><a href="#fit_lin-592"><span class="linenos">592</span></a><span class="sd">        a list of Obs, where the dvalues of the Obs are used as xerror for the fit.</span>
+</span><span id="fit_lin-593"><a href="#fit_lin-593"><span class="linenos">593</span></a><span class="sd">    y : list</span>
+</span><span id="fit_lin-594"><a href="#fit_lin-594"><span class="linenos">594</span></a><span class="sd">        List of Obs, the dvalues of the Obs are used as yerror for the fit.</span>
+</span><span id="fit_lin-595"><a href="#fit_lin-595"><span class="linenos">595</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="fit_lin-596"><a href="#fit_lin-596"><span class="linenos">596</span></a>
+</span><span id="fit_lin-597"><a href="#fit_lin-597"><span class="linenos">597</span></a>    <span class="k">def</span> <span class="nf">f</span><span class="p">(</span><span class="n">a</span><span class="p">,</span> <span class="n">x</span><span class="p">):</span>
+</span><span id="fit_lin-598"><a href="#fit_lin-598"><span class="linenos">598</span></a>        <span class="n">y</span> <span class="o">=</span> <span class="n">a</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">a</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span>
+</span><span id="fit_lin-599"><a href="#fit_lin-599"><span class="linenos">599</span></a>        <span class="k">return</span> <span class="n">y</span>
+</span><span id="fit_lin-600"><a href="#fit_lin-600"><span class="linenos">600</span></a>
+</span><span id="fit_lin-601"><a href="#fit_lin-601"><span class="linenos">601</span></a>    <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">x</span><span class="p">):</span>
+</span><span id="fit_lin-602"><a href="#fit_lin-602"><span class="linenos">602</span></a>        <span class="n">out</span> <span class="o">=</span> <span class="n">total_least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">f</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="fit_lin-603"><a href="#fit_lin-603"><span class="linenos">603</span></a>        <span class="k">return</span> <span class="n">out</span><span class="o">.</span><span class="n">fit_parameters</span>
+</span><span id="fit_lin-604"><a href="#fit_lin-604"><span class="linenos">604</span></a>    <span class="k">elif</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="nb">float</span><span class="p">)</span> <span class="ow">or</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="nb">int</span><span class="p">)</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">x</span><span class="p">)</span> <span class="ow">or</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="fit_lin-605"><a href="#fit_lin-605"><span class="linenos">605</span></a>        <span class="n">out</span> <span class="o">=</span> <span class="n">least_squares</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">f</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="fit_lin-606"><a href="#fit_lin-606"><span class="linenos">606</span></a>        <span class="k">return</span> <span class="n">out</span><span class="o">.</span><span class="n">fit_parameters</span>
+</span><span id="fit_lin-607"><a href="#fit_lin-607"><span class="linenos">607</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="fit_lin-608"><a href="#fit_lin-608"><span class="linenos">608</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unsupported types for x&#39;</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Performs a linear fit to y = n + m * x and returns two Obs n, m.</p>
 
@@ -1368,42 +1368,42 @@ List of Obs, the dvalues of the Obs are used as yerror for the fit.</li>
 
                 </section>
                 <section id="qqplot">
-                            <div class="attr function"><a class="headerlink" href="#qqplot">#&nbsp;&nbsp</a>
+                            <input id="qqplot-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">qqplot</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">x</span>, </span><span class="param"><span class="n">o_y</span>, </span><span class="param"><span class="n">func</span>, </span><span class="param"><span class="n">p</span></span>)</span>
+
+                <label class="view-source-button" for="qqplot-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">qqplot</span><span class="signature">(x, o_y, func, p)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="qqplot-610"><a href="#qqplot-610"><span class="linenos">610</span></a><span class="k">def</span> <span class="nf">qqplot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">o_y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">p</span><span class="p">):</span>
-</span><span id="qqplot-611"><a href="#qqplot-611"><span class="linenos">611</span></a>    <span class="sd">&quot;&quot;&quot;Generates a quantile-quantile plot of the fit result which can be used to</span>
-</span><span id="qqplot-612"><a href="#qqplot-612"><span class="linenos">612</span></a><span class="sd">       check if the residuals of the fit are gaussian distributed.</span>
-</span><span id="qqplot-613"><a href="#qqplot-613"><span class="linenos">613</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="qqplot-614"><a href="#qqplot-614"><span class="linenos">614</span></a>
-</span><span id="qqplot-615"><a href="#qqplot-615"><span class="linenos">615</span></a>    <span class="n">residuals</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="qqplot-616"><a href="#qqplot-616"><span class="linenos">616</span></a>    <span class="k">for</span> <span class="n">i_x</span><span class="p">,</span> <span class="n">i_y</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">o_y</span><span class="p">):</span>
-</span><span id="qqplot-617"><a href="#qqplot-617"><span class="linenos">617</span></a>        <span class="n">residuals</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">i_y</span> <span class="o">-</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">i_x</span><span class="p">))</span> <span class="o">/</span> <span class="n">i_y</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span>
-</span><span id="qqplot-618"><a href="#qqplot-618"><span class="linenos">618</span></a>    <span class="n">residuals</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">residuals</span><span class="p">)</span>
-</span><span id="qqplot-619"><a href="#qqplot-619"><span class="linenos">619</span></a>    <span class="n">my_y</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">residuals</span><span class="p">]</span>
-</span><span id="qqplot-620"><a href="#qqplot-620"><span class="linenos">620</span></a>    <span class="n">probplot</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">stats</span><span class="o">.</span><span class="n">probplot</span><span class="p">(</span><span class="n">my_y</span><span class="p">)</span>
-</span><span id="qqplot-621"><a href="#qqplot-621"><span class="linenos">621</span></a>    <span class="n">my_x</span> <span class="o">=</span> <span class="n">probplot</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="qqplot-622"><a href="#qqplot-622"><span class="linenos">622</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">8</span><span class="p">,</span> <span class="mi">8</span> <span class="o">/</span> <span class="mf">1.618</span><span class="p">))</span>
-</span><span id="qqplot-623"><a href="#qqplot-623"><span class="linenos">623</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">my_x</span><span class="p">,</span> <span class="n">my_y</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">)</span>
-</span><span id="qqplot-624"><a href="#qqplot-624"><span class="linenos">624</span></a>    <span class="n">fit_start</span> <span class="o">=</span> <span class="n">my_x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="qqplot-625"><a href="#qqplot-625"><span class="linenos">625</span></a>    <span class="n">fit_stop</span> <span class="o">=</span> <span class="n">my_x</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="qqplot-626"><a href="#qqplot-626"><span class="linenos">626</span></a>    <span class="n">samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">fit_start</span><span class="p">,</span> <span class="n">fit_stop</span><span class="p">,</span> <span class="mf">0.01</span><span class="p">)</span>
-</span><span id="qqplot-627"><a href="#qqplot-627"><span class="linenos">627</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="s1">&#39;k--&#39;</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">11</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Standard normal distribution&#39;</span><span class="p">)</span>
-</span><span id="qqplot-628"><a href="#qqplot-628"><span class="linenos">628</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">probplot</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">samples</span> <span class="o">+</span> <span class="n">probplot</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">1</span><span class="p">],</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Least squares fit, r=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="n">probplot</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">2</span><span class="p">],</span> <span class="mi">3</span><span class="p">)),</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">)</span>
-</span><span id="qqplot-629"><a href="#qqplot-629"><span class="linenos">629</span></a>
-</span><span id="qqplot-630"><a href="#qqplot-630"><span class="linenos">630</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;Theoretical quantiles&#39;</span><span class="p">)</span>
-</span><span id="qqplot-631"><a href="#qqplot-631"><span class="linenos">631</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;Ordered Values&#39;</span><span class="p">)</span>
-</span><span id="qqplot-632"><a href="#qqplot-632"><span class="linenos">632</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
-</span><span id="qqplot-633"><a href="#qqplot-633"><span class="linenos">633</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+    <a class="headerlink" href="#qqplot"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="qqplot-611"><a href="#qqplot-611"><span class="linenos">611</span></a><span class="k">def</span> <span class="nf">qqplot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">o_y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">p</span><span class="p">):</span>
+</span><span id="qqplot-612"><a href="#qqplot-612"><span class="linenos">612</span></a>    <span class="sd">&quot;&quot;&quot;Generates a quantile-quantile plot of the fit result which can be used to</span>
+</span><span id="qqplot-613"><a href="#qqplot-613"><span class="linenos">613</span></a><span class="sd">       check if the residuals of the fit are gaussian distributed.</span>
+</span><span id="qqplot-614"><a href="#qqplot-614"><span class="linenos">614</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="qqplot-615"><a href="#qqplot-615"><span class="linenos">615</span></a>
+</span><span id="qqplot-616"><a href="#qqplot-616"><span class="linenos">616</span></a>    <span class="n">residuals</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="qqplot-617"><a href="#qqplot-617"><span class="linenos">617</span></a>    <span class="k">for</span> <span class="n">i_x</span><span class="p">,</span> <span class="n">i_y</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">o_y</span><span class="p">):</span>
+</span><span id="qqplot-618"><a href="#qqplot-618"><span class="linenos">618</span></a>        <span class="n">residuals</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">i_y</span> <span class="o">-</span> <span class="n">func</span><span class="p">(</span><span class="n">p</span><span class="p">,</span> <span class="n">i_x</span><span class="p">))</span> <span class="o">/</span> <span class="n">i_y</span><span class="o">.</span><span class="n">dvalue</span><span class="p">)</span>
+</span><span id="qqplot-619"><a href="#qqplot-619"><span class="linenos">619</span></a>    <span class="n">residuals</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">residuals</span><span class="p">)</span>
+</span><span id="qqplot-620"><a href="#qqplot-620"><span class="linenos">620</span></a>    <span class="n">my_y</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">residuals</span><span class="p">]</span>
+</span><span id="qqplot-621"><a href="#qqplot-621"><span class="linenos">621</span></a>    <span class="n">probplot</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">stats</span><span class="o">.</span><span class="n">probplot</span><span class="p">(</span><span class="n">my_y</span><span class="p">)</span>
+</span><span id="qqplot-622"><a href="#qqplot-622"><span class="linenos">622</span></a>    <span class="n">my_x</span> <span class="o">=</span> <span class="n">probplot</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="qqplot-623"><a href="#qqplot-623"><span class="linenos">623</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">8</span><span class="p">,</span> <span class="mi">8</span> <span class="o">/</span> <span class="mf">1.618</span><span class="p">))</span>
+</span><span id="qqplot-624"><a href="#qqplot-624"><span class="linenos">624</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">my_x</span><span class="p">,</span> <span class="n">my_y</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">)</span>
+</span><span id="qqplot-625"><a href="#qqplot-625"><span class="linenos">625</span></a>    <span class="n">fit_start</span> <span class="o">=</span> <span class="n">my_x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="qqplot-626"><a href="#qqplot-626"><span class="linenos">626</span></a>    <span class="n">fit_stop</span> <span class="o">=</span> <span class="n">my_x</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="qqplot-627"><a href="#qqplot-627"><span class="linenos">627</span></a>    <span class="n">samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">fit_start</span><span class="p">,</span> <span class="n">fit_stop</span><span class="p">,</span> <span class="mf">0.01</span><span class="p">)</span>
+</span><span id="qqplot-628"><a href="#qqplot-628"><span class="linenos">628</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="s1">&#39;k--&#39;</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">11</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Standard normal distribution&#39;</span><span class="p">)</span>
+</span><span id="qqplot-629"><a href="#qqplot-629"><span class="linenos">629</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">probplot</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">samples</span> <span class="o">+</span> <span class="n">probplot</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">1</span><span class="p">],</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Least squares fit, r=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="n">probplot</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">2</span><span class="p">],</span> <span class="mi">3</span><span class="p">)),</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">)</span>
+</span><span id="qqplot-630"><a href="#qqplot-630"><span class="linenos">630</span></a>
+</span><span id="qqplot-631"><a href="#qqplot-631"><span class="linenos">631</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;Theoretical quantiles&#39;</span><span class="p">)</span>
+</span><span id="qqplot-632"><a href="#qqplot-632"><span class="linenos">632</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;Ordered Values&#39;</span><span class="p">)</span>
+</span><span id="qqplot-633"><a href="#qqplot-633"><span class="linenos">633</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
+</span><span id="qqplot-634"><a href="#qqplot-634"><span class="linenos">634</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Generates a quantile-quantile plot of the fit result which can be used to
 check if the residuals of the fit are gaussian distributed.</p>
@@ -1412,46 +1412,46 @@ check if the residuals of the fit are gaussian distributed.</p>
 
                 </section>
                 <section id="residual_plot">
-                            <div class="attr function"><a class="headerlink" href="#residual_plot">#&nbsp;&nbsp</a>
+                            <input id="residual_plot-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">residual_plot</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">x</span>, </span><span class="param"><span class="n">y</span>, </span><span class="param"><span class="n">func</span>, </span><span class="param"><span class="n">fit_res</span></span>)</span>
+
+                <label class="view-source-button" for="residual_plot-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">residual_plot</span><span class="signature">(x, y, func, fit_res)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="residual_plot-636"><a href="#residual_plot-636"><span class="linenos">636</span></a><span class="k">def</span> <span class="nf">residual_plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">fit_res</span><span class="p">):</span>
-</span><span id="residual_plot-637"><a href="#residual_plot-637"><span class="linenos">637</span></a>    <span class="sd">&quot;&quot;&quot; Generates a plot which compares the fit to the data and displays the corresponding residuals&quot;&quot;&quot;</span>
-</span><span id="residual_plot-638"><a href="#residual_plot-638"><span class="linenos">638</span></a>    <span class="n">sorted_x</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
-</span><span id="residual_plot-639"><a href="#residual_plot-639"><span class="linenos">639</span></a>    <span class="n">xstart</span> <span class="o">=</span> <span class="n">sorted_x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">sorted_x</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">sorted_x</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="residual_plot-640"><a href="#residual_plot-640"><span class="linenos">640</span></a>    <span class="n">xstop</span> <span class="o">=</span> <span class="n">sorted_x</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">sorted_x</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">sorted_x</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">])</span>
-</span><span id="residual_plot-641"><a href="#residual_plot-641"><span class="linenos">641</span></a>    <span class="n">x_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">xstart</span><span class="p">,</span> <span class="n">xstop</span> <span class="o">+</span> <span class="mf">0.01</span><span class="p">,</span> <span class="mf">0.01</span><span class="p">)</span>
-</span><span id="residual_plot-642"><a href="#residual_plot-642"><span class="linenos">642</span></a>
-</span><span id="residual_plot-643"><a href="#residual_plot-643"><span class="linenos">643</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">8</span><span class="p">,</span> <span class="mi">8</span> <span class="o">/</span> <span class="mf">1.618</span><span class="p">))</span>
-</span><span id="residual_plot-644"><a href="#residual_plot-644"><span class="linenos">644</span></a>    <span class="n">gs</span> <span class="o">=</span> <span class="n">gridspec</span><span class="o">.</span><span class="n">GridSpec</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">height_ratios</span><span class="o">=</span><span class="p">[</span><span class="mi">3</span><span class="p">,</span> <span class="mi">1</span><span class="p">],</span> <span class="n">wspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">)</span>
-</span><span id="residual_plot-645"><a href="#residual_plot-645"><span class="linenos">645</span></a>    <span class="n">ax0</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="residual_plot-646"><a href="#residual_plot-646"><span class="linenos">646</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">],</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">3</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Data&#39;</span><span class="p">)</span>
-</span><span id="residual_plot-647"><a href="#residual_plot-647"><span class="linenos">647</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span> <span class="n">func</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="p">],</span> <span class="n">x_samples</span><span class="p">),</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Fit&#39;</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">ms</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="residual_plot-648"><a href="#residual_plot-648"><span class="linenos">648</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">set_xticklabels</span><span class="p">([])</span>
-</span><span id="residual_plot-649"><a href="#residual_plot-649"><span class="linenos">649</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">xstart</span><span class="p">,</span> <span class="n">xstop</span><span class="p">])</span>
-</span><span id="residual_plot-650"><a href="#residual_plot-650"><span class="linenos">650</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">set_xticklabels</span><span class="p">([])</span>
-</span><span id="residual_plot-651"><a href="#residual_plot-651"><span class="linenos">651</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
-</span><span id="residual_plot-652"><a href="#residual_plot-652"><span class="linenos">652</span></a>
-</span><span id="residual_plot-653"><a href="#residual_plot-653"><span class="linenos">653</span></a>    <span class="n">residuals</span> <span class="o">=</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span> <span class="o">-</span> <span class="n">func</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="p">],</span> <span class="n">x</span><span class="p">))</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="residual_plot-654"><a href="#residual_plot-654"><span class="linenos">654</span></a>    <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="residual_plot-655"><a href="#residual_plot-655"><span class="linenos">655</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">residuals</span><span class="p">,</span> <span class="s1">&#39;ko&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">)</span>
-</span><span id="residual_plot-656"><a href="#residual_plot-656"><span class="linenos">656</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">direction</span><span class="o">=</span><span class="s1">&#39;out&#39;</span><span class="p">)</span>
-</span><span id="residual_plot-657"><a href="#residual_plot-657"><span class="linenos">657</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="s2">&quot;x&quot;</span><span class="p">,</span> <span class="n">bottom</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">labelbottom</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="residual_plot-658"><a href="#residual_plot-658"><span class="linenos">658</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s2">&quot; &quot;</span><span class="p">)</span>
-</span><span id="residual_plot-659"><a href="#residual_plot-659"><span class="linenos">659</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span> <span class="o">-</span><span class="mf">1.0</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.1</span><span class="p">,</span> <span class="n">facecolor</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
-</span><span id="residual_plot-660"><a href="#residual_plot-660"><span class="linenos">660</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">xstart</span><span class="p">,</span> <span class="n">xstop</span><span class="p">])</span>
-</span><span id="residual_plot-661"><a href="#residual_plot-661"><span class="linenos">661</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="s1">&#39;Residuals&#39;</span><span class="p">)</span>
-</span><span id="residual_plot-662"><a href="#residual_plot-662"><span class="linenos">662</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">subplots_adjust</span><span class="p">(</span><span class="n">wspace</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="kc">None</span><span class="p">)</span>
-</span><span id="residual_plot-663"><a href="#residual_plot-663"><span class="linenos">663</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+    <a class="headerlink" href="#residual_plot"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="residual_plot-637"><a href="#residual_plot-637"><span class="linenos">637</span></a><span class="k">def</span> <span class="nf">residual_plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">fit_res</span><span class="p">):</span>
+</span><span id="residual_plot-638"><a href="#residual_plot-638"><span class="linenos">638</span></a>    <span class="sd">&quot;&quot;&quot; Generates a plot which compares the fit to the data and displays the corresponding residuals&quot;&quot;&quot;</span>
+</span><span id="residual_plot-639"><a href="#residual_plot-639"><span class="linenos">639</span></a>    <span class="n">sorted_x</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
+</span><span id="residual_plot-640"><a href="#residual_plot-640"><span class="linenos">640</span></a>    <span class="n">xstart</span> <span class="o">=</span> <span class="n">sorted_x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">sorted_x</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">sorted_x</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="residual_plot-641"><a href="#residual_plot-641"><span class="linenos">641</span></a>    <span class="n">xstop</span> <span class="o">=</span> <span class="n">sorted_x</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="mf">0.5</span> <span class="o">*</span> <span class="p">(</span><span class="n">sorted_x</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">sorted_x</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">])</span>
+</span><span id="residual_plot-642"><a href="#residual_plot-642"><span class="linenos">642</span></a>    <span class="n">x_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">xstart</span><span class="p">,</span> <span class="n">xstop</span> <span class="o">+</span> <span class="mf">0.01</span><span class="p">,</span> <span class="mf">0.01</span><span class="p">)</span>
+</span><span id="residual_plot-643"><a href="#residual_plot-643"><span class="linenos">643</span></a>
+</span><span id="residual_plot-644"><a href="#residual_plot-644"><span class="linenos">644</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">8</span><span class="p">,</span> <span class="mi">8</span> <span class="o">/</span> <span class="mf">1.618</span><span class="p">))</span>
+</span><span id="residual_plot-645"><a href="#residual_plot-645"><span class="linenos">645</span></a>    <span class="n">gs</span> <span class="o">=</span> <span class="n">gridspec</span><span class="o">.</span><span class="n">GridSpec</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">height_ratios</span><span class="o">=</span><span class="p">[</span><span class="mi">3</span><span class="p">,</span> <span class="mi">1</span><span class="p">],</span> <span class="n">wspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">)</span>
+</span><span id="residual_plot-646"><a href="#residual_plot-646"><span class="linenos">646</span></a>    <span class="n">ax0</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="residual_plot-647"><a href="#residual_plot-647"><span class="linenos">647</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">],</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">3</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Data&#39;</span><span class="p">)</span>
+</span><span id="residual_plot-648"><a href="#residual_plot-648"><span class="linenos">648</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span> <span class="n">func</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="p">],</span> <span class="n">x_samples</span><span class="p">),</span> <span class="n">label</span><span class="o">=</span><span class="s1">&#39;Fit&#39;</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">10</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;-&#39;</span><span class="p">,</span> <span class="n">ms</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="residual_plot-649"><a href="#residual_plot-649"><span class="linenos">649</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">set_xticklabels</span><span class="p">([])</span>
+</span><span id="residual_plot-650"><a href="#residual_plot-650"><span class="linenos">650</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">xstart</span><span class="p">,</span> <span class="n">xstop</span><span class="p">])</span>
+</span><span id="residual_plot-651"><a href="#residual_plot-651"><span class="linenos">651</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">set_xticklabels</span><span class="p">([])</span>
+</span><span id="residual_plot-652"><a href="#residual_plot-652"><span class="linenos">652</span></a>    <span class="n">ax0</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
+</span><span id="residual_plot-653"><a href="#residual_plot-653"><span class="linenos">653</span></a>
+</span><span id="residual_plot-654"><a href="#residual_plot-654"><span class="linenos">654</span></a>    <span class="n">residuals</span> <span class="o">=</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span> <span class="o">-</span> <span class="n">func</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="p">],</span> <span class="n">x</span><span class="p">))</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="residual_plot-655"><a href="#residual_plot-655"><span class="linenos">655</span></a>    <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="residual_plot-656"><a href="#residual_plot-656"><span class="linenos">656</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">residuals</span><span class="p">,</span> <span class="s1">&#39;ko&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">)</span>
+</span><span id="residual_plot-657"><a href="#residual_plot-657"><span class="linenos">657</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">direction</span><span class="o">=</span><span class="s1">&#39;out&#39;</span><span class="p">)</span>
+</span><span id="residual_plot-658"><a href="#residual_plot-658"><span class="linenos">658</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="s2">&quot;x&quot;</span><span class="p">,</span> <span class="n">bottom</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">labelbottom</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="residual_plot-659"><a href="#residual_plot-659"><span class="linenos">659</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s2">&quot; &quot;</span><span class="p">)</span>
+</span><span id="residual_plot-660"><a href="#residual_plot-660"><span class="linenos">660</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">x_samples</span><span class="p">,</span> <span class="o">-</span><span class="mf">1.0</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.1</span><span class="p">,</span> <span class="n">facecolor</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
+</span><span id="residual_plot-661"><a href="#residual_plot-661"><span class="linenos">661</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">([</span><span class="n">xstart</span><span class="p">,</span> <span class="n">xstop</span><span class="p">])</span>
+</span><span id="residual_plot-662"><a href="#residual_plot-662"><span class="linenos">662</span></a>    <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="s1">&#39;Residuals&#39;</span><span class="p">)</span>
+</span><span id="residual_plot-663"><a href="#residual_plot-663"><span class="linenos">663</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">subplots_adjust</span><span class="p">(</span><span class="n">wspace</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="kc">None</span><span class="p">)</span>
+</span><span id="residual_plot-664"><a href="#residual_plot-664"><span class="linenos">664</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Generates a plot which compares the fit to the data and displays the corresponding residuals</p>
 </div>
@@ -1459,34 +1459,34 @@ check if the residuals of the fit are gaussian distributed.</p>
 
                 </section>
                 <section id="error_band">
-                            <div class="attr function"><a class="headerlink" href="#error_band">#&nbsp;&nbsp</a>
+                            <input id="error_band-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">error_band</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">x</span>, </span><span class="param"><span class="n">func</span>, </span><span class="param"><span class="n">beta</span></span>)</span>
+
+                <label class="view-source-button" for="error_band-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">error_band</span><span class="signature">(x, func, beta)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="error_band-666"><a href="#error_band-666"><span class="linenos">666</span></a><span class="k">def</span> <span class="nf">error_band</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">beta</span><span class="p">):</span>
-</span><span id="error_band-667"><a href="#error_band-667"><span class="linenos">667</span></a>    <span class="sd">&quot;&quot;&quot;Returns the error band for an array of sample values x, for given fit function func with optimized parameters beta.&quot;&quot;&quot;</span>
-</span><span id="error_band-668"><a href="#error_band-668"><span class="linenos">668</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">covariance</span><span class="p">(</span><span class="n">beta</span><span class="p">)</span>
-</span><span id="error_band-669"><a href="#error_band-669"><span class="linenos">669</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">cov</span> <span class="o">-</span> <span class="n">cov</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1000</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">):</span>
-</span><span id="error_band-670"><a href="#error_band-670"><span class="linenos">670</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Covariance matrix is not symmetric within floating point precision&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="error_band-671"><a href="#error_band-671"><span class="linenos">671</span></a>
-</span><span id="error_band-672"><a href="#error_band-672"><span class="linenos">672</span></a>    <span class="n">deriv</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="error_band-673"><a href="#error_band-673"><span class="linenos">673</span></a>    <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
-</span><span id="error_band-674"><a href="#error_band-674"><span class="linenos">674</span></a>        <span class="n">deriv</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">egrad</span><span class="p">(</span><span class="n">func</span><span class="p">)([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">beta</span><span class="p">],</span> <span class="n">item</span><span class="p">)))</span>
-</span><span id="error_band-675"><a href="#error_band-675"><span class="linenos">675</span></a>
-</span><span id="error_band-676"><a href="#error_band-676"><span class="linenos">676</span></a>    <span class="n">err</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="error_band-677"><a href="#error_band-677"><span class="linenos">677</span></a>    <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
-</span><span id="error_band-678"><a href="#error_band-678"><span class="linenos">678</span></a>        <span class="n">err</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">deriv</span><span class="p">[</span><span class="n">i</span><span class="p">]))</span>
-</span><span id="error_band-679"><a href="#error_band-679"><span class="linenos">679</span></a>    <span class="n">err</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">err</span><span class="p">)</span>
-</span><span id="error_band-680"><a href="#error_band-680"><span class="linenos">680</span></a>
-</span><span id="error_band-681"><a href="#error_band-681"><span class="linenos">681</span></a>    <span class="k">return</span> <span class="n">err</span>
+    <a class="headerlink" href="#error_band"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="error_band-667"><a href="#error_band-667"><span class="linenos">667</span></a><span class="k">def</span> <span class="nf">error_band</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">beta</span><span class="p">):</span>
+</span><span id="error_band-668"><a href="#error_band-668"><span class="linenos">668</span></a>    <span class="sd">&quot;&quot;&quot;Returns the error band for an array of sample values x, for given fit function func with optimized parameters beta.&quot;&quot;&quot;</span>
+</span><span id="error_band-669"><a href="#error_band-669"><span class="linenos">669</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">covariance</span><span class="p">(</span><span class="n">beta</span><span class="p">)</span>
+</span><span id="error_band-670"><a href="#error_band-670"><span class="linenos">670</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">cov</span> <span class="o">-</span> <span class="n">cov</span><span class="o">.</span><span class="n">T</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1000</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">):</span>
+</span><span id="error_band-671"><a href="#error_band-671"><span class="linenos">671</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Covariance matrix is not symmetric within floating point precision&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="error_band-672"><a href="#error_band-672"><span class="linenos">672</span></a>
+</span><span id="error_band-673"><a href="#error_band-673"><span class="linenos">673</span></a>    <span class="n">deriv</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="error_band-674"><a href="#error_band-674"><span class="linenos">674</span></a>    <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
+</span><span id="error_band-675"><a href="#error_band-675"><span class="linenos">675</span></a>        <span class="n">deriv</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">egrad</span><span class="p">(</span><span class="n">func</span><span class="p">)([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">beta</span><span class="p">],</span> <span class="n">item</span><span class="p">)))</span>
+</span><span id="error_band-676"><a href="#error_band-676"><span class="linenos">676</span></a>
+</span><span id="error_band-677"><a href="#error_band-677"><span class="linenos">677</span></a>    <span class="n">err</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="error_band-678"><a href="#error_band-678"><span class="linenos">678</span></a>    <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
+</span><span id="error_band-679"><a href="#error_band-679"><span class="linenos">679</span></a>        <span class="n">err</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">deriv</span><span class="p">[</span><span class="n">i</span><span class="p">]))</span>
+</span><span id="error_band-680"><a href="#error_band-680"><span class="linenos">680</span></a>    <span class="n">err</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">err</span><span class="p">)</span>
+</span><span id="error_band-681"><a href="#error_band-681"><span class="linenos">681</span></a>
+</span><span id="error_band-682"><a href="#error_band-682"><span class="linenos">682</span></a>    <span class="k">return</span> <span class="n">err</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Returns the error band for an array of sample values x, for given fit function func with optimized parameters beta.</p>
 </div>
@@ -1494,56 +1494,56 @@ check if the residuals of the fit are gaussian distributed.</p>
 
                 </section>
                 <section id="ks_test">
-                            <div class="attr function"><a class="headerlink" href="#ks_test">#&nbsp;&nbsp</a>
+                            <input id="ks_test-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">ks_test</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">objects</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="ks_test-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">ks_test</span><span class="signature">(objects=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="ks_test-684"><a href="#ks_test-684"><span class="linenos">684</span></a><span class="k">def</span> <span class="nf">ks_test</span><span class="p">(</span><span class="n">objects</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="ks_test-685"><a href="#ks_test-685"><span class="linenos">685</span></a>    <span class="sd">&quot;&quot;&quot;Performs a Kolmogorov–Smirnov test for the p-values of all fit object.</span>
-</span><span id="ks_test-686"><a href="#ks_test-686"><span class="linenos">686</span></a>
-</span><span id="ks_test-687"><a href="#ks_test-687"><span class="linenos">687</span></a><span class="sd">    Parameters</span>
-</span><span id="ks_test-688"><a href="#ks_test-688"><span class="linenos">688</span></a><span class="sd">    ----------</span>
-</span><span id="ks_test-689"><a href="#ks_test-689"><span class="linenos">689</span></a><span class="sd">    objects : list</span>
-</span><span id="ks_test-690"><a href="#ks_test-690"><span class="linenos">690</span></a><span class="sd">        List of fit results to include in the analysis (optional).</span>
-</span><span id="ks_test-691"><a href="#ks_test-691"><span class="linenos">691</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="ks_test-692"><a href="#ks_test-692"><span class="linenos">692</span></a>
-</span><span id="ks_test-693"><a href="#ks_test-693"><span class="linenos">693</span></a>    <span class="k">if</span> <span class="n">objects</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="ks_test-694"><a href="#ks_test-694"><span class="linenos">694</span></a>        <span class="n">obs_list</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="ks_test-695"><a href="#ks_test-695"><span class="linenos">695</span></a>        <span class="k">for</span> <span class="n">obj</span> <span class="ow">in</span> <span class="n">gc</span><span class="o">.</span><span class="n">get_objects</span><span class="p">():</span>
-</span><span id="ks_test-696"><a href="#ks_test-696"><span class="linenos">696</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="n">Fit_result</span><span class="p">):</span>
-</span><span id="ks_test-697"><a href="#ks_test-697"><span class="linenos">697</span></a>                <span class="n">obs_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">obj</span><span class="p">)</span>
-</span><span id="ks_test-698"><a href="#ks_test-698"><span class="linenos">698</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="ks_test-699"><a href="#ks_test-699"><span class="linenos">699</span></a>        <span class="n">obs_list</span> <span class="o">=</span> <span class="n">objects</span>
-</span><span id="ks_test-700"><a href="#ks_test-700"><span class="linenos">700</span></a>
-</span><span id="ks_test-701"><a href="#ks_test-701"><span class="linenos">701</span></a>    <span class="n">p_values</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">p_value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs_list</span><span class="p">]</span>
-</span><span id="ks_test-702"><a href="#ks_test-702"><span class="linenos">702</span></a>
-</span><span id="ks_test-703"><a href="#ks_test-703"><span class="linenos">703</span></a>    <span class="n">bins</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">p_values</span><span class="p">)</span>
-</span><span id="ks_test-704"><a href="#ks_test-704"><span class="linenos">704</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mf">1.001</span><span class="p">,</span> <span class="mf">0.001</span><span class="p">)</span>
-</span><span id="ks_test-705"><a href="#ks_test-705"><span class="linenos">705</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">x</span><span class="p">,</span> <span class="s1">&#39;k&#39;</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="ks_test-706"><a href="#ks_test-706"><span class="linenos">706</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="ks_test-707"><a href="#ks_test-707"><span class="linenos">707</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="ks_test-708"><a href="#ks_test-708"><span class="linenos">708</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;p-value&#39;</span><span class="p">)</span>
-</span><span id="ks_test-709"><a href="#ks_test-709"><span class="linenos">709</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;Cumulative probability&#39;</span><span class="p">)</span>
-</span><span id="ks_test-710"><a href="#ks_test-710"><span class="linenos">710</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">bins</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39; p-values&#39;</span><span class="p">)</span>
-</span><span id="ks_test-711"><a href="#ks_test-711"><span class="linenos">711</span></a>
-</span><span id="ks_test-712"><a href="#ks_test-712"><span class="linenos">712</span></a>    <span class="n">n</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">bins</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">(</span><span class="n">bins</span><span class="p">)</span>
-</span><span id="ks_test-713"><a href="#ks_test-713"><span class="linenos">713</span></a>    <span class="n">Xs</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">p_values</span><span class="p">)</span>
-</span><span id="ks_test-714"><a href="#ks_test-714"><span class="linenos">714</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">step</span><span class="p">(</span><span class="n">Xs</span><span class="p">,</span> <span class="n">n</span><span class="p">)</span>
-</span><span id="ks_test-715"><a href="#ks_test-715"><span class="linenos">715</span></a>    <span class="n">diffs</span> <span class="o">=</span> <span class="n">n</span> <span class="o">-</span> <span class="n">Xs</span>
-</span><span id="ks_test-716"><a href="#ks_test-716"><span class="linenos">716</span></a>    <span class="n">loc_max_diff</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">diffs</span><span class="p">))</span>
-</span><span id="ks_test-717"><a href="#ks_test-717"><span class="linenos">717</span></a>    <span class="n">loc</span> <span class="o">=</span> <span class="n">Xs</span><span class="p">[</span><span class="n">loc_max_diff</span><span class="p">]</span>
-</span><span id="ks_test-718"><a href="#ks_test-718"><span class="linenos">718</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">annotate</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">xy</span><span class="o">=</span><span class="p">(</span><span class="n">loc</span><span class="p">,</span> <span class="n">loc</span><span class="p">),</span> <span class="n">xytext</span><span class="o">=</span><span class="p">(</span><span class="n">loc</span><span class="p">,</span> <span class="n">loc</span> <span class="o">+</span> <span class="n">diffs</span><span class="p">[</span><span class="n">loc_max_diff</span><span class="p">]),</span> <span class="n">arrowprops</span><span class="o">=</span><span class="nb">dict</span><span class="p">(</span><span class="n">arrowstyle</span><span class="o">=</span><span class="s1">&#39;&lt;-&gt;&#39;</span><span class="p">,</span> <span class="n">shrinkA</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">shrinkB</span><span class="o">=</span><span class="mi">0</span><span class="p">))</span>
-</span><span id="ks_test-719"><a href="#ks_test-719"><span class="linenos">719</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="ks_test-720"><a href="#ks_test-720"><span class="linenos">720</span></a>
-</span><span id="ks_test-721"><a href="#ks_test-721"><span class="linenos">721</span></a>    <span class="nb">print</span><span class="p">(</span><span class="n">scipy</span><span class="o">.</span><span class="n">stats</span><span class="o">.</span><span class="n">kstest</span><span class="p">(</span><span class="n">p_values</span><span class="p">,</span> <span class="s1">&#39;uniform&#39;</span><span class="p">))</span>
+    <a class="headerlink" href="#ks_test"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="ks_test-685"><a href="#ks_test-685"><span class="linenos">685</span></a><span class="k">def</span> <span class="nf">ks_test</span><span class="p">(</span><span class="n">objects</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="ks_test-686"><a href="#ks_test-686"><span class="linenos">686</span></a>    <span class="sd">&quot;&quot;&quot;Performs a Kolmogorov–Smirnov test for the p-values of all fit object.</span>
+</span><span id="ks_test-687"><a href="#ks_test-687"><span class="linenos">687</span></a>
+</span><span id="ks_test-688"><a href="#ks_test-688"><span class="linenos">688</span></a><span class="sd">    Parameters</span>
+</span><span id="ks_test-689"><a href="#ks_test-689"><span class="linenos">689</span></a><span class="sd">    ----------</span>
+</span><span id="ks_test-690"><a href="#ks_test-690"><span class="linenos">690</span></a><span class="sd">    objects : list</span>
+</span><span id="ks_test-691"><a href="#ks_test-691"><span class="linenos">691</span></a><span class="sd">        List of fit results to include in the analysis (optional).</span>
+</span><span id="ks_test-692"><a href="#ks_test-692"><span class="linenos">692</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="ks_test-693"><a href="#ks_test-693"><span class="linenos">693</span></a>
+</span><span id="ks_test-694"><a href="#ks_test-694"><span class="linenos">694</span></a>    <span class="k">if</span> <span class="n">objects</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="ks_test-695"><a href="#ks_test-695"><span class="linenos">695</span></a>        <span class="n">obs_list</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="ks_test-696"><a href="#ks_test-696"><span class="linenos">696</span></a>        <span class="k">for</span> <span class="n">obj</span> <span class="ow">in</span> <span class="n">gc</span><span class="o">.</span><span class="n">get_objects</span><span class="p">():</span>
+</span><span id="ks_test-697"><a href="#ks_test-697"><span class="linenos">697</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="n">Fit_result</span><span class="p">):</span>
+</span><span id="ks_test-698"><a href="#ks_test-698"><span class="linenos">698</span></a>                <span class="n">obs_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">obj</span><span class="p">)</span>
+</span><span id="ks_test-699"><a href="#ks_test-699"><span class="linenos">699</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="ks_test-700"><a href="#ks_test-700"><span class="linenos">700</span></a>        <span class="n">obs_list</span> <span class="o">=</span> <span class="n">objects</span>
+</span><span id="ks_test-701"><a href="#ks_test-701"><span class="linenos">701</span></a>
+</span><span id="ks_test-702"><a href="#ks_test-702"><span class="linenos">702</span></a>    <span class="n">p_values</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">p_value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs_list</span><span class="p">]</span>
+</span><span id="ks_test-703"><a href="#ks_test-703"><span class="linenos">703</span></a>
+</span><span id="ks_test-704"><a href="#ks_test-704"><span class="linenos">704</span></a>    <span class="n">bins</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">p_values</span><span class="p">)</span>
+</span><span id="ks_test-705"><a href="#ks_test-705"><span class="linenos">705</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mf">1.001</span><span class="p">,</span> <span class="mf">0.001</span><span class="p">)</span>
+</span><span id="ks_test-706"><a href="#ks_test-706"><span class="linenos">706</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">x</span><span class="p">,</span> <span class="s1">&#39;k&#39;</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="ks_test-707"><a href="#ks_test-707"><span class="linenos">707</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="ks_test-708"><a href="#ks_test-708"><span class="linenos">708</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="ks_test-709"><a href="#ks_test-709"><span class="linenos">709</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;p-value&#39;</span><span class="p">)</span>
+</span><span id="ks_test-710"><a href="#ks_test-710"><span class="linenos">710</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;Cumulative probability&#39;</span><span class="p">)</span>
+</span><span id="ks_test-711"><a href="#ks_test-711"><span class="linenos">711</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">bins</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39; p-values&#39;</span><span class="p">)</span>
+</span><span id="ks_test-712"><a href="#ks_test-712"><span class="linenos">712</span></a>
+</span><span id="ks_test-713"><a href="#ks_test-713"><span class="linenos">713</span></a>    <span class="n">n</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">bins</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">(</span><span class="n">bins</span><span class="p">)</span>
+</span><span id="ks_test-714"><a href="#ks_test-714"><span class="linenos">714</span></a>    <span class="n">Xs</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">p_values</span><span class="p">)</span>
+</span><span id="ks_test-715"><a href="#ks_test-715"><span class="linenos">715</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">step</span><span class="p">(</span><span class="n">Xs</span><span class="p">,</span> <span class="n">n</span><span class="p">)</span>
+</span><span id="ks_test-716"><a href="#ks_test-716"><span class="linenos">716</span></a>    <span class="n">diffs</span> <span class="o">=</span> <span class="n">n</span> <span class="o">-</span> <span class="n">Xs</span>
+</span><span id="ks_test-717"><a href="#ks_test-717"><span class="linenos">717</span></a>    <span class="n">loc_max_diff</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">diffs</span><span class="p">))</span>
+</span><span id="ks_test-718"><a href="#ks_test-718"><span class="linenos">718</span></a>    <span class="n">loc</span> <span class="o">=</span> <span class="n">Xs</span><span class="p">[</span><span class="n">loc_max_diff</span><span class="p">]</span>
+</span><span id="ks_test-719"><a href="#ks_test-719"><span class="linenos">719</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">annotate</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">xy</span><span class="o">=</span><span class="p">(</span><span class="n">loc</span><span class="p">,</span> <span class="n">loc</span><span class="p">),</span> <span class="n">xytext</span><span class="o">=</span><span class="p">(</span><span class="n">loc</span><span class="p">,</span> <span class="n">loc</span> <span class="o">+</span> <span class="n">diffs</span><span class="p">[</span><span class="n">loc_max_diff</span><span class="p">]),</span> <span class="n">arrowprops</span><span class="o">=</span><span class="nb">dict</span><span class="p">(</span><span class="n">arrowstyle</span><span class="o">=</span><span class="s1">&#39;&lt;-&gt;&#39;</span><span class="p">,</span> <span class="n">shrinkA</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">shrinkB</span><span class="o">=</span><span class="mi">0</span><span class="p">))</span>
+</span><span id="ks_test-720"><a href="#ks_test-720"><span class="linenos">720</span></a>    <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="ks_test-721"><a href="#ks_test-721"><span class="linenos">721</span></a>
+</span><span id="ks_test-722"><a href="#ks_test-722"><span class="linenos">722</span></a>    <span class="nb">print</span><span class="p">(</span><span class="n">scipy</span><span class="o">.</span><span class="n">stats</span><span class="o">.</span><span class="n">kstest</span><span class="p">(</span><span class="n">p_values</span><span class="p">,</span> <span class="s1">&#39;uniform&#39;</span><span class="p">))</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Performs a Kolmogorov–Smirnov test for the p-values of all fit object.</p>
 
diff --git a/docs/pyerrors/input.html b/docs/pyerrors/input.html
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+++ b/docs/pyerrors/input.html
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         tex: {
@@ -83,24 +83,25 @@
 See <code><a href="obs.html#Obs.export_jackknife">pyerrors.obs.Obs.export_jackknife</a></code> and <code><a href="obs.html#import_jackknife">pyerrors.obs.import_jackknife</a></code> for details.</p>
 </div>
 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos"> 0</span></a><span class="sa">r</span><span class="sd">&#39;&#39;&#39;</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a><span class="sd">`pyerrors` includes an `input` submodule in which input routines and parsers for the output of various numerical programs are contained.</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos"> 2</span></a>
-</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a><span class="sd"># Jackknife samples</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a><span class="sd">For comparison with other analysis workflows `pyerrors` can also generate jackknife samples from an `Obs` object or import jackknife samples into an `Obs` object.</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos"> 5</span></a><span class="sd">See `pyerrors.obs.Obs.export_jackknife` and `pyerrors.obs.import_jackknife` for details.</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a><span class="sd">&#39;&#39;&#39;</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">bdio</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">hadrons</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">json</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos">10</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">misc</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos">11</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">openQCD</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos">12</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">sfcf</span>
+                        <input id="input-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="input-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a><span class="sa">r</span><span class="sd">&#39;&#39;&#39;</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos"> 2</span></a><span class="sd">`pyerrors` includes an `input` submodule in which input routines and parsers for the output of various numerical programs are contained.</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a>
+</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a><span class="sd"># Jackknife samples</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos"> 5</span></a><span class="sd">For comparison with other analysis workflows `pyerrors` can also generate jackknife samples from an `Obs` object or import jackknife samples into an `Obs` object.</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a><span class="sd">See `pyerrors.obs.Obs.export_jackknife` and `pyerrors.obs.import_jackknife` for details.</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a><span class="sd">&#39;&#39;&#39;</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">bdio</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">hadrons</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos">10</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">json</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos">11</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">misc</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos">12</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">openQCD</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos">13</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">sfcf</span>
 </span></pre></div>
 
-        </details>
 
             </section>
     </main>
diff --git a/docs/pyerrors/input/bdio.html b/docs/pyerrors/input/bdio.html
index c78c76df..e3e99171 100644
--- a/docs/pyerrors/input/bdio.html
+++ b/docs/pyerrors/input/bdio.html
@@ -3,14 +3,14 @@
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     <title>pyerrors.input.bdio API documentation</title>
 
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@@ -76,854 +76,855 @@
 <a href="./../../pyerrors.html">pyerrors</a><wbr>.<a href="./../input.html">input</a><wbr>.bdio    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">  0</span></a><span class="kn">import</span> <span class="nn">ctypes</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">hashlib</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">autograd.numpy</span> <span class="k">as</span> <span class="nn">np</span>  <span class="c1"># Thinly-wrapped numpy</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a>
+                        <input id="bdio-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="bdio-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">ctypes</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">hashlib</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">autograd.numpy</span> <span class="k">as</span> <span class="nn">np</span>  <span class="c1"># Thinly-wrapped numpy</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
 </span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="k">def</span> <span class="nf">read_ADerrors</span><span class="p">(</span><span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a>    <span class="sd">&quot;&quot;&quot; Extract generic MCMC data from a bdio file</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="sd">    read_ADerrors requires bdio to be compiled into a shared library. This can be achieved by</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a>
-</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a>
-</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">    Parameters</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">    ----------</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd">    file_path -- path to the bdio file</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd">    bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>
-</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>
-</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>
-</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>    <span class="n">bdio_seek_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_seek_record</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>
-</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>    <span class="n">bdio_get_rlen</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_rlen</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>
-</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>    <span class="n">bdio_get_ruinfo</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_ruinfo</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>
-</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>    <span class="n">bdio_read</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>
-</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>    <span class="n">bdio_read_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_f64</span>
-</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>
-</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>    <span class="n">bdio_read_int32</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_int32</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>    <span class="n">bdio_read_int32</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>    <span class="n">bdio_read_int32</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>
-</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="s1">&#39;r&#39;</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>    <span class="n">b_read</span> <span class="o">=</span> <span class="n">read</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>
-</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_read</span><span class="p">),</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>
-</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>    <span class="n">return_list</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>
-</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Reading of bdio file started&#39;</span><span class="p">)</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>    <span class="k">while</span> <span class="mi">1</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>        <span class="n">bdio_seek_record</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>        <span class="n">ruinfo</span> <span class="o">=</span> <span class="n">bdio_get_ruinfo</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>
-</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">7</span><span class="p">:</span>
-</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;MD5sum found&#39;</span><span class="p">)</span>  <span class="c1"># For now we just ignore these entries and do not perform any checks on them</span>
-</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>            <span class="k">continue</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>
-</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>            <span class="c1"># EOF reached</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>            <span class="k">break</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>        <span class="n">bdio_get_rlen</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>
-</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>        <span class="k">def</span> <span class="nf">read_c_double</span><span class="p">():</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
-</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>            <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">8</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>            <span class="k">return</span> <span class="n">pd_buf</span><span class="o">.</span><span class="n">value</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>
-</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>        <span class="n">mean</span> <span class="o">=</span> <span class="n">read_c_double</span><span class="p">()</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;mean&#39;</span><span class="p">,</span> <span class="n">mean</span><span class="p">)</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>
-</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>        <span class="k">def</span> <span class="nf">read_c_size_t</span><span class="p">():</span>
-</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>            <span class="n">bdio_read_int32</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">4</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>            <span class="k">return</span> <span class="n">pd_buf</span><span class="o">.</span><span class="n">value</span>
-</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>
-</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>        <span class="n">neid</span> <span class="o">=</span> <span class="n">read_c_size_t</span><span class="p">()</span>
-</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;neid&#39;</span><span class="p">,</span> <span class="n">neid</span><span class="p">)</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>
-</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>        <span class="n">ndata</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>            <span class="n">ndata</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
-</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ndata&#39;</span><span class="p">,</span> <span class="n">ndata</span><span class="p">)</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>
-</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>        <span class="n">nrep</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>            <span class="n">nrep</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
-</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nrep&#39;</span><span class="p">,</span> <span class="n">nrep</span><span class="p">)</span>
-</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>
-</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>        <span class="n">vrep</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>            <span class="n">vrep</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>            <span class="k">for</span> <span class="n">jndex</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrep</span><span class="p">[</span><span class="n">index</span><span class="p">]):</span>
-</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>                <span class="n">vrep</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
-</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;vrep&#39;</span><span class="p">,</span> <span class="n">vrep</span><span class="p">)</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>
-</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>        <span class="n">ids</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>            <span class="n">ids</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
-</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ids&#39;</span><span class="p">,</span> <span class="n">ids</span><span class="p">)</span>
-</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>
-</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>        <span class="n">nt</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>            <span class="n">nt</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
-</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nt&#39;</span><span class="p">,</span> <span class="n">nt</span><span class="p">)</span>
-</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>
-</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>        <span class="n">zero</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>            <span class="n">zero</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_double</span><span class="p">())</span>
-</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;zero&#39;</span><span class="p">,</span> <span class="n">zero</span><span class="p">)</span>
-</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>
-</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>        <span class="n">four</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>            <span class="n">four</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_double</span><span class="p">())</span>
-</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;four&#39;</span><span class="p">,</span> <span class="n">four</span><span class="p">)</span>
-</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>
-</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>        <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">ndata</span><span class="p">)</span>
-</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>        <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
-</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>        <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>        <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">ndata</span><span class="p">)),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>        <span class="n">delta</span> <span class="o">=</span> <span class="n">pd_buf</span><span class="p">[:]</span>
-</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>
-</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>        <span class="n">samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">delta</span><span class="p">)</span> <span class="o">+</span> <span class="n">mean</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">cumsum</span><span class="p">([</span><span class="n">a</span> <span class="k">for</span> <span class="n">su</span> <span class="ow">in</span> <span class="n">vrep</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="n">su</span><span class="p">])[:</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>        <span class="n">no_reps</span> <span class="o">=</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">vrep</span><span class="p">]</span>
-</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>        <span class="k">assert</span> <span class="nb">len</span><span class="p">(</span><span class="n">ids</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">no_reps</span><span class="p">)</span>
-</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>        <span class="n">tmp_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>        <span class="n">ens_length</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">o</span><span class="p">))</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ids</span><span class="p">])</span>
-</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>        <span class="k">for</span> <span class="n">loc_id</span><span class="p">,</span> <span class="n">reps</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">ids</span><span class="p">,</span> <span class="n">no_reps</span><span class="p">):</span>
-</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a>            <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">reps</span><span class="p">):</span>
-</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>                <span class="n">missing_chars</span> <span class="o">=</span> <span class="n">ens_length</span> <span class="o">-</span> <span class="nb">len</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">loc_id</span><span class="p">))</span>
-</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>                <span class="n">tmp_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">loc_id</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">*</span> <span class="n">missing_chars</span> <span class="o">+</span> <span class="s1">&#39;|r&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="si">{0:03d}</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">index</span><span class="p">))</span>
-</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>
-</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>        <span class="n">return_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">tmp_names</span><span class="p">))</span>
-</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>
-</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>    <span class="nb">print</span><span class="p">()</span>
-</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>    <span class="nb">print</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">return_list</span><span class="p">),</span> <span class="s1">&#39;observable(s) extracted.&#39;</span><span class="p">)</span>
-</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>    <span class="k">return</span> <span class="n">return_list</span>
-</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a>
+</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="k">def</span> <span class="nf">read_ADerrors</span><span class="p">(</span><span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a>    <span class="sd">&quot;&quot;&quot; Extract generic MCMC data from a bdio file</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a>
+</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="sd">    read_ADerrors requires bdio to be compiled into a shared library. This can be achieved by</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a>
+</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
+</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a>
+</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">    Parameters</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd">    ----------</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd">    file_path -- path to the bdio file</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">    bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>
+</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>
+</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>
+</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>    <span class="n">bdio_seek_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_seek_record</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>
+</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>    <span class="n">bdio_get_rlen</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_rlen</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>
+</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>    <span class="n">bdio_get_ruinfo</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_ruinfo</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>
+</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>    <span class="n">bdio_read</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>
+</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>    <span class="n">bdio_read_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_f64</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>
+</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>    <span class="n">bdio_read_int32</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_int32</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>    <span class="n">bdio_read_int32</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>    <span class="n">bdio_read_int32</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>
+</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="s1">&#39;r&#39;</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>    <span class="n">b_read</span> <span class="o">=</span> <span class="n">read</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>
+</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_read</span><span class="p">),</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>
+</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>    <span class="n">return_list</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>
+</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Reading of bdio file started&#39;</span><span class="p">)</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>    <span class="k">while</span> <span class="mi">1</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>        <span class="n">bdio_seek_record</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>        <span class="n">ruinfo</span> <span class="o">=</span> <span class="n">bdio_get_ruinfo</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>
+</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">7</span><span class="p">:</span>
+</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;MD5sum found&#39;</span><span class="p">)</span>  <span class="c1"># For now we just ignore these entries and do not perform any checks on them</span>
+</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>            <span class="k">continue</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>
+</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>            <span class="c1"># EOF reached</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>            <span class="k">break</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>        <span class="n">bdio_get_rlen</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>
+</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>        <span class="k">def</span> <span class="nf">read_c_double</span><span class="p">():</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
+</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>            <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">8</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>            <span class="k">return</span> <span class="n">pd_buf</span><span class="o">.</span><span class="n">value</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>
+</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>        <span class="n">mean</span> <span class="o">=</span> <span class="n">read_c_double</span><span class="p">()</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;mean&#39;</span><span class="p">,</span> <span class="n">mean</span><span class="p">)</span>
+</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>
+</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>        <span class="k">def</span> <span class="nf">read_c_size_t</span><span class="p">():</span>
+</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>            <span class="n">bdio_read_int32</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">4</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>            <span class="k">return</span> <span class="n">pd_buf</span><span class="o">.</span><span class="n">value</span>
+</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>
+</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>        <span class="n">neid</span> <span class="o">=</span> <span class="n">read_c_size_t</span><span class="p">()</span>
+</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;neid&#39;</span><span class="p">,</span> <span class="n">neid</span><span class="p">)</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>
+</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>        <span class="n">ndata</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>            <span class="n">ndata</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
+</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ndata&#39;</span><span class="p">,</span> <span class="n">ndata</span><span class="p">)</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>
+</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>        <span class="n">nrep</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>            <span class="n">nrep</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
+</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nrep&#39;</span><span class="p">,</span> <span class="n">nrep</span><span class="p">)</span>
+</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>
+</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>        <span class="n">vrep</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>            <span class="n">vrep</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>            <span class="k">for</span> <span class="n">jndex</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrep</span><span class="p">[</span><span class="n">index</span><span class="p">]):</span>
+</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>                <span class="n">vrep</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
+</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;vrep&#39;</span><span class="p">,</span> <span class="n">vrep</span><span class="p">)</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>
+</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>        <span class="n">ids</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>            <span class="n">ids</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
+</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ids&#39;</span><span class="p">,</span> <span class="n">ids</span><span class="p">)</span>
+</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>
+</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>        <span class="n">nt</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>            <span class="n">nt</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
+</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nt&#39;</span><span class="p">,</span> <span class="n">nt</span><span class="p">)</span>
+</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>
+</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>        <span class="n">zero</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>            <span class="n">zero</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_double</span><span class="p">())</span>
+</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;zero&#39;</span><span class="p">,</span> <span class="n">zero</span><span class="p">)</span>
+</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>
+</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>        <span class="n">four</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>            <span class="n">four</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_double</span><span class="p">())</span>
+</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;four&#39;</span><span class="p">,</span> <span class="n">four</span><span class="p">)</span>
+</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>
+</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>        <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">ndata</span><span class="p">)</span>
+</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>        <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
+</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>        <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>        <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">ndata</span><span class="p">)),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>        <span class="n">delta</span> <span class="o">=</span> <span class="n">pd_buf</span><span class="p">[:]</span>
+</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>
+</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>        <span class="n">samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">delta</span><span class="p">)</span> <span class="o">+</span> <span class="n">mean</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">cumsum</span><span class="p">([</span><span class="n">a</span> <span class="k">for</span> <span class="n">su</span> <span class="ow">in</span> <span class="n">vrep</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="n">su</span><span class="p">])[:</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>        <span class="n">no_reps</span> <span class="o">=</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">vrep</span><span class="p">]</span>
+</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>        <span class="k">assert</span> <span class="nb">len</span><span class="p">(</span><span class="n">ids</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">no_reps</span><span class="p">)</span>
+</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>        <span class="n">tmp_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>        <span class="n">ens_length</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">o</span><span class="p">))</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ids</span><span class="p">])</span>
+</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a>        <span class="k">for</span> <span class="n">loc_id</span><span class="p">,</span> <span class="n">reps</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">ids</span><span class="p">,</span> <span class="n">no_reps</span><span class="p">):</span>
+</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>            <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">reps</span><span class="p">):</span>
+</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>                <span class="n">missing_chars</span> <span class="o">=</span> <span class="n">ens_length</span> <span class="o">-</span> <span class="nb">len</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">loc_id</span><span class="p">))</span>
+</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>                <span class="n">tmp_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">loc_id</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">*</span> <span class="n">missing_chars</span> <span class="o">+</span> <span class="s1">&#39;|r&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="si">{0:03d}</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">index</span><span class="p">))</span>
+</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>
+</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>        <span class="n">return_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">tmp_names</span><span class="p">))</span>
+</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>
+</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>    <span class="nb">print</span><span class="p">()</span>
+</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>    <span class="nb">print</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">return_list</span><span class="p">),</span> <span class="s1">&#39;observable(s) extracted.&#39;</span><span class="p">)</span>
+</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>    <span class="k">return</span> <span class="n">return_list</span>
 </span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>
-</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a><span class="k">def</span> <span class="nf">write_ADerrors</span><span class="p">(</span><span class="n">obs_list</span><span class="p">,</span> <span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>    <span class="sd">&quot;&quot;&quot; Write Obs to a bdio file according to ADerrors conventions</span>
-</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>
-</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a><span class="sd">    read_mesons requires bdio to be compiled into a shared library. This can be achieved by</span>
-</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
-</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>
-</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
-</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
-</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
-</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>
-</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a><span class="sd">    Parameters</span>
-</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a><span class="sd">    ----------</span>
-</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a><span class="sd">    file_path -- path to the bdio file</span>
-</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a><span class="sd">    bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
-</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>
-</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>    <span class="k">for</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">obs_list</span><span class="p">:</span>
-</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="s1">&#39;e_names&#39;</span><span class="p">):</span>
-</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first for all obs.&#39;</span><span class="p">)</span>
-</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>
-</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
-</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>
-</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
-</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
-</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>
-</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
-</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a>
-</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>    <span class="n">bdio_start_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_start_record</span>
-</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>    <span class="n">bdio_start_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>    <span class="n">bdio_start_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>
-</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>    <span class="n">bdio_flush_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_flush_record</span>
-</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a>    <span class="n">bdio_flush_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a>    <span class="n">bdio_flush_record</span><span class="o">.</span><span class="n">argytpes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a>
-</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>    <span class="n">bdio_write_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_write_f64</span>
-</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>    <span class="n">bdio_write_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a>    <span class="n">bdio_write_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a>
-</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a>    <span class="n">bdio_write_int32</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_write_int32</span>
-</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>    <span class="n">bdio_write_int32</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>    <span class="n">bdio_write_int32</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>
-</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>    <span class="n">write</span> <span class="o">=</span> <span class="s1">&#39;w&#39;</span>
-</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>    <span class="n">b_write</span> <span class="o">=</span> <span class="n">write</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>    <span class="n">form</span> <span class="o">=</span> <span class="s1">&#39;pyerrors ADerror export&#39;</span>
-</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>    <span class="n">b_form</span> <span class="o">=</span> <span class="n">form</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>
-</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_write</span><span class="p">),</span> <span class="n">b_form</span><span class="p">)</span>
-</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>
-</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>    <span class="k">for</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">obs_list</span><span class="p">:</span>
-</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>        <span class="c1"># mean = obs.value</span>
-</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>        <span class="n">neid</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span>
-</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>        <span class="n">vrep</span> <span class="o">=</span> <span class="p">[[</span><span class="n">obs</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">o</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">sl</span><span class="p">]</span> <span class="k">for</span> <span class="n">sl</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">values</span><span class="p">())]</span>
-</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>        <span class="n">vrep_write</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="n">vrep</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]</span>
-</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>        <span class="n">ndata</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">vrep</span><span class="p">]</span>
-</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>        <span class="n">nrep</span> <span class="o">=</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">vrep</span><span class="p">]</span>
-</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ndata&#39;</span><span class="p">,</span> <span class="n">ndata</span><span class="p">)</span>
-</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nrep&#39;</span><span class="p">,</span> <span class="n">nrep</span><span class="p">)</span>
-</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;vrep&#39;</span><span class="p">,</span> <span class="n">vrep</span><span class="p">)</span>
-</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>        <span class="n">keys</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
-</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>        <span class="n">ids</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>        <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="n">keys</span><span class="p">:</span>
-</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>            <span class="k">try</span><span class="p">:</span>  <span class="c1"># Try to convert key to integer</span>
-</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>                <span class="n">ids</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">key</span><span class="p">))</span>
-</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>            <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>  <span class="c1"># If not possible construct a hash</span>
-</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>                <span class="n">ids</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">hashlib</span><span class="o">.</span><span class="n">sha256</span><span class="p">(</span><span class="n">key</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span><span class="o">.</span><span class="n">hexdigest</span><span class="p">(),</span> <span class="mi">16</span><span class="p">)</span> <span class="o">%</span> <span class="mi">10</span> <span class="o">**</span> <span class="mi">8</span><span class="p">)</span>
-</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ids&#39;</span><span class="p">,</span> <span class="n">ids</span><span class="p">)</span>
-</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>        <span class="n">nt</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
-</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>
-</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>                <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
-</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a>
-</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a>            <span class="c1"># e_N = np.sum(r_length)</span>
-</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a>            <span class="n">nt</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">max</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span> <span class="o">//</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nt&#39;</span><span class="p">,</span> <span class="n">nt</span><span class="p">)</span>
-</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a>        <span class="n">zero</span> <span class="o">=</span> <span class="n">neid</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.0</span><span class="p">]</span>
-</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a>        <span class="n">four</span> <span class="o">=</span> <span class="n">neid</span> <span class="o">*</span> <span class="p">[</span><span class="mf">4.0</span><span class="p">]</span>
-</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;zero&#39;</span><span class="p">,</span> <span class="n">zero</span><span class="p">)</span>
-</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;four&#39;</span><span class="p">,</span> <span class="n">four</span><span class="p">)</span>
-</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a>        <span class="n">delta</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">([</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[[</span><span class="n">obs</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">o</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">sl</span><span class="p">]</span> <span class="k">for</span> <span class="n">sl</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">values</span><span class="p">())]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">])</span>
-</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a>
-</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a>        <span class="n">bdio_start_record</span><span class="p">(</span><span class="mh">0x00</span><span class="p">,</span> <span class="mi">8</span><span class="p">,</span> <span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a>
-</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a>        <span class="k">def</span> <span class="nf">write_c_double</span><span class="p">(</span><span class="n">double</span><span class="p">):</span>
-</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span><span class="p">(</span><span class="n">double</span><span class="p">)</span>
-</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>            <span class="n">bdio_write_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">8</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>
-</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>        <span class="k">def</span> <span class="nf">write_c_size_t</span><span class="p">(</span><span class="n">int32</span><span class="p">):</span>
-</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">int32</span><span class="p">)</span>
-</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>            <span class="n">bdio_write_int32</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">4</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>
-</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>        <span class="n">write_c_double</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
-</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>        <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">neid</span><span class="p">)</span>
-</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>
-</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">ndata</span><span class="p">:</span>
-</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">nrep</span><span class="p">:</span>
-</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">vrep_write</span><span class="p">:</span>
-</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">ids</span><span class="p">:</span>
-</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">nt</span><span class="p">:</span>
-</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>
-</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">zero</span><span class="p">:</span>
-</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>            <span class="n">write_c_double</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">four</span><span class="p">:</span>
-</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>            <span class="n">write_c_double</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>
-</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">delta</span><span class="p">:</span>
-</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>            <span class="n">write_c_double</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>
-</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>    <span class="k">return</span> <span class="mi">0</span>
-</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>
+</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>
+</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a><span class="k">def</span> <span class="nf">write_ADerrors</span><span class="p">(</span><span class="n">obs_list</span><span class="p">,</span> <span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>    <span class="sd">&quot;&quot;&quot; Write Obs to a bdio file according to ADerrors conventions</span>
+</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>
+</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a><span class="sd">    read_mesons requires bdio to be compiled into a shared library. This can be achieved by</span>
+</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
+</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>
+</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
+</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
+</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
+</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>
+</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a><span class="sd">    Parameters</span>
+</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a><span class="sd">    ----------</span>
+</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a><span class="sd">    file_path -- path to the bdio file</span>
+</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a><span class="sd">    bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
+</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>
+</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>    <span class="k">for</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">obs_list</span><span class="p">:</span>
+</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="s1">&#39;e_names&#39;</span><span class="p">):</span>
+</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first for all obs.&#39;</span><span class="p">)</span>
+</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>
+</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
+</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>
+</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
+</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
+</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>
+</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
+</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>
+</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>    <span class="n">bdio_start_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_start_record</span>
+</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>    <span class="n">bdio_start_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>    <span class="n">bdio_start_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>
+</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a>    <span class="n">bdio_flush_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_flush_record</span>
+</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a>    <span class="n">bdio_flush_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a>    <span class="n">bdio_flush_record</span><span class="o">.</span><span class="n">argytpes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>
+</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>    <span class="n">bdio_write_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_write_f64</span>
+</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a>    <span class="n">bdio_write_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a>    <span class="n">bdio_write_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a>
+</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>    <span class="n">bdio_write_int32</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_write_int32</span>
+</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>    <span class="n">bdio_write_int32</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>    <span class="n">bdio_write_int32</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>
+</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>    <span class="n">write</span> <span class="o">=</span> <span class="s1">&#39;w&#39;</span>
+</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>    <span class="n">b_write</span> <span class="o">=</span> <span class="n">write</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>    <span class="n">form</span> <span class="o">=</span> <span class="s1">&#39;pyerrors ADerror export&#39;</span>
+</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>    <span class="n">b_form</span> <span class="o">=</span> <span class="n">form</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>
+</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_write</span><span class="p">),</span> <span class="n">b_form</span><span class="p">)</span>
+</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>
+</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>    <span class="k">for</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">obs_list</span><span class="p">:</span>
+</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>        <span class="c1"># mean = obs.value</span>
+</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>        <span class="n">neid</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span>
+</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>        <span class="n">vrep</span> <span class="o">=</span> <span class="p">[[</span><span class="n">obs</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">o</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">sl</span><span class="p">]</span> <span class="k">for</span> <span class="n">sl</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">values</span><span class="p">())]</span>
+</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>        <span class="n">vrep_write</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="n">vrep</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]</span>
+</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>        <span class="n">ndata</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">vrep</span><span class="p">]</span>
+</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>        <span class="n">nrep</span> <span class="o">=</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">vrep</span><span class="p">]</span>
+</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ndata&#39;</span><span class="p">,</span> <span class="n">ndata</span><span class="p">)</span>
+</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nrep&#39;</span><span class="p">,</span> <span class="n">nrep</span><span class="p">)</span>
+</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;vrep&#39;</span><span class="p">,</span> <span class="n">vrep</span><span class="p">)</span>
+</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>        <span class="n">keys</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
+</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>        <span class="n">ids</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>        <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="n">keys</span><span class="p">:</span>
+</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>            <span class="k">try</span><span class="p">:</span>  <span class="c1"># Try to convert key to integer</span>
+</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>                <span class="n">ids</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">key</span><span class="p">))</span>
+</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>            <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>  <span class="c1"># If not possible construct a hash</span>
+</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>                <span class="n">ids</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">hashlib</span><span class="o">.</span><span class="n">sha256</span><span class="p">(</span><span class="n">key</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span><span class="o">.</span><span class="n">hexdigest</span><span class="p">(),</span> <span class="mi">16</span><span class="p">)</span> <span class="o">%</span> <span class="mi">10</span> <span class="o">**</span> <span class="mi">8</span><span class="p">)</span>
+</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ids&#39;</span><span class="p">,</span> <span class="n">ids</span><span class="p">)</span>
+</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>        <span class="n">nt</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
+</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>
+</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a>                <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
+</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a>
+</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a>            <span class="c1"># e_N = np.sum(r_length)</span>
+</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a>            <span class="n">nt</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">max</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span> <span class="o">//</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nt&#39;</span><span class="p">,</span> <span class="n">nt</span><span class="p">)</span>
+</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a>        <span class="n">zero</span> <span class="o">=</span> <span class="n">neid</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.0</span><span class="p">]</span>
+</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a>        <span class="n">four</span> <span class="o">=</span> <span class="n">neid</span> <span class="o">*</span> <span class="p">[</span><span class="mf">4.0</span><span class="p">]</span>
+</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;zero&#39;</span><span class="p">,</span> <span class="n">zero</span><span class="p">)</span>
+</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;four&#39;</span><span class="p">,</span> <span class="n">four</span><span class="p">)</span>
+</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a>        <span class="n">delta</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">([</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[[</span><span class="n">obs</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">o</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">sl</span><span class="p">]</span> <span class="k">for</span> <span class="n">sl</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">values</span><span class="p">())]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">])</span>
+</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a>
+</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a>        <span class="n">bdio_start_record</span><span class="p">(</span><span class="mh">0x00</span><span class="p">,</span> <span class="mi">8</span><span class="p">,</span> <span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a>
+</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>        <span class="k">def</span> <span class="nf">write_c_double</span><span class="p">(</span><span class="n">double</span><span class="p">):</span>
+</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span><span class="p">(</span><span class="n">double</span><span class="p">)</span>
+</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>            <span class="n">bdio_write_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">8</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>
+</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>        <span class="k">def</span> <span class="nf">write_c_size_t</span><span class="p">(</span><span class="n">int32</span><span class="p">):</span>
+</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">int32</span><span class="p">)</span>
+</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>            <span class="n">bdio_write_int32</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">4</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>
+</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>        <span class="n">write_c_double</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
+</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>        <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">neid</span><span class="p">)</span>
+</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>
+</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">ndata</span><span class="p">:</span>
+</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">nrep</span><span class="p">:</span>
+</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">vrep_write</span><span class="p">:</span>
+</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">ids</span><span class="p">:</span>
+</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">nt</span><span class="p">:</span>
+</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>
+</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">zero</span><span class="p">:</span>
+</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>            <span class="n">write_c_double</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">four</span><span class="p">:</span>
+</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>            <span class="n">write_c_double</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>
+</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">delta</span><span class="p">:</span>
+</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>            <span class="n">write_c_double</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a>
+</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>    <span class="k">return</span> <span class="mi">0</span>
 </span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>
-</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a><span class="k">def</span> <span class="nf">_get_kwd</span><span class="p">(</span><span class="n">string</span><span class="p">,</span> <span class="n">key</span><span class="p">):</span>
-</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">string</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">1</span><span class="p">)[</span><span class="mi">1</span><span class="p">])</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot; &quot;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>
+</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>
+</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a><span class="k">def</span> <span class="nf">_get_kwd</span><span class="p">(</span><span class="n">string</span><span class="p">,</span> <span class="n">key</span><span class="p">):</span>
+</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">string</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">1</span><span class="p">)[</span><span class="mi">1</span><span class="p">])</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot; &quot;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
 </span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a>
-</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a><span class="k">def</span> <span class="nf">_get_corr_name</span><span class="p">(</span><span class="n">string</span><span class="p">,</span> <span class="n">key</span><span class="p">):</span>
-</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">string</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">1</span><span class="p">)[</span><span class="mi">1</span><span class="p">])</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39; NDIM=&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>
+</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>
+</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a><span class="k">def</span> <span class="nf">_get_corr_name</span><span class="p">(</span><span class="n">string</span><span class="p">,</span> <span class="n">key</span><span class="p">):</span>
+</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">string</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">1</span><span class="p">)[</span><span class="mi">1</span><span class="p">])</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39; NDIM=&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
 </span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a>
-</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a><span class="k">def</span> <span class="nf">read_mesons</span><span class="p">(</span><span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>    <span class="sd">&quot;&quot;&quot; Extract mesons data from a bdio file and return it as a dictionary</span>
-</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>
-</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a><span class="sd">    The dictionary can be accessed with a tuple consisting of (type, source_position, kappa1, kappa2)</span>
-</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a>
-</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a><span class="sd">    read_mesons requires bdio to be compiled into a shared library. This can be achieved by</span>
-</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
-</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a>
-</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
-</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
-</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
-</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a>
-</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a><span class="sd">    Parameters</span>
-</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a><span class="sd">    ----------</span>
-</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a><span class="sd">    file_path : str</span>
-</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a><span class="sd">        path to the bdio file</span>
-</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a><span class="sd">    bdio_path : str</span>
-</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a><span class="sd">        path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
-</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a><span class="sd">    start : int</span>
-</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a><span class="sd">        The first configuration to be read (default 1)</span>
-</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a><span class="sd">    stop : int</span>
-</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a><span class="sd">        The last configuration to be read (default None)</span>
-</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a><span class="sd">    step : int</span>
-</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a><span class="sd">        Fixed step size between two measurements (default 1)</span>
-</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a><span class="sd">    alternative_ensemble_name : str</span>
-</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a><span class="sd">        Manually overwrite ensemble name</span>
-</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>
-</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>    <span class="n">start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;start&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>    <span class="n">stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>    <span class="n">step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;step&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>
-</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
-</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>
-</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
-</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
-</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>
-</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
-</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>
-</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>    <span class="n">bdio_seek_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_seek_record</span>
-</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>
-</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>    <span class="n">bdio_get_rlen</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_rlen</span>
-</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>
-</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>    <span class="n">bdio_get_ruinfo</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_ruinfo</span>
-</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>
-</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>    <span class="n">bdio_read</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read</span>
-</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>
-</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>    <span class="n">bdio_read_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_f64</span>
-</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>
-</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="s1">&#39;r&#39;</span>
-</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>    <span class="n">b_read</span> <span class="o">=</span> <span class="n">read</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>    <span class="n">form</span> <span class="o">=</span> <span class="s1">&#39;Generic Correlator Format 1.0&#39;</span>
-</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>    <span class="n">b_form</span> <span class="o">=</span> <span class="n">form</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>
-</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>    <span class="n">ensemble_name</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-358"><a href="#L-358"><span class="linenos">358</span></a>    <span class="n">volume</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># lattice volume</span>
-</span><span id="L-359"><a href="#L-359"><span class="linenos">359</span></a>    <span class="n">boundary_conditions</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-360"><a href="#L-360"><span class="linenos">360</span></a>    <span class="n">corr_name</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator names</span>
-</span><span id="L-361"><a href="#L-361"><span class="linenos">361</span></a>    <span class="n">corr_type</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator data type (important for reading out numerical data)</span>
-</span><span id="L-362"><a href="#L-362"><span class="linenos">362</span></a>    <span class="n">corr_props</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contanis propagator types (Component of corr_kappa)</span>
-</span><span id="L-363"><a href="#L-363"><span class="linenos">363</span></a>    <span class="n">d0</span> <span class="o">=</span> <span class="mi">0</span>  <span class="c1"># tvals</span>
-</span><span id="L-364"><a href="#L-364"><span class="linenos">364</span></a>    <span class="n">d1</span> <span class="o">=</span> <span class="mi">0</span>  <span class="c1"># nnoise</span>
-</span><span id="L-365"><a href="#L-365"><span class="linenos">365</span></a>    <span class="n">prop_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator kappas (Component of corr_kappa)</span>
-</span><span id="L-366"><a href="#L-366"><span class="linenos">366</span></a>    <span class="n">prop_source</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator source positions</span>
-</span><span id="L-367"><a href="#L-367"><span class="linenos">367</span></a>    <span class="c1"># Check noise type for multiple replica?</span>
-</span><span id="L-368"><a href="#L-368"><span class="linenos">368</span></a>    <span class="n">corr_no</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
-</span><span id="L-369"><a href="#L-369"><span class="linenos">369</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-370"><a href="#L-370"><span class="linenos">370</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-371"><a href="#L-371"><span class="linenos">371</span></a>
-</span><span id="L-372"><a href="#L-372"><span class="linenos">372</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_read</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_form</span><span class="p">))</span>
-</span><span id="L-373"><a href="#L-373"><span class="linenos">373</span></a>
-</span><span id="L-374"><a href="#L-374"><span class="linenos">374</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Reading of bdio file started&#39;</span><span class="p">)</span>
-</span><span id="L-375"><a href="#L-375"><span class="linenos">375</span></a>    <span class="k">while</span> <span class="mi">1</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-376"><a href="#L-376"><span class="linenos">376</span></a>        <span class="n">bdio_seek_record</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-377"><a href="#L-377"><span class="linenos">377</span></a>        <span class="n">ruinfo</span> <span class="o">=</span> <span class="n">bdio_get_ruinfo</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-378"><a href="#L-378"><span class="linenos">378</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-379"><a href="#L-379"><span class="linenos">379</span></a>            <span class="c1"># EOF reached</span>
-</span><span id="L-380"><a href="#L-380"><span class="linenos">380</span></a>            <span class="k">break</span>
-</span><span id="L-381"><a href="#L-381"><span class="linenos">381</span></a>        <span class="n">rlen</span> <span class="o">=</span> <span class="n">bdio_get_rlen</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-382"><a href="#L-382"><span class="linenos">382</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">5</span><span class="p">:</span>
-</span><span id="L-383"><a href="#L-383"><span class="linenos">383</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">+</span> <span class="n">d0</span> <span class="o">*</span> <span class="n">d1</span> <span class="o">*</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-384"><a href="#L-384"><span class="linenos">384</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
-</span><span id="L-385"><a href="#L-385"><span class="linenos">385</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="L-386"><a href="#L-386"><span class="linenos">386</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="L-387"><a href="#L-387"><span class="linenos">387</span></a>            <span class="k">if</span> <span class="n">corr_type</span><span class="p">[</span><span class="n">corr_no</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;complex&#39;</span><span class="p">:</span>
-</span><span id="L-388"><a href="#L-388"><span class="linenos">388</span></a>                <span class="n">tmp_mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">[</span><span class="mi">2</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">d1</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span> <span class="o">*</span> <span class="n">d1</span><span class="p">:</span><span class="mi">2</span><span class="p">]),</span> <span class="n">d0</span> <span class="o">-</span> <span class="mi">2</span><span class="p">)),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="L-389"><a href="#L-389"><span class="linenos">389</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-390"><a href="#L-390"><span class="linenos">390</span></a>                <span class="n">tmp_mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">[</span><span class="mi">2</span> <span class="o">+</span> <span class="n">d1</span><span class="p">:</span><span class="o">-</span><span class="n">d0</span> <span class="o">*</span> <span class="n">d1</span> <span class="o">-</span> <span class="n">d1</span><span class="p">]),</span> <span class="n">d0</span> <span class="o">-</span> <span class="mi">2</span><span class="p">)),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="L-391"><a href="#L-391"><span class="linenos">391</span></a>
-</span><span id="L-392"><a href="#L-392"><span class="linenos">392</span></a>            <span class="n">data</span><span class="p">[</span><span class="n">corr_no</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_mean</span><span class="p">)</span>
-</span><span id="L-393"><a href="#L-393"><span class="linenos">393</span></a>            <span class="n">corr_no</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-394"><a href="#L-394"><span class="linenos">394</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-395"><a href="#L-395"><span class="linenos">395</span></a>            <span class="n">alt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">create_string_buffer</span><span class="p">(</span><span class="mi">1024</span><span class="p">)</span>
-</span><span id="L-396"><a href="#L-396"><span class="linenos">396</span></a>            <span class="n">palt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">))</span>
-</span><span id="L-397"><a href="#L-397"><span class="linenos">397</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read</span><span class="p">(</span><span class="n">palt_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="L-398"><a href="#L-398"><span class="linenos">398</span></a>            <span class="k">if</span> <span class="n">rlen</span> <span class="o">!=</span> <span class="n">iread</span><span class="p">:</span>
-</span><span id="L-399"><a href="#L-399"><span class="linenos">399</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error&#39;</span><span class="p">)</span>
-</span><span id="L-400"><a href="#L-400"><span class="linenos">400</span></a>            <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">):</span>
-</span><span id="L-401"><a href="#L-401"><span class="linenos">401</span></a>                <span class="k">if</span> <span class="n">item</span> <span class="o">==</span> <span class="sa">b</span><span class="s1">&#39;</span><span class="se">\x00</span><span class="s1">&#39;</span><span class="p">:</span>
-</span><span id="L-402"><a href="#L-402"><span class="linenos">402</span></a>                    <span class="n">alt_buf</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="sa">b</span><span class="s1">&#39; &#39;</span>
-</span><span id="L-403"><a href="#L-403"><span class="linenos">403</span></a>            <span class="n">tmp_string</span> <span class="o">=</span> <span class="p">(</span><span class="n">alt_buf</span><span class="p">[:]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s2">&quot;utf-8&quot;</span><span class="p">))</span><span class="o">.</span><span class="n">rstrip</span><span class="p">()</span>
-</span><span id="L-404"><a href="#L-404"><span class="linenos">404</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-405"><a href="#L-405"><span class="linenos">405</span></a>                <span class="n">ensemble_name</span> <span class="o">=</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;ENSEMBLE=&#39;</span><span class="p">)</span>
-</span><span id="L-406"><a href="#L-406"><span class="linenos">406</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L0=&#39;</span><span class="p">)))</span>
-</span><span id="L-407"><a href="#L-407"><span class="linenos">407</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L1=&#39;</span><span class="p">)))</span>
-</span><span id="L-408"><a href="#L-408"><span class="linenos">408</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L2=&#39;</span><span class="p">)))</span>
-</span><span id="L-409"><a href="#L-409"><span class="linenos">409</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L3=&#39;</span><span class="p">)))</span>
-</span><span id="L-410"><a href="#L-410"><span class="linenos">410</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC0=&#39;</span><span class="p">))</span>
-</span><span id="L-411"><a href="#L-411"><span class="linenos">411</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC1=&#39;</span><span class="p">))</span>
-</span><span id="L-412"><a href="#L-412"><span class="linenos">412</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC2=&#39;</span><span class="p">))</span>
-</span><span id="L-413"><a href="#L-413"><span class="linenos">413</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC3=&#39;</span><span class="p">))</span>
-</span><span id="L-414"><a href="#L-414"><span class="linenos">414</span></a>
-</span><span id="L-415"><a href="#L-415"><span class="linenos">415</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-416"><a href="#L-416"><span class="linenos">416</span></a>                <span class="n">corr_name</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_corr_name</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CORR_NAME=&#39;</span><span class="p">))</span>
-</span><span id="L-417"><a href="#L-417"><span class="linenos">417</span></a>                <span class="n">corr_type</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;DATATYPE=&#39;</span><span class="p">))</span>
-</span><span id="L-418"><a href="#L-418"><span class="linenos">418</span></a>                <span class="n">corr_props</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;PROP0=&#39;</span><span class="p">),</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;PROP1=&#39;</span><span class="p">)])</span>
-</span><span id="L-419"><a href="#L-419"><span class="linenos">419</span></a>                <span class="k">if</span> <span class="n">d0</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-420"><a href="#L-420"><span class="linenos">420</span></a>                    <span class="n">d0</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">))</span>
-</span><span id="L-421"><a href="#L-421"><span class="linenos">421</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-422"><a href="#L-422"><span class="linenos">422</span></a>                    <span class="k">if</span> <span class="n">d0</span> <span class="o">!=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">)):</span>
-</span><span id="L-423"><a href="#L-423"><span class="linenos">423</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error: Varying number of time values&#39;</span><span class="p">)</span>
-</span><span id="L-424"><a href="#L-424"><span class="linenos">424</span></a>                <span class="k">if</span> <span class="n">d1</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-425"><a href="#L-425"><span class="linenos">425</span></a>                    <span class="n">d1</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D1=&#39;</span><span class="p">))</span>
-</span><span id="L-426"><a href="#L-426"><span class="linenos">426</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-427"><a href="#L-427"><span class="linenos">427</span></a>                    <span class="k">if</span> <span class="n">d1</span> <span class="o">!=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D1=&#39;</span><span class="p">)):</span>
-</span><span id="L-428"><a href="#L-428"><span class="linenos">428</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error: Varying number of random sources&#39;</span><span class="p">)</span>
-</span><span id="L-429"><a href="#L-429"><span class="linenos">429</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="L-430"><a href="#L-430"><span class="linenos">430</span></a>                <span class="n">prop_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;KAPPA=&#39;</span><span class="p">))</span>
-</span><span id="L-431"><a href="#L-431"><span class="linenos">431</span></a>                <span class="n">prop_source</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;x0=&#39;</span><span class="p">))</span>
-</span><span id="L-432"><a href="#L-432"><span class="linenos">432</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">4</span><span class="p">:</span>
-</span><span id="L-433"><a href="#L-433"><span class="linenos">433</span></a>                <span class="n">cnfg_no</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CNFG_ID=&#39;</span><span class="p">))</span>
-</span><span id="L-434"><a href="#L-434"><span class="linenos">434</span></a>                <span class="k">if</span> <span class="n">stop</span><span class="p">:</span>
-</span><span id="L-435"><a href="#L-435"><span class="linenos">435</span></a>                    <span class="k">if</span> <span class="n">cnfg_no</span> <span class="o">&gt;</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">):</span>
-</span><span id="L-436"><a href="#L-436"><span class="linenos">436</span></a>                        <span class="k">break</span>
-</span><span id="L-437"><a href="#L-437"><span class="linenos">437</span></a>                <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg_no</span><span class="p">)</span>
-</span><span id="L-438"><a href="#L-438"><span class="linenos">438</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\r</span><span class="si">%s</span><span class="s1"> </span><span class="si">%i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;Reading configuration&#39;</span><span class="p">,</span> <span class="n">cnfg_no</span><span class="p">),</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;</span><span class="se">\r</span><span class="s1">&#39;</span><span class="p">)</span>
-</span><span id="L-439"><a href="#L-439"><span class="linenos">439</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-440"><a href="#L-440"><span class="linenos">440</span></a>                    <span class="n">no_corrs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">)</span>
-</span><span id="L-441"><a href="#L-441"><span class="linenos">441</span></a>                    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-442"><a href="#L-442"><span class="linenos">442</span></a>                    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
-</span><span id="L-443"><a href="#L-443"><span class="linenos">443</span></a>                        <span class="n">data</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-444"><a href="#L-444"><span class="linenos">444</span></a>
-</span><span id="L-445"><a href="#L-445"><span class="linenos">445</span></a>                <span class="n">corr_no</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-446"><a href="#L-446"><span class="linenos">446</span></a>
-</span><span id="L-447"><a href="#L-447"><span class="linenos">447</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-448"><a href="#L-448"><span class="linenos">448</span></a>
-</span><span id="L-449"><a href="#L-449"><span class="linenos">449</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">Ensemble: &#39;</span><span class="p">,</span> <span class="n">ensemble_name</span><span class="p">)</span>
-</span><span id="L-450"><a href="#L-450"><span class="linenos">450</span></a>    <span class="k">if</span> <span class="s1">&#39;alternative_ensemble_name&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-451"><a href="#L-451"><span class="linenos">451</span></a>        <span class="n">ensemble_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;alternative_ensemble_name&#39;</span><span class="p">)</span>
-</span><span id="L-452"><a href="#L-452"><span class="linenos">452</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Ensemble name overwritten to&#39;</span><span class="p">,</span> <span class="n">ensemble_name</span><span class="p">)</span>
-</span><span id="L-453"><a href="#L-453"><span class="linenos">453</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Lattice volume: &#39;</span><span class="p">,</span> <span class="n">volume</span><span class="p">)</span>
-</span><span id="L-454"><a href="#L-454"><span class="linenos">454</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Boundary conditions: &#39;</span><span class="p">,</span> <span class="n">boundary_conditions</span><span class="p">)</span>
-</span><span id="L-455"><a href="#L-455"><span class="linenos">455</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of time values: &#39;</span><span class="p">,</span> <span class="n">d0</span><span class="p">)</span>
-</span><span id="L-456"><a href="#L-456"><span class="linenos">456</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of random sources: &#39;</span><span class="p">,</span> <span class="n">d1</span><span class="p">)</span>
-</span><span id="L-457"><a href="#L-457"><span class="linenos">457</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of corrs: &#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">))</span>
-</span><span id="L-458"><a href="#L-458"><span class="linenos">458</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of configurations: &#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">))</span>
-</span><span id="L-459"><a href="#L-459"><span class="linenos">459</span></a>
-</span><span id="L-460"><a href="#L-460"><span class="linenos">460</span></a>    <span class="n">corr_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains kappa values for both propagators of given correlation function</span>
-</span><span id="L-461"><a href="#L-461"><span class="linenos">461</span></a>    <span class="n">corr_source</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-462"><a href="#L-462"><span class="linenos">462</span></a>    <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">corr_props</span><span class="p">:</span>
-</span><span id="L-463"><a href="#L-463"><span class="linenos">463</span></a>        <span class="n">corr_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="nb">float</span><span class="p">(</span><span class="n">prop_kappa</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">])]),</span> <span class="nb">float</span><span class="p">(</span><span class="n">prop_kappa</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">1</span><span class="p">])])])</span>
-</span><span id="L-464"><a href="#L-464"><span class="linenos">464</span></a>        <span class="k">if</span> <span class="n">prop_source</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">])]</span> <span class="o">!=</span> <span class="n">prop_source</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">1</span><span class="p">])]:</span>
-</span><span id="L-465"><a href="#L-465"><span class="linenos">465</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Source position do not match for correlator&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">item</span><span class="p">))</span>
-</span><span id="L-466"><a href="#L-466"><span class="linenos">466</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-467"><a href="#L-467"><span class="linenos">467</span></a>            <span class="n">corr_source</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">prop_source</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">])]))</span>
-</span><span id="L-468"><a href="#L-468"><span class="linenos">468</span></a>
-</span><span id="L-469"><a href="#L-469"><span class="linenos">469</span></a>    <span class="k">if</span> <span class="n">stop</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-470"><a href="#L-470"><span class="linenos">470</span></a>        <span class="n">stop</span> <span class="o">=</span> <span class="n">idl</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-471"><a href="#L-471"><span class="linenos">471</span></a>    <span class="n">idl_target</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">start</span><span class="p">,</span> <span class="n">stop</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">step</span><span class="p">)</span>
-</span><span id="L-472"><a href="#L-472"><span class="linenos">472</span></a>
-</span><span id="L-473"><a href="#L-473"><span class="linenos">473</span></a>    <span class="k">if</span> <span class="nb">set</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">set</span><span class="p">(</span><span class="n">idl_target</span><span class="p">):</span>
-</span><span id="L-474"><a href="#L-474"><span class="linenos">474</span></a>        <span class="k">try</span><span class="p">:</span>
-</span><span id="L-475"><a href="#L-475"><span class="linenos">475</span></a>            <span class="n">indices</span> <span class="o">=</span> <span class="p">[</span><span class="n">idl</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">idl_target</span><span class="p">]</span>
-</span><span id="L-476"><a href="#L-476"><span class="linenos">476</span></a>        <span class="k">except</span> <span class="ne">ValueError</span> <span class="k">as</span> <span class="n">err</span><span class="p">:</span>
-</span><span id="L-477"><a href="#L-477"><span class="linenos">477</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Configurations in file do no match target list!&#39;</span><span class="p">,</span> <span class="n">err</span><span class="p">)</span>
-</span><span id="L-478"><a href="#L-478"><span class="linenos">478</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-479"><a href="#L-479"><span class="linenos">479</span></a>        <span class="n">indices</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-480"><a href="#L-480"><span class="linenos">480</span></a>
-</span><span id="L-481"><a href="#L-481"><span class="linenos">481</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-482"><a href="#L-482"><span class="linenos">482</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
-</span><span id="L-483"><a href="#L-483"><span class="linenos">483</span></a>        <span class="n">tmp_corr</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-484"><a href="#L-484"><span class="linenos">484</span></a>        <span class="n">tmp_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="n">c</span><span class="p">])</span>
-</span><span id="L-485"><a href="#L-485"><span class="linenos">485</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">d0</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="L-486"><a href="#L-486"><span class="linenos">486</span></a>            <span class="k">if</span> <span class="n">indices</span><span class="p">:</span>
-</span><span id="L-487"><a href="#L-487"><span class="linenos">487</span></a>                <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">tmp_data</span><span class="p">[:,</span> <span class="n">t</span><span class="p">][</span><span class="n">index</span><span class="p">]</span> <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">indices</span><span class="p">]</span>
-</span><span id="L-488"><a href="#L-488"><span class="linenos">488</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-489"><a href="#L-489"><span class="linenos">489</span></a>                <span class="n">deltas</span> <span class="o">=</span> <span class="n">tmp_data</span><span class="p">[:,</span> <span class="n">t</span><span class="p">]</span>
-</span><span id="L-490"><a href="#L-490"><span class="linenos">490</span></a>            <span class="n">tmp_corr</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="n">deltas</span><span class="p">],</span> <span class="p">[</span><span class="n">ensemble_name</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idl_target</span><span class="p">]))</span>
-</span><span id="L-491"><a href="#L-491"><span class="linenos">491</span></a>        <span class="n">result</span><span class="p">[(</span><span class="n">corr_name</span><span class="p">[</span><span class="n">c</span><span class="p">],</span> <span class="n">corr_source</span><span class="p">[</span><span class="n">c</span><span class="p">])</span> <span class="o">+</span> <span class="nb">tuple</span><span class="p">(</span><span class="n">corr_kappa</span><span class="p">[</span><span class="n">c</span><span class="p">])]</span> <span class="o">=</span> <span class="n">tmp_corr</span>
-</span><span id="L-492"><a href="#L-492"><span class="linenos">492</span></a>
-</span><span id="L-493"><a href="#L-493"><span class="linenos">493</span></a>    <span class="c1"># Check that all data entries have the same number of configurations</span>
-</span><span id="L-494"><a href="#L-494"><span class="linenos">494</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">N</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">result</span><span class="o">.</span><span class="n">values</span><span class="p">())]))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-495"><a href="#L-495"><span class="linenos">495</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not all correlators have the same number of configurations. bdio file is possibly corrupted.&#39;</span><span class="p">)</span>
-</span><span id="L-496"><a href="#L-496"><span class="linenos">496</span></a>
-</span><span id="L-497"><a href="#L-497"><span class="linenos">497</span></a>    <span class="k">return</span> <span class="n">result</span>
-</span><span id="L-498"><a href="#L-498"><span class="linenos">498</span></a>
+</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a>
+</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a><span class="k">def</span> <span class="nf">read_mesons</span><span class="p">(</span><span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>    <span class="sd">&quot;&quot;&quot; Extract mesons data from a bdio file and return it as a dictionary</span>
+</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a>
+</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a><span class="sd">    The dictionary can be accessed with a tuple consisting of (type, source_position, kappa1, kappa2)</span>
+</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a>
+</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a><span class="sd">    read_mesons requires bdio to be compiled into a shared library. This can be achieved by</span>
+</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
+</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a>
+</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
+</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
+</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
+</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a>
+</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a><span class="sd">    Parameters</span>
+</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a><span class="sd">    ----------</span>
+</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a><span class="sd">    file_path : str</span>
+</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a><span class="sd">        path to the bdio file</span>
+</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a><span class="sd">    bdio_path : str</span>
+</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a><span class="sd">        path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
+</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a><span class="sd">    start : int</span>
+</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a><span class="sd">        The first configuration to be read (default 1)</span>
+</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a><span class="sd">    stop : int</span>
+</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a><span class="sd">        The last configuration to be read (default None)</span>
+</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a><span class="sd">    step : int</span>
+</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a><span class="sd">        Fixed step size between two measurements (default 1)</span>
+</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a><span class="sd">    alternative_ensemble_name : str</span>
+</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a><span class="sd">        Manually overwrite ensemble name</span>
+</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>
+</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>    <span class="n">start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;start&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>    <span class="n">stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>    <span class="n">step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;step&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>
+</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
+</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>
+</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
+</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
+</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>
+</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
+</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>
+</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>    <span class="n">bdio_seek_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_seek_record</span>
+</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>
+</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>    <span class="n">bdio_get_rlen</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_rlen</span>
+</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>
+</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>    <span class="n">bdio_get_ruinfo</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_ruinfo</span>
+</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>
+</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>    <span class="n">bdio_read</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read</span>
+</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>
+</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>    <span class="n">bdio_read_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_f64</span>
+</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>
+</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="s1">&#39;r&#39;</span>
+</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>    <span class="n">b_read</span> <span class="o">=</span> <span class="n">read</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>    <span class="n">form</span> <span class="o">=</span> <span class="s1">&#39;Generic Correlator Format 1.0&#39;</span>
+</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>    <span class="n">b_form</span> <span class="o">=</span> <span class="n">form</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>
+</span><span id="L-358"><a href="#L-358"><span class="linenos">358</span></a>    <span class="n">ensemble_name</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-359"><a href="#L-359"><span class="linenos">359</span></a>    <span class="n">volume</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># lattice volume</span>
+</span><span id="L-360"><a href="#L-360"><span class="linenos">360</span></a>    <span class="n">boundary_conditions</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-361"><a href="#L-361"><span class="linenos">361</span></a>    <span class="n">corr_name</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator names</span>
+</span><span id="L-362"><a href="#L-362"><span class="linenos">362</span></a>    <span class="n">corr_type</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator data type (important for reading out numerical data)</span>
+</span><span id="L-363"><a href="#L-363"><span class="linenos">363</span></a>    <span class="n">corr_props</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contanis propagator types (Component of corr_kappa)</span>
+</span><span id="L-364"><a href="#L-364"><span class="linenos">364</span></a>    <span class="n">d0</span> <span class="o">=</span> <span class="mi">0</span>  <span class="c1"># tvals</span>
+</span><span id="L-365"><a href="#L-365"><span class="linenos">365</span></a>    <span class="n">d1</span> <span class="o">=</span> <span class="mi">0</span>  <span class="c1"># nnoise</span>
+</span><span id="L-366"><a href="#L-366"><span class="linenos">366</span></a>    <span class="n">prop_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator kappas (Component of corr_kappa)</span>
+</span><span id="L-367"><a href="#L-367"><span class="linenos">367</span></a>    <span class="n">prop_source</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator source positions</span>
+</span><span id="L-368"><a href="#L-368"><span class="linenos">368</span></a>    <span class="c1"># Check noise type for multiple replica?</span>
+</span><span id="L-369"><a href="#L-369"><span class="linenos">369</span></a>    <span class="n">corr_no</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
+</span><span id="L-370"><a href="#L-370"><span class="linenos">370</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-371"><a href="#L-371"><span class="linenos">371</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-372"><a href="#L-372"><span class="linenos">372</span></a>
+</span><span id="L-373"><a href="#L-373"><span class="linenos">373</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_read</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_form</span><span class="p">))</span>
+</span><span id="L-374"><a href="#L-374"><span class="linenos">374</span></a>
+</span><span id="L-375"><a href="#L-375"><span class="linenos">375</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Reading of bdio file started&#39;</span><span class="p">)</span>
+</span><span id="L-376"><a href="#L-376"><span class="linenos">376</span></a>    <span class="k">while</span> <span class="mi">1</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-377"><a href="#L-377"><span class="linenos">377</span></a>        <span class="n">bdio_seek_record</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-378"><a href="#L-378"><span class="linenos">378</span></a>        <span class="n">ruinfo</span> <span class="o">=</span> <span class="n">bdio_get_ruinfo</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-379"><a href="#L-379"><span class="linenos">379</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-380"><a href="#L-380"><span class="linenos">380</span></a>            <span class="c1"># EOF reached</span>
+</span><span id="L-381"><a href="#L-381"><span class="linenos">381</span></a>            <span class="k">break</span>
+</span><span id="L-382"><a href="#L-382"><span class="linenos">382</span></a>        <span class="n">rlen</span> <span class="o">=</span> <span class="n">bdio_get_rlen</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-383"><a href="#L-383"><span class="linenos">383</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">5</span><span class="p">:</span>
+</span><span id="L-384"><a href="#L-384"><span class="linenos">384</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">+</span> <span class="n">d0</span> <span class="o">*</span> <span class="n">d1</span> <span class="o">*</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-385"><a href="#L-385"><span class="linenos">385</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
+</span><span id="L-386"><a href="#L-386"><span class="linenos">386</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="L-387"><a href="#L-387"><span class="linenos">387</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="L-388"><a href="#L-388"><span class="linenos">388</span></a>            <span class="k">if</span> <span class="n">corr_type</span><span class="p">[</span><span class="n">corr_no</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;complex&#39;</span><span class="p">:</span>
+</span><span id="L-389"><a href="#L-389"><span class="linenos">389</span></a>                <span class="n">tmp_mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">[</span><span class="mi">2</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">d1</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span> <span class="o">*</span> <span class="n">d1</span><span class="p">:</span><span class="mi">2</span><span class="p">]),</span> <span class="n">d0</span> <span class="o">-</span> <span class="mi">2</span><span class="p">)),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="L-390"><a href="#L-390"><span class="linenos">390</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-391"><a href="#L-391"><span class="linenos">391</span></a>                <span class="n">tmp_mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">[</span><span class="mi">2</span> <span class="o">+</span> <span class="n">d1</span><span class="p">:</span><span class="o">-</span><span class="n">d0</span> <span class="o">*</span> <span class="n">d1</span> <span class="o">-</span> <span class="n">d1</span><span class="p">]),</span> <span class="n">d0</span> <span class="o">-</span> <span class="mi">2</span><span class="p">)),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="L-392"><a href="#L-392"><span class="linenos">392</span></a>
+</span><span id="L-393"><a href="#L-393"><span class="linenos">393</span></a>            <span class="n">data</span><span class="p">[</span><span class="n">corr_no</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_mean</span><span class="p">)</span>
+</span><span id="L-394"><a href="#L-394"><span class="linenos">394</span></a>            <span class="n">corr_no</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-395"><a href="#L-395"><span class="linenos">395</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-396"><a href="#L-396"><span class="linenos">396</span></a>            <span class="n">alt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">create_string_buffer</span><span class="p">(</span><span class="mi">1024</span><span class="p">)</span>
+</span><span id="L-397"><a href="#L-397"><span class="linenos">397</span></a>            <span class="n">palt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">))</span>
+</span><span id="L-398"><a href="#L-398"><span class="linenos">398</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read</span><span class="p">(</span><span class="n">palt_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="L-399"><a href="#L-399"><span class="linenos">399</span></a>            <span class="k">if</span> <span class="n">rlen</span> <span class="o">!=</span> <span class="n">iread</span><span class="p">:</span>
+</span><span id="L-400"><a href="#L-400"><span class="linenos">400</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error&#39;</span><span class="p">)</span>
+</span><span id="L-401"><a href="#L-401"><span class="linenos">401</span></a>            <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">):</span>
+</span><span id="L-402"><a href="#L-402"><span class="linenos">402</span></a>                <span class="k">if</span> <span class="n">item</span> <span class="o">==</span> <span class="sa">b</span><span class="s1">&#39;</span><span class="se">\x00</span><span class="s1">&#39;</span><span class="p">:</span>
+</span><span id="L-403"><a href="#L-403"><span class="linenos">403</span></a>                    <span class="n">alt_buf</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="sa">b</span><span class="s1">&#39; &#39;</span>
+</span><span id="L-404"><a href="#L-404"><span class="linenos">404</span></a>            <span class="n">tmp_string</span> <span class="o">=</span> <span class="p">(</span><span class="n">alt_buf</span><span class="p">[:]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s2">&quot;utf-8&quot;</span><span class="p">))</span><span class="o">.</span><span class="n">rstrip</span><span class="p">()</span>
+</span><span id="L-405"><a href="#L-405"><span class="linenos">405</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-406"><a href="#L-406"><span class="linenos">406</span></a>                <span class="n">ensemble_name</span> <span class="o">=</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;ENSEMBLE=&#39;</span><span class="p">)</span>
+</span><span id="L-407"><a href="#L-407"><span class="linenos">407</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L0=&#39;</span><span class="p">)))</span>
+</span><span id="L-408"><a href="#L-408"><span class="linenos">408</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L1=&#39;</span><span class="p">)))</span>
+</span><span id="L-409"><a href="#L-409"><span class="linenos">409</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L2=&#39;</span><span class="p">)))</span>
+</span><span id="L-410"><a href="#L-410"><span class="linenos">410</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L3=&#39;</span><span class="p">)))</span>
+</span><span id="L-411"><a href="#L-411"><span class="linenos">411</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC0=&#39;</span><span class="p">))</span>
+</span><span id="L-412"><a href="#L-412"><span class="linenos">412</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC1=&#39;</span><span class="p">))</span>
+</span><span id="L-413"><a href="#L-413"><span class="linenos">413</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC2=&#39;</span><span class="p">))</span>
+</span><span id="L-414"><a href="#L-414"><span class="linenos">414</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC3=&#39;</span><span class="p">))</span>
+</span><span id="L-415"><a href="#L-415"><span class="linenos">415</span></a>
+</span><span id="L-416"><a href="#L-416"><span class="linenos">416</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-417"><a href="#L-417"><span class="linenos">417</span></a>                <span class="n">corr_name</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_corr_name</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CORR_NAME=&#39;</span><span class="p">))</span>
+</span><span id="L-418"><a href="#L-418"><span class="linenos">418</span></a>                <span class="n">corr_type</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;DATATYPE=&#39;</span><span class="p">))</span>
+</span><span id="L-419"><a href="#L-419"><span class="linenos">419</span></a>                <span class="n">corr_props</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;PROP0=&#39;</span><span class="p">),</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;PROP1=&#39;</span><span class="p">)])</span>
+</span><span id="L-420"><a href="#L-420"><span class="linenos">420</span></a>                <span class="k">if</span> <span class="n">d0</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-421"><a href="#L-421"><span class="linenos">421</span></a>                    <span class="n">d0</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">))</span>
+</span><span id="L-422"><a href="#L-422"><span class="linenos">422</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-423"><a href="#L-423"><span class="linenos">423</span></a>                    <span class="k">if</span> <span class="n">d0</span> <span class="o">!=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">)):</span>
+</span><span id="L-424"><a href="#L-424"><span class="linenos">424</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error: Varying number of time values&#39;</span><span class="p">)</span>
+</span><span id="L-425"><a href="#L-425"><span class="linenos">425</span></a>                <span class="k">if</span> <span class="n">d1</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-426"><a href="#L-426"><span class="linenos">426</span></a>                    <span class="n">d1</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D1=&#39;</span><span class="p">))</span>
+</span><span id="L-427"><a href="#L-427"><span class="linenos">427</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-428"><a href="#L-428"><span class="linenos">428</span></a>                    <span class="k">if</span> <span class="n">d1</span> <span class="o">!=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D1=&#39;</span><span class="p">)):</span>
+</span><span id="L-429"><a href="#L-429"><span class="linenos">429</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error: Varying number of random sources&#39;</span><span class="p">)</span>
+</span><span id="L-430"><a href="#L-430"><span class="linenos">430</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="L-431"><a href="#L-431"><span class="linenos">431</span></a>                <span class="n">prop_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;KAPPA=&#39;</span><span class="p">))</span>
+</span><span id="L-432"><a href="#L-432"><span class="linenos">432</span></a>                <span class="n">prop_source</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;x0=&#39;</span><span class="p">))</span>
+</span><span id="L-433"><a href="#L-433"><span class="linenos">433</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">4</span><span class="p">:</span>
+</span><span id="L-434"><a href="#L-434"><span class="linenos">434</span></a>                <span class="n">cnfg_no</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CNFG_ID=&#39;</span><span class="p">))</span>
+</span><span id="L-435"><a href="#L-435"><span class="linenos">435</span></a>                <span class="k">if</span> <span class="n">stop</span><span class="p">:</span>
+</span><span id="L-436"><a href="#L-436"><span class="linenos">436</span></a>                    <span class="k">if</span> <span class="n">cnfg_no</span> <span class="o">&gt;</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">):</span>
+</span><span id="L-437"><a href="#L-437"><span class="linenos">437</span></a>                        <span class="k">break</span>
+</span><span id="L-438"><a href="#L-438"><span class="linenos">438</span></a>                <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg_no</span><span class="p">)</span>
+</span><span id="L-439"><a href="#L-439"><span class="linenos">439</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\r</span><span class="si">%s</span><span class="s1"> </span><span class="si">%i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;Reading configuration&#39;</span><span class="p">,</span> <span class="n">cnfg_no</span><span class="p">),</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;</span><span class="se">\r</span><span class="s1">&#39;</span><span class="p">)</span>
+</span><span id="L-440"><a href="#L-440"><span class="linenos">440</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-441"><a href="#L-441"><span class="linenos">441</span></a>                    <span class="n">no_corrs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">)</span>
+</span><span id="L-442"><a href="#L-442"><span class="linenos">442</span></a>                    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-443"><a href="#L-443"><span class="linenos">443</span></a>                    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
+</span><span id="L-444"><a href="#L-444"><span class="linenos">444</span></a>                        <span class="n">data</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-445"><a href="#L-445"><span class="linenos">445</span></a>
+</span><span id="L-446"><a href="#L-446"><span class="linenos">446</span></a>                <span class="n">corr_no</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-447"><a href="#L-447"><span class="linenos">447</span></a>
+</span><span id="L-448"><a href="#L-448"><span class="linenos">448</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-449"><a href="#L-449"><span class="linenos">449</span></a>
+</span><span id="L-450"><a href="#L-450"><span class="linenos">450</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">Ensemble: &#39;</span><span class="p">,</span> <span class="n">ensemble_name</span><span class="p">)</span>
+</span><span id="L-451"><a href="#L-451"><span class="linenos">451</span></a>    <span class="k">if</span> <span class="s1">&#39;alternative_ensemble_name&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-452"><a href="#L-452"><span class="linenos">452</span></a>        <span class="n">ensemble_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;alternative_ensemble_name&#39;</span><span class="p">)</span>
+</span><span id="L-453"><a href="#L-453"><span class="linenos">453</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Ensemble name overwritten to&#39;</span><span class="p">,</span> <span class="n">ensemble_name</span><span class="p">)</span>
+</span><span id="L-454"><a href="#L-454"><span class="linenos">454</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Lattice volume: &#39;</span><span class="p">,</span> <span class="n">volume</span><span class="p">)</span>
+</span><span id="L-455"><a href="#L-455"><span class="linenos">455</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Boundary conditions: &#39;</span><span class="p">,</span> <span class="n">boundary_conditions</span><span class="p">)</span>
+</span><span id="L-456"><a href="#L-456"><span class="linenos">456</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of time values: &#39;</span><span class="p">,</span> <span class="n">d0</span><span class="p">)</span>
+</span><span id="L-457"><a href="#L-457"><span class="linenos">457</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of random sources: &#39;</span><span class="p">,</span> <span class="n">d1</span><span class="p">)</span>
+</span><span id="L-458"><a href="#L-458"><span class="linenos">458</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of corrs: &#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">))</span>
+</span><span id="L-459"><a href="#L-459"><span class="linenos">459</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of configurations: &#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">))</span>
+</span><span id="L-460"><a href="#L-460"><span class="linenos">460</span></a>
+</span><span id="L-461"><a href="#L-461"><span class="linenos">461</span></a>    <span class="n">corr_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains kappa values for both propagators of given correlation function</span>
+</span><span id="L-462"><a href="#L-462"><span class="linenos">462</span></a>    <span class="n">corr_source</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-463"><a href="#L-463"><span class="linenos">463</span></a>    <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">corr_props</span><span class="p">:</span>
+</span><span id="L-464"><a href="#L-464"><span class="linenos">464</span></a>        <span class="n">corr_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="nb">float</span><span class="p">(</span><span class="n">prop_kappa</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">])]),</span> <span class="nb">float</span><span class="p">(</span><span class="n">prop_kappa</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">1</span><span class="p">])])])</span>
+</span><span id="L-465"><a href="#L-465"><span class="linenos">465</span></a>        <span class="k">if</span> <span class="n">prop_source</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">])]</span> <span class="o">!=</span> <span class="n">prop_source</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">1</span><span class="p">])]:</span>
+</span><span id="L-466"><a href="#L-466"><span class="linenos">466</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Source position do not match for correlator&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">item</span><span class="p">))</span>
+</span><span id="L-467"><a href="#L-467"><span class="linenos">467</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-468"><a href="#L-468"><span class="linenos">468</span></a>            <span class="n">corr_source</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">prop_source</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">])]))</span>
+</span><span id="L-469"><a href="#L-469"><span class="linenos">469</span></a>
+</span><span id="L-470"><a href="#L-470"><span class="linenos">470</span></a>    <span class="k">if</span> <span class="n">stop</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-471"><a href="#L-471"><span class="linenos">471</span></a>        <span class="n">stop</span> <span class="o">=</span> <span class="n">idl</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-472"><a href="#L-472"><span class="linenos">472</span></a>    <span class="n">idl_target</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">start</span><span class="p">,</span> <span class="n">stop</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">step</span><span class="p">)</span>
+</span><span id="L-473"><a href="#L-473"><span class="linenos">473</span></a>
+</span><span id="L-474"><a href="#L-474"><span class="linenos">474</span></a>    <span class="k">if</span> <span class="nb">set</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">set</span><span class="p">(</span><span class="n">idl_target</span><span class="p">):</span>
+</span><span id="L-475"><a href="#L-475"><span class="linenos">475</span></a>        <span class="k">try</span><span class="p">:</span>
+</span><span id="L-476"><a href="#L-476"><span class="linenos">476</span></a>            <span class="n">indices</span> <span class="o">=</span> <span class="p">[</span><span class="n">idl</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">idl_target</span><span class="p">]</span>
+</span><span id="L-477"><a href="#L-477"><span class="linenos">477</span></a>        <span class="k">except</span> <span class="ne">ValueError</span> <span class="k">as</span> <span class="n">err</span><span class="p">:</span>
+</span><span id="L-478"><a href="#L-478"><span class="linenos">478</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Configurations in file do no match target list!&#39;</span><span class="p">,</span> <span class="n">err</span><span class="p">)</span>
+</span><span id="L-479"><a href="#L-479"><span class="linenos">479</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-480"><a href="#L-480"><span class="linenos">480</span></a>        <span class="n">indices</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-481"><a href="#L-481"><span class="linenos">481</span></a>
+</span><span id="L-482"><a href="#L-482"><span class="linenos">482</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-483"><a href="#L-483"><span class="linenos">483</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
+</span><span id="L-484"><a href="#L-484"><span class="linenos">484</span></a>        <span class="n">tmp_corr</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-485"><a href="#L-485"><span class="linenos">485</span></a>        <span class="n">tmp_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="n">c</span><span class="p">])</span>
+</span><span id="L-486"><a href="#L-486"><span class="linenos">486</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">d0</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="L-487"><a href="#L-487"><span class="linenos">487</span></a>            <span class="k">if</span> <span class="n">indices</span><span class="p">:</span>
+</span><span id="L-488"><a href="#L-488"><span class="linenos">488</span></a>                <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">tmp_data</span><span class="p">[:,</span> <span class="n">t</span><span class="p">][</span><span class="n">index</span><span class="p">]</span> <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">indices</span><span class="p">]</span>
+</span><span id="L-489"><a href="#L-489"><span class="linenos">489</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-490"><a href="#L-490"><span class="linenos">490</span></a>                <span class="n">deltas</span> <span class="o">=</span> <span class="n">tmp_data</span><span class="p">[:,</span> <span class="n">t</span><span class="p">]</span>
+</span><span id="L-491"><a href="#L-491"><span class="linenos">491</span></a>            <span class="n">tmp_corr</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="n">deltas</span><span class="p">],</span> <span class="p">[</span><span class="n">ensemble_name</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idl_target</span><span class="p">]))</span>
+</span><span id="L-492"><a href="#L-492"><span class="linenos">492</span></a>        <span class="n">result</span><span class="p">[(</span><span class="n">corr_name</span><span class="p">[</span><span class="n">c</span><span class="p">],</span> <span class="n">corr_source</span><span class="p">[</span><span class="n">c</span><span class="p">])</span> <span class="o">+</span> <span class="nb">tuple</span><span class="p">(</span><span class="n">corr_kappa</span><span class="p">[</span><span class="n">c</span><span class="p">])]</span> <span class="o">=</span> <span class="n">tmp_corr</span>
+</span><span id="L-493"><a href="#L-493"><span class="linenos">493</span></a>
+</span><span id="L-494"><a href="#L-494"><span class="linenos">494</span></a>    <span class="c1"># Check that all data entries have the same number of configurations</span>
+</span><span id="L-495"><a href="#L-495"><span class="linenos">495</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">N</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">result</span><span class="o">.</span><span class="n">values</span><span class="p">())]))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-496"><a href="#L-496"><span class="linenos">496</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not all correlators have the same number of configurations. bdio file is possibly corrupted.&#39;</span><span class="p">)</span>
+</span><span id="L-497"><a href="#L-497"><span class="linenos">497</span></a>
+</span><span id="L-498"><a href="#L-498"><span class="linenos">498</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span><span id="L-499"><a href="#L-499"><span class="linenos">499</span></a>
-</span><span id="L-500"><a href="#L-500"><span class="linenos">500</span></a><span class="k">def</span> <span class="nf">read_dSdm</span><span class="p">(</span><span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-501"><a href="#L-501"><span class="linenos">501</span></a>    <span class="sd">&quot;&quot;&quot; Extract dSdm data from a bdio file and return it as a dictionary</span>
-</span><span id="L-502"><a href="#L-502"><span class="linenos">502</span></a>
-</span><span id="L-503"><a href="#L-503"><span class="linenos">503</span></a><span class="sd">    The dictionary can be accessed with a tuple consisting of (type, kappa)</span>
-</span><span id="L-504"><a href="#L-504"><span class="linenos">504</span></a>
-</span><span id="L-505"><a href="#L-505"><span class="linenos">505</span></a><span class="sd">    read_dSdm requires bdio to be compiled into a shared library. This can be achieved by</span>
-</span><span id="L-506"><a href="#L-506"><span class="linenos">506</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
-</span><span id="L-507"><a href="#L-507"><span class="linenos">507</span></a>
-</span><span id="L-508"><a href="#L-508"><span class="linenos">508</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
-</span><span id="L-509"><a href="#L-509"><span class="linenos">509</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
-</span><span id="L-510"><a href="#L-510"><span class="linenos">510</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
-</span><span id="L-511"><a href="#L-511"><span class="linenos">511</span></a>
-</span><span id="L-512"><a href="#L-512"><span class="linenos">512</span></a><span class="sd">    Parameters</span>
-</span><span id="L-513"><a href="#L-513"><span class="linenos">513</span></a><span class="sd">    ----------</span>
-</span><span id="L-514"><a href="#L-514"><span class="linenos">514</span></a><span class="sd">    file_path : str</span>
-</span><span id="L-515"><a href="#L-515"><span class="linenos">515</span></a><span class="sd">        path to the bdio file</span>
-</span><span id="L-516"><a href="#L-516"><span class="linenos">516</span></a><span class="sd">    bdio_path : str</span>
-</span><span id="L-517"><a href="#L-517"><span class="linenos">517</span></a><span class="sd">        path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
-</span><span id="L-518"><a href="#L-518"><span class="linenos">518</span></a><span class="sd">    start : int</span>
-</span><span id="L-519"><a href="#L-519"><span class="linenos">519</span></a><span class="sd">        The first configuration to be read (default 1)</span>
-</span><span id="L-520"><a href="#L-520"><span class="linenos">520</span></a><span class="sd">    stop : int</span>
-</span><span id="L-521"><a href="#L-521"><span class="linenos">521</span></a><span class="sd">        The last configuration to be read (default None)</span>
-</span><span id="L-522"><a href="#L-522"><span class="linenos">522</span></a><span class="sd">    step : int</span>
-</span><span id="L-523"><a href="#L-523"><span class="linenos">523</span></a><span class="sd">        Fixed step size between two measurements (default 1)</span>
-</span><span id="L-524"><a href="#L-524"><span class="linenos">524</span></a><span class="sd">    alternative_ensemble_name : str</span>
-</span><span id="L-525"><a href="#L-525"><span class="linenos">525</span></a><span class="sd">        Manually overwrite ensemble name</span>
-</span><span id="L-526"><a href="#L-526"><span class="linenos">526</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-527"><a href="#L-527"><span class="linenos">527</span></a>
-</span><span id="L-528"><a href="#L-528"><span class="linenos">528</span></a>    <span class="n">start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;start&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-529"><a href="#L-529"><span class="linenos">529</span></a>    <span class="n">stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="L-530"><a href="#L-530"><span class="linenos">530</span></a>    <span class="n">step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;step&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-531"><a href="#L-531"><span class="linenos">531</span></a>
-</span><span id="L-532"><a href="#L-532"><span class="linenos">532</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
-</span><span id="L-533"><a href="#L-533"><span class="linenos">533</span></a>
-</span><span id="L-534"><a href="#L-534"><span class="linenos">534</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
-</span><span id="L-535"><a href="#L-535"><span class="linenos">535</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
-</span><span id="L-536"><a href="#L-536"><span class="linenos">536</span></a>
-</span><span id="L-537"><a href="#L-537"><span class="linenos">537</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
-</span><span id="L-538"><a href="#L-538"><span class="linenos">538</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-539"><a href="#L-539"><span class="linenos">539</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-540"><a href="#L-540"><span class="linenos">540</span></a>
-</span><span id="L-541"><a href="#L-541"><span class="linenos">541</span></a>    <span class="n">bdio_seek_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_seek_record</span>
-</span><span id="L-542"><a href="#L-542"><span class="linenos">542</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-543"><a href="#L-543"><span class="linenos">543</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-544"><a href="#L-544"><span class="linenos">544</span></a>
-</span><span id="L-545"><a href="#L-545"><span class="linenos">545</span></a>    <span class="n">bdio_get_rlen</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_rlen</span>
-</span><span id="L-546"><a href="#L-546"><span class="linenos">546</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-547"><a href="#L-547"><span class="linenos">547</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-548"><a href="#L-548"><span class="linenos">548</span></a>
-</span><span id="L-549"><a href="#L-549"><span class="linenos">549</span></a>    <span class="n">bdio_get_ruinfo</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_ruinfo</span>
-</span><span id="L-550"><a href="#L-550"><span class="linenos">550</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="L-551"><a href="#L-551"><span class="linenos">551</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-552"><a href="#L-552"><span class="linenos">552</span></a>
-</span><span id="L-553"><a href="#L-553"><span class="linenos">553</span></a>    <span class="n">bdio_read</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read</span>
-</span><span id="L-554"><a href="#L-554"><span class="linenos">554</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="L-555"><a href="#L-555"><span class="linenos">555</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-556"><a href="#L-556"><span class="linenos">556</span></a>
-</span><span id="L-557"><a href="#L-557"><span class="linenos">557</span></a>    <span class="n">bdio_read_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_f64</span>
-</span><span id="L-558"><a href="#L-558"><span class="linenos">558</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="L-559"><a href="#L-559"><span class="linenos">559</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="L-560"><a href="#L-560"><span class="linenos">560</span></a>
-</span><span id="L-561"><a href="#L-561"><span class="linenos">561</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-562"><a href="#L-562"><span class="linenos">562</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="s1">&#39;r&#39;</span>
-</span><span id="L-563"><a href="#L-563"><span class="linenos">563</span></a>    <span class="n">b_read</span> <span class="o">=</span> <span class="n">read</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-564"><a href="#L-564"><span class="linenos">564</span></a>    <span class="n">form</span> <span class="o">=</span> <span class="s1">&#39;Generic Correlator Format 1.0&#39;</span>
-</span><span id="L-565"><a href="#L-565"><span class="linenos">565</span></a>    <span class="n">b_form</span> <span class="o">=</span> <span class="n">form</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-566"><a href="#L-566"><span class="linenos">566</span></a>
-</span><span id="L-567"><a href="#L-567"><span class="linenos">567</span></a>    <span class="n">ensemble_name</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-568"><a href="#L-568"><span class="linenos">568</span></a>    <span class="n">volume</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># lattice volume</span>
-</span><span id="L-569"><a href="#L-569"><span class="linenos">569</span></a>    <span class="n">boundary_conditions</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-570"><a href="#L-570"><span class="linenos">570</span></a>    <span class="n">corr_name</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator names</span>
-</span><span id="L-571"><a href="#L-571"><span class="linenos">571</span></a>    <span class="n">corr_type</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator data type (important for reading out numerical data)</span>
-</span><span id="L-572"><a href="#L-572"><span class="linenos">572</span></a>    <span class="n">corr_props</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator types (Component of corr_kappa)</span>
-</span><span id="L-573"><a href="#L-573"><span class="linenos">573</span></a>    <span class="n">d0</span> <span class="o">=</span> <span class="mi">0</span>  <span class="c1"># tvals</span>
-</span><span id="L-574"><a href="#L-574"><span class="linenos">574</span></a>    <span class="c1"># d1 = 0  # nnoise</span>
-</span><span id="L-575"><a href="#L-575"><span class="linenos">575</span></a>    <span class="n">prop_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator kappas (Component of corr_kappa)</span>
-</span><span id="L-576"><a href="#L-576"><span class="linenos">576</span></a>    <span class="c1"># Check noise type for multiple replica?</span>
-</span><span id="L-577"><a href="#L-577"><span class="linenos">577</span></a>    <span class="n">corr_no</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
-</span><span id="L-578"><a href="#L-578"><span class="linenos">578</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-579"><a href="#L-579"><span class="linenos">579</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-580"><a href="#L-580"><span class="linenos">580</span></a>
-</span><span id="L-581"><a href="#L-581"><span class="linenos">581</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_read</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_form</span><span class="p">))</span>
-</span><span id="L-582"><a href="#L-582"><span class="linenos">582</span></a>
-</span><span id="L-583"><a href="#L-583"><span class="linenos">583</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Reading of bdio file started&#39;</span><span class="p">)</span>
-</span><span id="L-584"><a href="#L-584"><span class="linenos">584</span></a>    <span class="k">while</span> <span class="mi">1</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-585"><a href="#L-585"><span class="linenos">585</span></a>        <span class="n">bdio_seek_record</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-586"><a href="#L-586"><span class="linenos">586</span></a>        <span class="n">ruinfo</span> <span class="o">=</span> <span class="n">bdio_get_ruinfo</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-587"><a href="#L-587"><span class="linenos">587</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-588"><a href="#L-588"><span class="linenos">588</span></a>            <span class="c1"># EOF reached</span>
-</span><span id="L-589"><a href="#L-589"><span class="linenos">589</span></a>            <span class="k">break</span>
-</span><span id="L-590"><a href="#L-590"><span class="linenos">590</span></a>        <span class="n">rlen</span> <span class="o">=</span> <span class="n">bdio_get_rlen</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-591"><a href="#L-591"><span class="linenos">591</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">5</span><span class="p">:</span>
-</span><span id="L-592"><a href="#L-592"><span class="linenos">592</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">+</span> <span class="n">d0</span><span class="p">)</span>
-</span><span id="L-593"><a href="#L-593"><span class="linenos">593</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
-</span><span id="L-594"><a href="#L-594"><span class="linenos">594</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="L-595"><a href="#L-595"><span class="linenos">595</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="L-596"><a href="#L-596"><span class="linenos">596</span></a>            <span class="n">tmp_mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">[</span><span class="mi">2</span><span class="p">:]))</span>
-</span><span id="L-597"><a href="#L-597"><span class="linenos">597</span></a>
-</span><span id="L-598"><a href="#L-598"><span class="linenos">598</span></a>            <span class="n">data</span><span class="p">[</span><span class="n">corr_no</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_mean</span><span class="p">)</span>
-</span><span id="L-599"><a href="#L-599"><span class="linenos">599</span></a>            <span class="n">corr_no</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-600"><a href="#L-600"><span class="linenos">600</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-601"><a href="#L-601"><span class="linenos">601</span></a>            <span class="n">alt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">create_string_buffer</span><span class="p">(</span><span class="mi">1024</span><span class="p">)</span>
-</span><span id="L-602"><a href="#L-602"><span class="linenos">602</span></a>            <span class="n">palt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">))</span>
-</span><span id="L-603"><a href="#L-603"><span class="linenos">603</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read</span><span class="p">(</span><span class="n">palt_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="L-604"><a href="#L-604"><span class="linenos">604</span></a>            <span class="k">if</span> <span class="n">rlen</span> <span class="o">!=</span> <span class="n">iread</span><span class="p">:</span>
-</span><span id="L-605"><a href="#L-605"><span class="linenos">605</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error&#39;</span><span class="p">)</span>
-</span><span id="L-606"><a href="#L-606"><span class="linenos">606</span></a>            <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">):</span>
-</span><span id="L-607"><a href="#L-607"><span class="linenos">607</span></a>                <span class="k">if</span> <span class="n">item</span> <span class="o">==</span> <span class="sa">b</span><span class="s1">&#39;</span><span class="se">\x00</span><span class="s1">&#39;</span><span class="p">:</span>
-</span><span id="L-608"><a href="#L-608"><span class="linenos">608</span></a>                    <span class="n">alt_buf</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="sa">b</span><span class="s1">&#39; &#39;</span>
-</span><span id="L-609"><a href="#L-609"><span class="linenos">609</span></a>            <span class="n">tmp_string</span> <span class="o">=</span> <span class="p">(</span><span class="n">alt_buf</span><span class="p">[:]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s2">&quot;utf-8&quot;</span><span class="p">))</span><span class="o">.</span><span class="n">rstrip</span><span class="p">()</span>
-</span><span id="L-610"><a href="#L-610"><span class="linenos">610</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-611"><a href="#L-611"><span class="linenos">611</span></a>                <span class="n">creator</span> <span class="o">=</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CREATOR=&#39;</span><span class="p">)</span>
-</span><span id="L-612"><a href="#L-612"><span class="linenos">612</span></a>                <span class="n">ensemble_name</span> <span class="o">=</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;ENSEMBLE=&#39;</span><span class="p">)</span>
-</span><span id="L-613"><a href="#L-613"><span class="linenos">613</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L0=&#39;</span><span class="p">)))</span>
-</span><span id="L-614"><a href="#L-614"><span class="linenos">614</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L1=&#39;</span><span class="p">)))</span>
-</span><span id="L-615"><a href="#L-615"><span class="linenos">615</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L2=&#39;</span><span class="p">)))</span>
-</span><span id="L-616"><a href="#L-616"><span class="linenos">616</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L3=&#39;</span><span class="p">)))</span>
-</span><span id="L-617"><a href="#L-617"><span class="linenos">617</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC0=&#39;</span><span class="p">))</span>
-</span><span id="L-618"><a href="#L-618"><span class="linenos">618</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC1=&#39;</span><span class="p">))</span>
-</span><span id="L-619"><a href="#L-619"><span class="linenos">619</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC2=&#39;</span><span class="p">))</span>
-</span><span id="L-620"><a href="#L-620"><span class="linenos">620</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC3=&#39;</span><span class="p">))</span>
-</span><span id="L-621"><a href="#L-621"><span class="linenos">621</span></a>
-</span><span id="L-622"><a href="#L-622"><span class="linenos">622</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-623"><a href="#L-623"><span class="linenos">623</span></a>                <span class="n">corr_name</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_corr_name</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CORR_NAME=&#39;</span><span class="p">))</span>
-</span><span id="L-624"><a href="#L-624"><span class="linenos">624</span></a>                <span class="n">corr_type</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;DATATYPE=&#39;</span><span class="p">))</span>
-</span><span id="L-625"><a href="#L-625"><span class="linenos">625</span></a>                <span class="n">corr_props</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;PROP0=&#39;</span><span class="p">))</span>
-</span><span id="L-626"><a href="#L-626"><span class="linenos">626</span></a>                <span class="k">if</span> <span class="n">d0</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-627"><a href="#L-627"><span class="linenos">627</span></a>                    <span class="n">d0</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">))</span>
-</span><span id="L-628"><a href="#L-628"><span class="linenos">628</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-629"><a href="#L-629"><span class="linenos">629</span></a>                    <span class="k">if</span> <span class="n">d0</span> <span class="o">!=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">)):</span>
-</span><span id="L-630"><a href="#L-630"><span class="linenos">630</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error: Varying number of time values&#39;</span><span class="p">)</span>
-</span><span id="L-631"><a href="#L-631"><span class="linenos">631</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="L-632"><a href="#L-632"><span class="linenos">632</span></a>                <span class="n">prop_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;KAPPA=&#39;</span><span class="p">))</span>
-</span><span id="L-633"><a href="#L-633"><span class="linenos">633</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">4</span><span class="p">:</span>
-</span><span id="L-634"><a href="#L-634"><span class="linenos">634</span></a>                <span class="n">cnfg_no</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CNFG_ID=&#39;</span><span class="p">))</span>
-</span><span id="L-635"><a href="#L-635"><span class="linenos">635</span></a>                <span class="k">if</span> <span class="n">stop</span><span class="p">:</span>
-</span><span id="L-636"><a href="#L-636"><span class="linenos">636</span></a>                    <span class="k">if</span> <span class="n">cnfg_no</span> <span class="o">&gt;</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">):</span>
-</span><span id="L-637"><a href="#L-637"><span class="linenos">637</span></a>                        <span class="k">break</span>
-</span><span id="L-638"><a href="#L-638"><span class="linenos">638</span></a>                <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg_no</span><span class="p">)</span>
-</span><span id="L-639"><a href="#L-639"><span class="linenos">639</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\r</span><span class="si">%s</span><span class="s1"> </span><span class="si">%i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;Reading configuration&#39;</span><span class="p">,</span> <span class="n">cnfg_no</span><span class="p">),</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;</span><span class="se">\r</span><span class="s1">&#39;</span><span class="p">)</span>
-</span><span id="L-640"><a href="#L-640"><span class="linenos">640</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-641"><a href="#L-641"><span class="linenos">641</span></a>                    <span class="n">no_corrs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">)</span>
-</span><span id="L-642"><a href="#L-642"><span class="linenos">642</span></a>                    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-643"><a href="#L-643"><span class="linenos">643</span></a>                    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
-</span><span id="L-644"><a href="#L-644"><span class="linenos">644</span></a>                        <span class="n">data</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-645"><a href="#L-645"><span class="linenos">645</span></a>
-</span><span id="L-646"><a href="#L-646"><span class="linenos">646</span></a>                <span class="n">corr_no</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-647"><a href="#L-647"><span class="linenos">647</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="L-648"><a href="#L-648"><span class="linenos">648</span></a>
-</span><span id="L-649"><a href="#L-649"><span class="linenos">649</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">Creator: &#39;</span><span class="p">,</span> <span class="n">creator</span><span class="p">)</span>
-</span><span id="L-650"><a href="#L-650"><span class="linenos">650</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Ensemble: &#39;</span><span class="p">,</span> <span class="n">ensemble_name</span><span class="p">)</span>
-</span><span id="L-651"><a href="#L-651"><span class="linenos">651</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Lattice volume: &#39;</span><span class="p">,</span> <span class="n">volume</span><span class="p">)</span>
-</span><span id="L-652"><a href="#L-652"><span class="linenos">652</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Boundary conditions: &#39;</span><span class="p">,</span> <span class="n">boundary_conditions</span><span class="p">)</span>
-</span><span id="L-653"><a href="#L-653"><span class="linenos">653</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of random sources: &#39;</span><span class="p">,</span> <span class="n">d0</span><span class="p">)</span>
-</span><span id="L-654"><a href="#L-654"><span class="linenos">654</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of corrs: &#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">))</span>
-</span><span id="L-655"><a href="#L-655"><span class="linenos">655</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of configurations: &#39;</span><span class="p">,</span> <span class="n">cnfg_no</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-656"><a href="#L-656"><span class="linenos">656</span></a>
-</span><span id="L-657"><a href="#L-657"><span class="linenos">657</span></a>    <span class="n">corr_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains kappa values for both propagators of given correlation function</span>
-</span><span id="L-658"><a href="#L-658"><span class="linenos">658</span></a>    <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">corr_props</span><span class="p">:</span>
-</span><span id="L-659"><a href="#L-659"><span class="linenos">659</span></a>        <span class="n">corr_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">float</span><span class="p">(</span><span class="n">prop_kappa</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">)]))</span>
-</span><span id="L-660"><a href="#L-660"><span class="linenos">660</span></a>
-</span><span id="L-661"><a href="#L-661"><span class="linenos">661</span></a>    <span class="k">if</span> <span class="n">stop</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-662"><a href="#L-662"><span class="linenos">662</span></a>        <span class="n">stop</span> <span class="o">=</span> <span class="n">idl</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-663"><a href="#L-663"><span class="linenos">663</span></a>    <span class="n">idl_target</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">start</span><span class="p">,</span> <span class="n">stop</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">step</span><span class="p">)</span>
-</span><span id="L-664"><a href="#L-664"><span class="linenos">664</span></a>    <span class="k">try</span><span class="p">:</span>
-</span><span id="L-665"><a href="#L-665"><span class="linenos">665</span></a>        <span class="n">indices</span> <span class="o">=</span> <span class="p">[</span><span class="n">idl</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">idl_target</span><span class="p">]</span>
-</span><span id="L-666"><a href="#L-666"><span class="linenos">666</span></a>    <span class="k">except</span> <span class="ne">ValueError</span> <span class="k">as</span> <span class="n">err</span><span class="p">:</span>
-</span><span id="L-667"><a href="#L-667"><span class="linenos">667</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Configurations in file do no match target list!&#39;</span><span class="p">,</span> <span class="n">err</span><span class="p">)</span>
-</span><span id="L-668"><a href="#L-668"><span class="linenos">668</span></a>
-</span><span id="L-669"><a href="#L-669"><span class="linenos">669</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-670"><a href="#L-670"><span class="linenos">670</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
-</span><span id="L-671"><a href="#L-671"><span class="linenos">671</span></a>        <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="n">c</span><span class="p">])[</span><span class="n">index</span><span class="p">]</span> <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">indices</span><span class="p">]</span>
-</span><span id="L-672"><a href="#L-672"><span class="linenos">672</span></a>        <span class="n">result</span><span class="p">[(</span><span class="n">corr_name</span><span class="p">[</span><span class="n">c</span><span class="p">],</span> <span class="nb">str</span><span class="p">(</span><span class="n">corr_kappa</span><span class="p">[</span><span class="n">c</span><span class="p">]))]</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">deltas</span><span class="p">],</span> <span class="p">[</span><span class="n">ensemble_name</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idl_target</span><span class="p">])</span>
-</span><span id="L-673"><a href="#L-673"><span class="linenos">673</span></a>
-</span><span id="L-674"><a href="#L-674"><span class="linenos">674</span></a>    <span class="c1"># Check that all data entries have the same number of configurations</span>
-</span><span id="L-675"><a href="#L-675"><span class="linenos">675</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">N</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">result</span><span class="o">.</span><span class="n">values</span><span class="p">())]))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-676"><a href="#L-676"><span class="linenos">676</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not all correlators have the same number of configurations. bdio file is possibly corrupted.&#39;</span><span class="p">)</span>
-</span><span id="L-677"><a href="#L-677"><span class="linenos">677</span></a>
-</span><span id="L-678"><a href="#L-678"><span class="linenos">678</span></a>    <span class="k">return</span> <span class="n">result</span>
+</span><span id="L-500"><a href="#L-500"><span class="linenos">500</span></a>
+</span><span id="L-501"><a href="#L-501"><span class="linenos">501</span></a><span class="k">def</span> <span class="nf">read_dSdm</span><span class="p">(</span><span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-502"><a href="#L-502"><span class="linenos">502</span></a>    <span class="sd">&quot;&quot;&quot; Extract dSdm data from a bdio file and return it as a dictionary</span>
+</span><span id="L-503"><a href="#L-503"><span class="linenos">503</span></a>
+</span><span id="L-504"><a href="#L-504"><span class="linenos">504</span></a><span class="sd">    The dictionary can be accessed with a tuple consisting of (type, kappa)</span>
+</span><span id="L-505"><a href="#L-505"><span class="linenos">505</span></a>
+</span><span id="L-506"><a href="#L-506"><span class="linenos">506</span></a><span class="sd">    read_dSdm requires bdio to be compiled into a shared library. This can be achieved by</span>
+</span><span id="L-507"><a href="#L-507"><span class="linenos">507</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
+</span><span id="L-508"><a href="#L-508"><span class="linenos">508</span></a>
+</span><span id="L-509"><a href="#L-509"><span class="linenos">509</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
+</span><span id="L-510"><a href="#L-510"><span class="linenos">510</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
+</span><span id="L-511"><a href="#L-511"><span class="linenos">511</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
+</span><span id="L-512"><a href="#L-512"><span class="linenos">512</span></a>
+</span><span id="L-513"><a href="#L-513"><span class="linenos">513</span></a><span class="sd">    Parameters</span>
+</span><span id="L-514"><a href="#L-514"><span class="linenos">514</span></a><span class="sd">    ----------</span>
+</span><span id="L-515"><a href="#L-515"><span class="linenos">515</span></a><span class="sd">    file_path : str</span>
+</span><span id="L-516"><a href="#L-516"><span class="linenos">516</span></a><span class="sd">        path to the bdio file</span>
+</span><span id="L-517"><a href="#L-517"><span class="linenos">517</span></a><span class="sd">    bdio_path : str</span>
+</span><span id="L-518"><a href="#L-518"><span class="linenos">518</span></a><span class="sd">        path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
+</span><span id="L-519"><a href="#L-519"><span class="linenos">519</span></a><span class="sd">    start : int</span>
+</span><span id="L-520"><a href="#L-520"><span class="linenos">520</span></a><span class="sd">        The first configuration to be read (default 1)</span>
+</span><span id="L-521"><a href="#L-521"><span class="linenos">521</span></a><span class="sd">    stop : int</span>
+</span><span id="L-522"><a href="#L-522"><span class="linenos">522</span></a><span class="sd">        The last configuration to be read (default None)</span>
+</span><span id="L-523"><a href="#L-523"><span class="linenos">523</span></a><span class="sd">    step : int</span>
+</span><span id="L-524"><a href="#L-524"><span class="linenos">524</span></a><span class="sd">        Fixed step size between two measurements (default 1)</span>
+</span><span id="L-525"><a href="#L-525"><span class="linenos">525</span></a><span class="sd">    alternative_ensemble_name : str</span>
+</span><span id="L-526"><a href="#L-526"><span class="linenos">526</span></a><span class="sd">        Manually overwrite ensemble name</span>
+</span><span id="L-527"><a href="#L-527"><span class="linenos">527</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-528"><a href="#L-528"><span class="linenos">528</span></a>
+</span><span id="L-529"><a href="#L-529"><span class="linenos">529</span></a>    <span class="n">start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;start&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-530"><a href="#L-530"><span class="linenos">530</span></a>    <span class="n">stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="L-531"><a href="#L-531"><span class="linenos">531</span></a>    <span class="n">step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;step&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-532"><a href="#L-532"><span class="linenos">532</span></a>
+</span><span id="L-533"><a href="#L-533"><span class="linenos">533</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
+</span><span id="L-534"><a href="#L-534"><span class="linenos">534</span></a>
+</span><span id="L-535"><a href="#L-535"><span class="linenos">535</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
+</span><span id="L-536"><a href="#L-536"><span class="linenos">536</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
+</span><span id="L-537"><a href="#L-537"><span class="linenos">537</span></a>
+</span><span id="L-538"><a href="#L-538"><span class="linenos">538</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
+</span><span id="L-539"><a href="#L-539"><span class="linenos">539</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-540"><a href="#L-540"><span class="linenos">540</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-541"><a href="#L-541"><span class="linenos">541</span></a>
+</span><span id="L-542"><a href="#L-542"><span class="linenos">542</span></a>    <span class="n">bdio_seek_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_seek_record</span>
+</span><span id="L-543"><a href="#L-543"><span class="linenos">543</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-544"><a href="#L-544"><span class="linenos">544</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-545"><a href="#L-545"><span class="linenos">545</span></a>
+</span><span id="L-546"><a href="#L-546"><span class="linenos">546</span></a>    <span class="n">bdio_get_rlen</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_rlen</span>
+</span><span id="L-547"><a href="#L-547"><span class="linenos">547</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-548"><a href="#L-548"><span class="linenos">548</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-549"><a href="#L-549"><span class="linenos">549</span></a>
+</span><span id="L-550"><a href="#L-550"><span class="linenos">550</span></a>    <span class="n">bdio_get_ruinfo</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_ruinfo</span>
+</span><span id="L-551"><a href="#L-551"><span class="linenos">551</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="L-552"><a href="#L-552"><span class="linenos">552</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-553"><a href="#L-553"><span class="linenos">553</span></a>
+</span><span id="L-554"><a href="#L-554"><span class="linenos">554</span></a>    <span class="n">bdio_read</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read</span>
+</span><span id="L-555"><a href="#L-555"><span class="linenos">555</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="L-556"><a href="#L-556"><span class="linenos">556</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-557"><a href="#L-557"><span class="linenos">557</span></a>
+</span><span id="L-558"><a href="#L-558"><span class="linenos">558</span></a>    <span class="n">bdio_read_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_f64</span>
+</span><span id="L-559"><a href="#L-559"><span class="linenos">559</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="L-560"><a href="#L-560"><span class="linenos">560</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="L-561"><a href="#L-561"><span class="linenos">561</span></a>
+</span><span id="L-562"><a href="#L-562"><span class="linenos">562</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-563"><a href="#L-563"><span class="linenos">563</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="s1">&#39;r&#39;</span>
+</span><span id="L-564"><a href="#L-564"><span class="linenos">564</span></a>    <span class="n">b_read</span> <span class="o">=</span> <span class="n">read</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-565"><a href="#L-565"><span class="linenos">565</span></a>    <span class="n">form</span> <span class="o">=</span> <span class="s1">&#39;Generic Correlator Format 1.0&#39;</span>
+</span><span id="L-566"><a href="#L-566"><span class="linenos">566</span></a>    <span class="n">b_form</span> <span class="o">=</span> <span class="n">form</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-567"><a href="#L-567"><span class="linenos">567</span></a>
+</span><span id="L-568"><a href="#L-568"><span class="linenos">568</span></a>    <span class="n">ensemble_name</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-569"><a href="#L-569"><span class="linenos">569</span></a>    <span class="n">volume</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># lattice volume</span>
+</span><span id="L-570"><a href="#L-570"><span class="linenos">570</span></a>    <span class="n">boundary_conditions</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-571"><a href="#L-571"><span class="linenos">571</span></a>    <span class="n">corr_name</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator names</span>
+</span><span id="L-572"><a href="#L-572"><span class="linenos">572</span></a>    <span class="n">corr_type</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator data type (important for reading out numerical data)</span>
+</span><span id="L-573"><a href="#L-573"><span class="linenos">573</span></a>    <span class="n">corr_props</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator types (Component of corr_kappa)</span>
+</span><span id="L-574"><a href="#L-574"><span class="linenos">574</span></a>    <span class="n">d0</span> <span class="o">=</span> <span class="mi">0</span>  <span class="c1"># tvals</span>
+</span><span id="L-575"><a href="#L-575"><span class="linenos">575</span></a>    <span class="c1"># d1 = 0  # nnoise</span>
+</span><span id="L-576"><a href="#L-576"><span class="linenos">576</span></a>    <span class="n">prop_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator kappas (Component of corr_kappa)</span>
+</span><span id="L-577"><a href="#L-577"><span class="linenos">577</span></a>    <span class="c1"># Check noise type for multiple replica?</span>
+</span><span id="L-578"><a href="#L-578"><span class="linenos">578</span></a>    <span class="n">corr_no</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
+</span><span id="L-579"><a href="#L-579"><span class="linenos">579</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-580"><a href="#L-580"><span class="linenos">580</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-581"><a href="#L-581"><span class="linenos">581</span></a>
+</span><span id="L-582"><a href="#L-582"><span class="linenos">582</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_read</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_form</span><span class="p">))</span>
+</span><span id="L-583"><a href="#L-583"><span class="linenos">583</span></a>
+</span><span id="L-584"><a href="#L-584"><span class="linenos">584</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Reading of bdio file started&#39;</span><span class="p">)</span>
+</span><span id="L-585"><a href="#L-585"><span class="linenos">585</span></a>    <span class="k">while</span> <span class="mi">1</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-586"><a href="#L-586"><span class="linenos">586</span></a>        <span class="n">bdio_seek_record</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-587"><a href="#L-587"><span class="linenos">587</span></a>        <span class="n">ruinfo</span> <span class="o">=</span> <span class="n">bdio_get_ruinfo</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-588"><a href="#L-588"><span class="linenos">588</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-589"><a href="#L-589"><span class="linenos">589</span></a>            <span class="c1"># EOF reached</span>
+</span><span id="L-590"><a href="#L-590"><span class="linenos">590</span></a>            <span class="k">break</span>
+</span><span id="L-591"><a href="#L-591"><span class="linenos">591</span></a>        <span class="n">rlen</span> <span class="o">=</span> <span class="n">bdio_get_rlen</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-592"><a href="#L-592"><span class="linenos">592</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">5</span><span class="p">:</span>
+</span><span id="L-593"><a href="#L-593"><span class="linenos">593</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">+</span> <span class="n">d0</span><span class="p">)</span>
+</span><span id="L-594"><a href="#L-594"><span class="linenos">594</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
+</span><span id="L-595"><a href="#L-595"><span class="linenos">595</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="L-596"><a href="#L-596"><span class="linenos">596</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="L-597"><a href="#L-597"><span class="linenos">597</span></a>            <span class="n">tmp_mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">[</span><span class="mi">2</span><span class="p">:]))</span>
+</span><span id="L-598"><a href="#L-598"><span class="linenos">598</span></a>
+</span><span id="L-599"><a href="#L-599"><span class="linenos">599</span></a>            <span class="n">data</span><span class="p">[</span><span class="n">corr_no</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_mean</span><span class="p">)</span>
+</span><span id="L-600"><a href="#L-600"><span class="linenos">600</span></a>            <span class="n">corr_no</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-601"><a href="#L-601"><span class="linenos">601</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-602"><a href="#L-602"><span class="linenos">602</span></a>            <span class="n">alt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">create_string_buffer</span><span class="p">(</span><span class="mi">1024</span><span class="p">)</span>
+</span><span id="L-603"><a href="#L-603"><span class="linenos">603</span></a>            <span class="n">palt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">))</span>
+</span><span id="L-604"><a href="#L-604"><span class="linenos">604</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read</span><span class="p">(</span><span class="n">palt_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="L-605"><a href="#L-605"><span class="linenos">605</span></a>            <span class="k">if</span> <span class="n">rlen</span> <span class="o">!=</span> <span class="n">iread</span><span class="p">:</span>
+</span><span id="L-606"><a href="#L-606"><span class="linenos">606</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error&#39;</span><span class="p">)</span>
+</span><span id="L-607"><a href="#L-607"><span class="linenos">607</span></a>            <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">):</span>
+</span><span id="L-608"><a href="#L-608"><span class="linenos">608</span></a>                <span class="k">if</span> <span class="n">item</span> <span class="o">==</span> <span class="sa">b</span><span class="s1">&#39;</span><span class="se">\x00</span><span class="s1">&#39;</span><span class="p">:</span>
+</span><span id="L-609"><a href="#L-609"><span class="linenos">609</span></a>                    <span class="n">alt_buf</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="sa">b</span><span class="s1">&#39; &#39;</span>
+</span><span id="L-610"><a href="#L-610"><span class="linenos">610</span></a>            <span class="n">tmp_string</span> <span class="o">=</span> <span class="p">(</span><span class="n">alt_buf</span><span class="p">[:]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s2">&quot;utf-8&quot;</span><span class="p">))</span><span class="o">.</span><span class="n">rstrip</span><span class="p">()</span>
+</span><span id="L-611"><a href="#L-611"><span class="linenos">611</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-612"><a href="#L-612"><span class="linenos">612</span></a>                <span class="n">creator</span> <span class="o">=</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CREATOR=&#39;</span><span class="p">)</span>
+</span><span id="L-613"><a href="#L-613"><span class="linenos">613</span></a>                <span class="n">ensemble_name</span> <span class="o">=</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;ENSEMBLE=&#39;</span><span class="p">)</span>
+</span><span id="L-614"><a href="#L-614"><span class="linenos">614</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L0=&#39;</span><span class="p">)))</span>
+</span><span id="L-615"><a href="#L-615"><span class="linenos">615</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L1=&#39;</span><span class="p">)))</span>
+</span><span id="L-616"><a href="#L-616"><span class="linenos">616</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L2=&#39;</span><span class="p">)))</span>
+</span><span id="L-617"><a href="#L-617"><span class="linenos">617</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L3=&#39;</span><span class="p">)))</span>
+</span><span id="L-618"><a href="#L-618"><span class="linenos">618</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC0=&#39;</span><span class="p">))</span>
+</span><span id="L-619"><a href="#L-619"><span class="linenos">619</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC1=&#39;</span><span class="p">))</span>
+</span><span id="L-620"><a href="#L-620"><span class="linenos">620</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC2=&#39;</span><span class="p">))</span>
+</span><span id="L-621"><a href="#L-621"><span class="linenos">621</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC3=&#39;</span><span class="p">))</span>
+</span><span id="L-622"><a href="#L-622"><span class="linenos">622</span></a>
+</span><span id="L-623"><a href="#L-623"><span class="linenos">623</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-624"><a href="#L-624"><span class="linenos">624</span></a>                <span class="n">corr_name</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_corr_name</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CORR_NAME=&#39;</span><span class="p">))</span>
+</span><span id="L-625"><a href="#L-625"><span class="linenos">625</span></a>                <span class="n">corr_type</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;DATATYPE=&#39;</span><span class="p">))</span>
+</span><span id="L-626"><a href="#L-626"><span class="linenos">626</span></a>                <span class="n">corr_props</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;PROP0=&#39;</span><span class="p">))</span>
+</span><span id="L-627"><a href="#L-627"><span class="linenos">627</span></a>                <span class="k">if</span> <span class="n">d0</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-628"><a href="#L-628"><span class="linenos">628</span></a>                    <span class="n">d0</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">))</span>
+</span><span id="L-629"><a href="#L-629"><span class="linenos">629</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-630"><a href="#L-630"><span class="linenos">630</span></a>                    <span class="k">if</span> <span class="n">d0</span> <span class="o">!=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">)):</span>
+</span><span id="L-631"><a href="#L-631"><span class="linenos">631</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error: Varying number of time values&#39;</span><span class="p">)</span>
+</span><span id="L-632"><a href="#L-632"><span class="linenos">632</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="L-633"><a href="#L-633"><span class="linenos">633</span></a>                <span class="n">prop_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;KAPPA=&#39;</span><span class="p">))</span>
+</span><span id="L-634"><a href="#L-634"><span class="linenos">634</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">4</span><span class="p">:</span>
+</span><span id="L-635"><a href="#L-635"><span class="linenos">635</span></a>                <span class="n">cnfg_no</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CNFG_ID=&#39;</span><span class="p">))</span>
+</span><span id="L-636"><a href="#L-636"><span class="linenos">636</span></a>                <span class="k">if</span> <span class="n">stop</span><span class="p">:</span>
+</span><span id="L-637"><a href="#L-637"><span class="linenos">637</span></a>                    <span class="k">if</span> <span class="n">cnfg_no</span> <span class="o">&gt;</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">):</span>
+</span><span id="L-638"><a href="#L-638"><span class="linenos">638</span></a>                        <span class="k">break</span>
+</span><span id="L-639"><a href="#L-639"><span class="linenos">639</span></a>                <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg_no</span><span class="p">)</span>
+</span><span id="L-640"><a href="#L-640"><span class="linenos">640</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\r</span><span class="si">%s</span><span class="s1"> </span><span class="si">%i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;Reading configuration&#39;</span><span class="p">,</span> <span class="n">cnfg_no</span><span class="p">),</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;</span><span class="se">\r</span><span class="s1">&#39;</span><span class="p">)</span>
+</span><span id="L-641"><a href="#L-641"><span class="linenos">641</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-642"><a href="#L-642"><span class="linenos">642</span></a>                    <span class="n">no_corrs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">)</span>
+</span><span id="L-643"><a href="#L-643"><span class="linenos">643</span></a>                    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-644"><a href="#L-644"><span class="linenos">644</span></a>                    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
+</span><span id="L-645"><a href="#L-645"><span class="linenos">645</span></a>                        <span class="n">data</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-646"><a href="#L-646"><span class="linenos">646</span></a>
+</span><span id="L-647"><a href="#L-647"><span class="linenos">647</span></a>                <span class="n">corr_no</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-648"><a href="#L-648"><span class="linenos">648</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="L-649"><a href="#L-649"><span class="linenos">649</span></a>
+</span><span id="L-650"><a href="#L-650"><span class="linenos">650</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">Creator: &#39;</span><span class="p">,</span> <span class="n">creator</span><span class="p">)</span>
+</span><span id="L-651"><a href="#L-651"><span class="linenos">651</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Ensemble: &#39;</span><span class="p">,</span> <span class="n">ensemble_name</span><span class="p">)</span>
+</span><span id="L-652"><a href="#L-652"><span class="linenos">652</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Lattice volume: &#39;</span><span class="p">,</span> <span class="n">volume</span><span class="p">)</span>
+</span><span id="L-653"><a href="#L-653"><span class="linenos">653</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Boundary conditions: &#39;</span><span class="p">,</span> <span class="n">boundary_conditions</span><span class="p">)</span>
+</span><span id="L-654"><a href="#L-654"><span class="linenos">654</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of random sources: &#39;</span><span class="p">,</span> <span class="n">d0</span><span class="p">)</span>
+</span><span id="L-655"><a href="#L-655"><span class="linenos">655</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of corrs: &#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">))</span>
+</span><span id="L-656"><a href="#L-656"><span class="linenos">656</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of configurations: &#39;</span><span class="p">,</span> <span class="n">cnfg_no</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-657"><a href="#L-657"><span class="linenos">657</span></a>
+</span><span id="L-658"><a href="#L-658"><span class="linenos">658</span></a>    <span class="n">corr_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains kappa values for both propagators of given correlation function</span>
+</span><span id="L-659"><a href="#L-659"><span class="linenos">659</span></a>    <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">corr_props</span><span class="p">:</span>
+</span><span id="L-660"><a href="#L-660"><span class="linenos">660</span></a>        <span class="n">corr_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">float</span><span class="p">(</span><span class="n">prop_kappa</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">)]))</span>
+</span><span id="L-661"><a href="#L-661"><span class="linenos">661</span></a>
+</span><span id="L-662"><a href="#L-662"><span class="linenos">662</span></a>    <span class="k">if</span> <span class="n">stop</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-663"><a href="#L-663"><span class="linenos">663</span></a>        <span class="n">stop</span> <span class="o">=</span> <span class="n">idl</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-664"><a href="#L-664"><span class="linenos">664</span></a>    <span class="n">idl_target</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">start</span><span class="p">,</span> <span class="n">stop</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">step</span><span class="p">)</span>
+</span><span id="L-665"><a href="#L-665"><span class="linenos">665</span></a>    <span class="k">try</span><span class="p">:</span>
+</span><span id="L-666"><a href="#L-666"><span class="linenos">666</span></a>        <span class="n">indices</span> <span class="o">=</span> <span class="p">[</span><span class="n">idl</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">idl_target</span><span class="p">]</span>
+</span><span id="L-667"><a href="#L-667"><span class="linenos">667</span></a>    <span class="k">except</span> <span class="ne">ValueError</span> <span class="k">as</span> <span class="n">err</span><span class="p">:</span>
+</span><span id="L-668"><a href="#L-668"><span class="linenos">668</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Configurations in file do no match target list!&#39;</span><span class="p">,</span> <span class="n">err</span><span class="p">)</span>
+</span><span id="L-669"><a href="#L-669"><span class="linenos">669</span></a>
+</span><span id="L-670"><a href="#L-670"><span class="linenos">670</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-671"><a href="#L-671"><span class="linenos">671</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
+</span><span id="L-672"><a href="#L-672"><span class="linenos">672</span></a>        <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="n">c</span><span class="p">])[</span><span class="n">index</span><span class="p">]</span> <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">indices</span><span class="p">]</span>
+</span><span id="L-673"><a href="#L-673"><span class="linenos">673</span></a>        <span class="n">result</span><span class="p">[(</span><span class="n">corr_name</span><span class="p">[</span><span class="n">c</span><span class="p">],</span> <span class="nb">str</span><span class="p">(</span><span class="n">corr_kappa</span><span class="p">[</span><span class="n">c</span><span class="p">]))]</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">deltas</span><span class="p">],</span> <span class="p">[</span><span class="n">ensemble_name</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idl_target</span><span class="p">])</span>
+</span><span id="L-674"><a href="#L-674"><span class="linenos">674</span></a>
+</span><span id="L-675"><a href="#L-675"><span class="linenos">675</span></a>    <span class="c1"># Check that all data entries have the same number of configurations</span>
+</span><span id="L-676"><a href="#L-676"><span class="linenos">676</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">N</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">result</span><span class="o">.</span><span class="n">values</span><span class="p">())]))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-677"><a href="#L-677"><span class="linenos">677</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not all correlators have the same number of configurations. bdio file is possibly corrupted.&#39;</span><span class="p">)</span>
+</span><span id="L-678"><a href="#L-678"><span class="linenos">678</span></a>
+</span><span id="L-679"><a href="#L-679"><span class="linenos">679</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="read_ADerrors">
-                            <div class="attr function"><a class="headerlink" href="#read_ADerrors">#&nbsp;&nbsp</a>
+                            <input id="read_ADerrors-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_ADerrors</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">file_path</span>, </span><span class="param"><span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="read_ADerrors-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_ADerrors</span><span class="signature">(file_path, bdio_path=&#39;./libbdio.so&#39;, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_ADerrors-7"><a href="#read_ADerrors-7"><span class="linenos">  7</span></a><span class="k">def</span> <span class="nf">read_ADerrors</span><span class="p">(</span><span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="read_ADerrors-8"><a href="#read_ADerrors-8"><span class="linenos">  8</span></a>    <span class="sd">&quot;&quot;&quot; Extract generic MCMC data from a bdio file</span>
-</span><span id="read_ADerrors-9"><a href="#read_ADerrors-9"><span class="linenos">  9</span></a>
-</span><span id="read_ADerrors-10"><a href="#read_ADerrors-10"><span class="linenos"> 10</span></a><span class="sd">    read_ADerrors requires bdio to be compiled into a shared library. This can be achieved by</span>
-</span><span id="read_ADerrors-11"><a href="#read_ADerrors-11"><span class="linenos"> 11</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
-</span><span id="read_ADerrors-12"><a href="#read_ADerrors-12"><span class="linenos"> 12</span></a>
-</span><span id="read_ADerrors-13"><a href="#read_ADerrors-13"><span class="linenos"> 13</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
-</span><span id="read_ADerrors-14"><a href="#read_ADerrors-14"><span class="linenos"> 14</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
-</span><span id="read_ADerrors-15"><a href="#read_ADerrors-15"><span class="linenos"> 15</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
-</span><span id="read_ADerrors-16"><a href="#read_ADerrors-16"><span class="linenos"> 16</span></a>
-</span><span id="read_ADerrors-17"><a href="#read_ADerrors-17"><span class="linenos"> 17</span></a><span class="sd">    Parameters</span>
-</span><span id="read_ADerrors-18"><a href="#read_ADerrors-18"><span class="linenos"> 18</span></a><span class="sd">    ----------</span>
-</span><span id="read_ADerrors-19"><a href="#read_ADerrors-19"><span class="linenos"> 19</span></a><span class="sd">    file_path -- path to the bdio file</span>
-</span><span id="read_ADerrors-20"><a href="#read_ADerrors-20"><span class="linenos"> 20</span></a><span class="sd">    bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
-</span><span id="read_ADerrors-21"><a href="#read_ADerrors-21"><span class="linenos"> 21</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_ADerrors-22"><a href="#read_ADerrors-22"><span class="linenos"> 22</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
-</span><span id="read_ADerrors-23"><a href="#read_ADerrors-23"><span class="linenos"> 23</span></a>
-</span><span id="read_ADerrors-24"><a href="#read_ADerrors-24"><span class="linenos"> 24</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
-</span><span id="read_ADerrors-25"><a href="#read_ADerrors-25"><span class="linenos"> 25</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
-</span><span id="read_ADerrors-26"><a href="#read_ADerrors-26"><span class="linenos"> 26</span></a>
-</span><span id="read_ADerrors-27"><a href="#read_ADerrors-27"><span class="linenos"> 27</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
-</span><span id="read_ADerrors-28"><a href="#read_ADerrors-28"><span class="linenos"> 28</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="read_ADerrors-29"><a href="#read_ADerrors-29"><span class="linenos"> 29</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_ADerrors-30"><a href="#read_ADerrors-30"><span class="linenos"> 30</span></a>
-</span><span id="read_ADerrors-31"><a href="#read_ADerrors-31"><span class="linenos"> 31</span></a>    <span class="n">bdio_seek_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_seek_record</span>
-</span><span id="read_ADerrors-32"><a href="#read_ADerrors-32"><span class="linenos"> 32</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="read_ADerrors-33"><a href="#read_ADerrors-33"><span class="linenos"> 33</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_ADerrors-34"><a href="#read_ADerrors-34"><span class="linenos"> 34</span></a>
-</span><span id="read_ADerrors-35"><a href="#read_ADerrors-35"><span class="linenos"> 35</span></a>    <span class="n">bdio_get_rlen</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_rlen</span>
-</span><span id="read_ADerrors-36"><a href="#read_ADerrors-36"><span class="linenos"> 36</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="read_ADerrors-37"><a href="#read_ADerrors-37"><span class="linenos"> 37</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_ADerrors-38"><a href="#read_ADerrors-38"><span class="linenos"> 38</span></a>
-</span><span id="read_ADerrors-39"><a href="#read_ADerrors-39"><span class="linenos"> 39</span></a>    <span class="n">bdio_get_ruinfo</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_ruinfo</span>
-</span><span id="read_ADerrors-40"><a href="#read_ADerrors-40"><span class="linenos"> 40</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="read_ADerrors-41"><a href="#read_ADerrors-41"><span class="linenos"> 41</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_ADerrors-42"><a href="#read_ADerrors-42"><span class="linenos"> 42</span></a>
-</span><span id="read_ADerrors-43"><a href="#read_ADerrors-43"><span class="linenos"> 43</span></a>    <span class="n">bdio_read</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read</span>
-</span><span id="read_ADerrors-44"><a href="#read_ADerrors-44"><span class="linenos"> 44</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="read_ADerrors-45"><a href="#read_ADerrors-45"><span class="linenos"> 45</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_ADerrors-46"><a href="#read_ADerrors-46"><span class="linenos"> 46</span></a>
-</span><span id="read_ADerrors-47"><a href="#read_ADerrors-47"><span class="linenos"> 47</span></a>    <span class="n">bdio_read_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_f64</span>
-</span><span id="read_ADerrors-48"><a href="#read_ADerrors-48"><span class="linenos"> 48</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="read_ADerrors-49"><a href="#read_ADerrors-49"><span class="linenos"> 49</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_ADerrors-50"><a href="#read_ADerrors-50"><span class="linenos"> 50</span></a>
-</span><span id="read_ADerrors-51"><a href="#read_ADerrors-51"><span class="linenos"> 51</span></a>    <span class="n">bdio_read_int32</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_int32</span>
-</span><span id="read_ADerrors-52"><a href="#read_ADerrors-52"><span class="linenos"> 52</span></a>    <span class="n">bdio_read_int32</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="read_ADerrors-53"><a href="#read_ADerrors-53"><span class="linenos"> 53</span></a>    <span class="n">bdio_read_int32</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_ADerrors-54"><a href="#read_ADerrors-54"><span class="linenos"> 54</span></a>
-</span><span id="read_ADerrors-55"><a href="#read_ADerrors-55"><span class="linenos"> 55</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="read_ADerrors-56"><a href="#read_ADerrors-56"><span class="linenos"> 56</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="s1">&#39;r&#39;</span>
-</span><span id="read_ADerrors-57"><a href="#read_ADerrors-57"><span class="linenos"> 57</span></a>    <span class="n">b_read</span> <span class="o">=</span> <span class="n">read</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="read_ADerrors-58"><a href="#read_ADerrors-58"><span class="linenos"> 58</span></a>
-</span><span id="read_ADerrors-59"><a href="#read_ADerrors-59"><span class="linenos"> 59</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_read</span><span class="p">),</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="read_ADerrors-60"><a href="#read_ADerrors-60"><span class="linenos"> 60</span></a>
-</span><span id="read_ADerrors-61"><a href="#read_ADerrors-61"><span class="linenos"> 61</span></a>    <span class="n">return_list</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_ADerrors-62"><a href="#read_ADerrors-62"><span class="linenos"> 62</span></a>
-</span><span id="read_ADerrors-63"><a href="#read_ADerrors-63"><span class="linenos"> 63</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Reading of bdio file started&#39;</span><span class="p">)</span>
-</span><span id="read_ADerrors-64"><a href="#read_ADerrors-64"><span class="linenos"> 64</span></a>    <span class="k">while</span> <span class="mi">1</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_ADerrors-65"><a href="#read_ADerrors-65"><span class="linenos"> 65</span></a>        <span class="n">bdio_seek_record</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="read_ADerrors-66"><a href="#read_ADerrors-66"><span class="linenos"> 66</span></a>        <span class="n">ruinfo</span> <span class="o">=</span> <span class="n">bdio_get_ruinfo</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="read_ADerrors-67"><a href="#read_ADerrors-67"><span class="linenos"> 67</span></a>
-</span><span id="read_ADerrors-68"><a href="#read_ADerrors-68"><span class="linenos"> 68</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">7</span><span class="p">:</span>
-</span><span id="read_ADerrors-69"><a href="#read_ADerrors-69"><span class="linenos"> 69</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;MD5sum found&#39;</span><span class="p">)</span>  <span class="c1"># For now we just ignore these entries and do not perform any checks on them</span>
-</span><span id="read_ADerrors-70"><a href="#read_ADerrors-70"><span class="linenos"> 70</span></a>            <span class="k">continue</span>
-</span><span id="read_ADerrors-71"><a href="#read_ADerrors-71"><span class="linenos"> 71</span></a>
-</span><span id="read_ADerrors-72"><a href="#read_ADerrors-72"><span class="linenos"> 72</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_ADerrors-73"><a href="#read_ADerrors-73"><span class="linenos"> 73</span></a>            <span class="c1"># EOF reached</span>
-</span><span id="read_ADerrors-74"><a href="#read_ADerrors-74"><span class="linenos"> 74</span></a>            <span class="k">break</span>
-</span><span id="read_ADerrors-75"><a href="#read_ADerrors-75"><span class="linenos"> 75</span></a>        <span class="n">bdio_get_rlen</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="read_ADerrors-76"><a href="#read_ADerrors-76"><span class="linenos"> 76</span></a>
-</span><span id="read_ADerrors-77"><a href="#read_ADerrors-77"><span class="linenos"> 77</span></a>        <span class="k">def</span> <span class="nf">read_c_double</span><span class="p">():</span>
-</span><span id="read_ADerrors-78"><a href="#read_ADerrors-78"><span class="linenos"> 78</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span>
-</span><span id="read_ADerrors-79"><a href="#read_ADerrors-79"><span class="linenos"> 79</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
-</span><span id="read_ADerrors-80"><a href="#read_ADerrors-80"><span class="linenos"> 80</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="read_ADerrors-81"><a href="#read_ADerrors-81"><span class="linenos"> 81</span></a>            <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">8</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="read_ADerrors-82"><a href="#read_ADerrors-82"><span class="linenos"> 82</span></a>            <span class="k">return</span> <span class="n">pd_buf</span><span class="o">.</span><span class="n">value</span>
-</span><span id="read_ADerrors-83"><a href="#read_ADerrors-83"><span class="linenos"> 83</span></a>
-</span><span id="read_ADerrors-84"><a href="#read_ADerrors-84"><span class="linenos"> 84</span></a>        <span class="n">mean</span> <span class="o">=</span> <span class="n">read_c_double</span><span class="p">()</span>
-</span><span id="read_ADerrors-85"><a href="#read_ADerrors-85"><span class="linenos"> 85</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;mean&#39;</span><span class="p">,</span> <span class="n">mean</span><span class="p">)</span>
-</span><span id="read_ADerrors-86"><a href="#read_ADerrors-86"><span class="linenos"> 86</span></a>
-</span><span id="read_ADerrors-87"><a href="#read_ADerrors-87"><span class="linenos"> 87</span></a>        <span class="k">def</span> <span class="nf">read_c_size_t</span><span class="p">():</span>
-</span><span id="read_ADerrors-88"><a href="#read_ADerrors-88"><span class="linenos"> 88</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="read_ADerrors-89"><a href="#read_ADerrors-89"><span class="linenos"> 89</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
-</span><span id="read_ADerrors-90"><a href="#read_ADerrors-90"><span class="linenos"> 90</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="read_ADerrors-91"><a href="#read_ADerrors-91"><span class="linenos"> 91</span></a>            <span class="n">bdio_read_int32</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">4</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="read_ADerrors-92"><a href="#read_ADerrors-92"><span class="linenos"> 92</span></a>            <span class="k">return</span> <span class="n">pd_buf</span><span class="o">.</span><span class="n">value</span>
-</span><span id="read_ADerrors-93"><a href="#read_ADerrors-93"><span class="linenos"> 93</span></a>
-</span><span id="read_ADerrors-94"><a href="#read_ADerrors-94"><span class="linenos"> 94</span></a>        <span class="n">neid</span> <span class="o">=</span> <span class="n">read_c_size_t</span><span class="p">()</span>
-</span><span id="read_ADerrors-95"><a href="#read_ADerrors-95"><span class="linenos"> 95</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;neid&#39;</span><span class="p">,</span> <span class="n">neid</span><span class="p">)</span>
-</span><span id="read_ADerrors-96"><a href="#read_ADerrors-96"><span class="linenos"> 96</span></a>
-</span><span id="read_ADerrors-97"><a href="#read_ADerrors-97"><span class="linenos"> 97</span></a>        <span class="n">ndata</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_ADerrors-98"><a href="#read_ADerrors-98"><span class="linenos"> 98</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="read_ADerrors-99"><a href="#read_ADerrors-99"><span class="linenos"> 99</span></a>            <span class="n">ndata</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
-</span><span id="read_ADerrors-100"><a href="#read_ADerrors-100"><span class="linenos">100</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ndata&#39;</span><span class="p">,</span> <span class="n">ndata</span><span class="p">)</span>
-</span><span id="read_ADerrors-101"><a href="#read_ADerrors-101"><span class="linenos">101</span></a>
-</span><span id="read_ADerrors-102"><a href="#read_ADerrors-102"><span class="linenos">102</span></a>        <span class="n">nrep</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_ADerrors-103"><a href="#read_ADerrors-103"><span class="linenos">103</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="read_ADerrors-104"><a href="#read_ADerrors-104"><span class="linenos">104</span></a>            <span class="n">nrep</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
-</span><span id="read_ADerrors-105"><a href="#read_ADerrors-105"><span class="linenos">105</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nrep&#39;</span><span class="p">,</span> <span class="n">nrep</span><span class="p">)</span>
-</span><span id="read_ADerrors-106"><a href="#read_ADerrors-106"><span class="linenos">106</span></a>
-</span><span id="read_ADerrors-107"><a href="#read_ADerrors-107"><span class="linenos">107</span></a>        <span class="n">vrep</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_ADerrors-108"><a href="#read_ADerrors-108"><span class="linenos">108</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="read_ADerrors-109"><a href="#read_ADerrors-109"><span class="linenos">109</span></a>            <span class="n">vrep</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="read_ADerrors-110"><a href="#read_ADerrors-110"><span class="linenos">110</span></a>            <span class="k">for</span> <span class="n">jndex</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrep</span><span class="p">[</span><span class="n">index</span><span class="p">]):</span>
-</span><span id="read_ADerrors-111"><a href="#read_ADerrors-111"><span class="linenos">111</span></a>                <span class="n">vrep</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
-</span><span id="read_ADerrors-112"><a href="#read_ADerrors-112"><span class="linenos">112</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;vrep&#39;</span><span class="p">,</span> <span class="n">vrep</span><span class="p">)</span>
-</span><span id="read_ADerrors-113"><a href="#read_ADerrors-113"><span class="linenos">113</span></a>
-</span><span id="read_ADerrors-114"><a href="#read_ADerrors-114"><span class="linenos">114</span></a>        <span class="n">ids</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_ADerrors-115"><a href="#read_ADerrors-115"><span class="linenos">115</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="read_ADerrors-116"><a href="#read_ADerrors-116"><span class="linenos">116</span></a>            <span class="n">ids</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
-</span><span id="read_ADerrors-117"><a href="#read_ADerrors-117"><span class="linenos">117</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ids&#39;</span><span class="p">,</span> <span class="n">ids</span><span class="p">)</span>
-</span><span id="read_ADerrors-118"><a href="#read_ADerrors-118"><span class="linenos">118</span></a>
-</span><span id="read_ADerrors-119"><a href="#read_ADerrors-119"><span class="linenos">119</span></a>        <span class="n">nt</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_ADerrors-120"><a href="#read_ADerrors-120"><span class="linenos">120</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="read_ADerrors-121"><a href="#read_ADerrors-121"><span class="linenos">121</span></a>            <span class="n">nt</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
-</span><span id="read_ADerrors-122"><a href="#read_ADerrors-122"><span class="linenos">122</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nt&#39;</span><span class="p">,</span> <span class="n">nt</span><span class="p">)</span>
-</span><span id="read_ADerrors-123"><a href="#read_ADerrors-123"><span class="linenos">123</span></a>
-</span><span id="read_ADerrors-124"><a href="#read_ADerrors-124"><span class="linenos">124</span></a>        <span class="n">zero</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_ADerrors-125"><a href="#read_ADerrors-125"><span class="linenos">125</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="read_ADerrors-126"><a href="#read_ADerrors-126"><span class="linenos">126</span></a>            <span class="n">zero</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_double</span><span class="p">())</span>
-</span><span id="read_ADerrors-127"><a href="#read_ADerrors-127"><span class="linenos">127</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;zero&#39;</span><span class="p">,</span> <span class="n">zero</span><span class="p">)</span>
-</span><span id="read_ADerrors-128"><a href="#read_ADerrors-128"><span class="linenos">128</span></a>
-</span><span id="read_ADerrors-129"><a href="#read_ADerrors-129"><span class="linenos">129</span></a>        <span class="n">four</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_ADerrors-130"><a href="#read_ADerrors-130"><span class="linenos">130</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
-</span><span id="read_ADerrors-131"><a href="#read_ADerrors-131"><span class="linenos">131</span></a>            <span class="n">four</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_double</span><span class="p">())</span>
-</span><span id="read_ADerrors-132"><a href="#read_ADerrors-132"><span class="linenos">132</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;four&#39;</span><span class="p">,</span> <span class="n">four</span><span class="p">)</span>
-</span><span id="read_ADerrors-133"><a href="#read_ADerrors-133"><span class="linenos">133</span></a>
-</span><span id="read_ADerrors-134"><a href="#read_ADerrors-134"><span class="linenos">134</span></a>        <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">ndata</span><span class="p">)</span>
-</span><span id="read_ADerrors-135"><a href="#read_ADerrors-135"><span class="linenos">135</span></a>        <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
-</span><span id="read_ADerrors-136"><a href="#read_ADerrors-136"><span class="linenos">136</span></a>        <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="read_ADerrors-137"><a href="#read_ADerrors-137"><span class="linenos">137</span></a>        <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">ndata</span><span class="p">)),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="read_ADerrors-138"><a href="#read_ADerrors-138"><span class="linenos">138</span></a>        <span class="n">delta</span> <span class="o">=</span> <span class="n">pd_buf</span><span class="p">[:]</span>
-</span><span id="read_ADerrors-139"><a href="#read_ADerrors-139"><span class="linenos">139</span></a>
-</span><span id="read_ADerrors-140"><a href="#read_ADerrors-140"><span class="linenos">140</span></a>        <span class="n">samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">delta</span><span class="p">)</span> <span class="o">+</span> <span class="n">mean</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">cumsum</span><span class="p">([</span><span class="n">a</span> <span class="k">for</span> <span class="n">su</span> <span class="ow">in</span> <span class="n">vrep</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="n">su</span><span class="p">])[:</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="read_ADerrors-141"><a href="#read_ADerrors-141"><span class="linenos">141</span></a>        <span class="n">no_reps</span> <span class="o">=</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">vrep</span><span class="p">]</span>
-</span><span id="read_ADerrors-142"><a href="#read_ADerrors-142"><span class="linenos">142</span></a>        <span class="k">assert</span> <span class="nb">len</span><span class="p">(</span><span class="n">ids</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">no_reps</span><span class="p">)</span>
-</span><span id="read_ADerrors-143"><a href="#read_ADerrors-143"><span class="linenos">143</span></a>        <span class="n">tmp_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_ADerrors-144"><a href="#read_ADerrors-144"><span class="linenos">144</span></a>        <span class="n">ens_length</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">o</span><span class="p">))</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ids</span><span class="p">])</span>
-</span><span id="read_ADerrors-145"><a href="#read_ADerrors-145"><span class="linenos">145</span></a>        <span class="k">for</span> <span class="n">loc_id</span><span class="p">,</span> <span class="n">reps</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">ids</span><span class="p">,</span> <span class="n">no_reps</span><span class="p">):</span>
-</span><span id="read_ADerrors-146"><a href="#read_ADerrors-146"><span class="linenos">146</span></a>            <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">reps</span><span class="p">):</span>
-</span><span id="read_ADerrors-147"><a href="#read_ADerrors-147"><span class="linenos">147</span></a>                <span class="n">missing_chars</span> <span class="o">=</span> <span class="n">ens_length</span> <span class="o">-</span> <span class="nb">len</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">loc_id</span><span class="p">))</span>
-</span><span id="read_ADerrors-148"><a href="#read_ADerrors-148"><span class="linenos">148</span></a>                <span class="n">tmp_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">loc_id</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">*</span> <span class="n">missing_chars</span> <span class="o">+</span> <span class="s1">&#39;|r&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="si">{0:03d}</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">index</span><span class="p">))</span>
-</span><span id="read_ADerrors-149"><a href="#read_ADerrors-149"><span class="linenos">149</span></a>
-</span><span id="read_ADerrors-150"><a href="#read_ADerrors-150"><span class="linenos">150</span></a>        <span class="n">return_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">tmp_names</span><span class="p">))</span>
-</span><span id="read_ADerrors-151"><a href="#read_ADerrors-151"><span class="linenos">151</span></a>
-</span><span id="read_ADerrors-152"><a href="#read_ADerrors-152"><span class="linenos">152</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="read_ADerrors-153"><a href="#read_ADerrors-153"><span class="linenos">153</span></a>    <span class="nb">print</span><span class="p">()</span>
-</span><span id="read_ADerrors-154"><a href="#read_ADerrors-154"><span class="linenos">154</span></a>    <span class="nb">print</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">return_list</span><span class="p">),</span> <span class="s1">&#39;observable(s) extracted.&#39;</span><span class="p">)</span>
-</span><span id="read_ADerrors-155"><a href="#read_ADerrors-155"><span class="linenos">155</span></a>    <span class="k">return</span> <span class="n">return_list</span>
+    <a class="headerlink" href="#read_ADerrors"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_ADerrors-8"><a href="#read_ADerrors-8"><span class="linenos">  8</span></a><span class="k">def</span> <span class="nf">read_ADerrors</span><span class="p">(</span><span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="read_ADerrors-9"><a href="#read_ADerrors-9"><span class="linenos">  9</span></a>    <span class="sd">&quot;&quot;&quot; Extract generic MCMC data from a bdio file</span>
+</span><span id="read_ADerrors-10"><a href="#read_ADerrors-10"><span class="linenos"> 10</span></a>
+</span><span id="read_ADerrors-11"><a href="#read_ADerrors-11"><span class="linenos"> 11</span></a><span class="sd">    read_ADerrors requires bdio to be compiled into a shared library. This can be achieved by</span>
+</span><span id="read_ADerrors-12"><a href="#read_ADerrors-12"><span class="linenos"> 12</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
+</span><span id="read_ADerrors-13"><a href="#read_ADerrors-13"><span class="linenos"> 13</span></a>
+</span><span id="read_ADerrors-14"><a href="#read_ADerrors-14"><span class="linenos"> 14</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
+</span><span id="read_ADerrors-15"><a href="#read_ADerrors-15"><span class="linenos"> 15</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
+</span><span id="read_ADerrors-16"><a href="#read_ADerrors-16"><span class="linenos"> 16</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
+</span><span id="read_ADerrors-17"><a href="#read_ADerrors-17"><span class="linenos"> 17</span></a>
+</span><span id="read_ADerrors-18"><a href="#read_ADerrors-18"><span class="linenos"> 18</span></a><span class="sd">    Parameters</span>
+</span><span id="read_ADerrors-19"><a href="#read_ADerrors-19"><span class="linenos"> 19</span></a><span class="sd">    ----------</span>
+</span><span id="read_ADerrors-20"><a href="#read_ADerrors-20"><span class="linenos"> 20</span></a><span class="sd">    file_path -- path to the bdio file</span>
+</span><span id="read_ADerrors-21"><a href="#read_ADerrors-21"><span class="linenos"> 21</span></a><span class="sd">    bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
+</span><span id="read_ADerrors-22"><a href="#read_ADerrors-22"><span class="linenos"> 22</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_ADerrors-23"><a href="#read_ADerrors-23"><span class="linenos"> 23</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
+</span><span id="read_ADerrors-24"><a href="#read_ADerrors-24"><span class="linenos"> 24</span></a>
+</span><span id="read_ADerrors-25"><a href="#read_ADerrors-25"><span class="linenos"> 25</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
+</span><span id="read_ADerrors-26"><a href="#read_ADerrors-26"><span class="linenos"> 26</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
+</span><span id="read_ADerrors-27"><a href="#read_ADerrors-27"><span class="linenos"> 27</span></a>
+</span><span id="read_ADerrors-28"><a href="#read_ADerrors-28"><span class="linenos"> 28</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
+</span><span id="read_ADerrors-29"><a href="#read_ADerrors-29"><span class="linenos"> 29</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="read_ADerrors-30"><a href="#read_ADerrors-30"><span class="linenos"> 30</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_ADerrors-31"><a href="#read_ADerrors-31"><span class="linenos"> 31</span></a>
+</span><span id="read_ADerrors-32"><a href="#read_ADerrors-32"><span class="linenos"> 32</span></a>    <span class="n">bdio_seek_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_seek_record</span>
+</span><span id="read_ADerrors-33"><a href="#read_ADerrors-33"><span class="linenos"> 33</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="read_ADerrors-34"><a href="#read_ADerrors-34"><span class="linenos"> 34</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_ADerrors-35"><a href="#read_ADerrors-35"><span class="linenos"> 35</span></a>
+</span><span id="read_ADerrors-36"><a href="#read_ADerrors-36"><span class="linenos"> 36</span></a>    <span class="n">bdio_get_rlen</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_rlen</span>
+</span><span id="read_ADerrors-37"><a href="#read_ADerrors-37"><span class="linenos"> 37</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="read_ADerrors-38"><a href="#read_ADerrors-38"><span class="linenos"> 38</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_ADerrors-39"><a href="#read_ADerrors-39"><span class="linenos"> 39</span></a>
+</span><span id="read_ADerrors-40"><a href="#read_ADerrors-40"><span class="linenos"> 40</span></a>    <span class="n">bdio_get_ruinfo</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_ruinfo</span>
+</span><span id="read_ADerrors-41"><a href="#read_ADerrors-41"><span class="linenos"> 41</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="read_ADerrors-42"><a href="#read_ADerrors-42"><span class="linenos"> 42</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_ADerrors-43"><a href="#read_ADerrors-43"><span class="linenos"> 43</span></a>
+</span><span id="read_ADerrors-44"><a href="#read_ADerrors-44"><span class="linenos"> 44</span></a>    <span class="n">bdio_read</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read</span>
+</span><span id="read_ADerrors-45"><a href="#read_ADerrors-45"><span class="linenos"> 45</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="read_ADerrors-46"><a href="#read_ADerrors-46"><span class="linenos"> 46</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_ADerrors-47"><a href="#read_ADerrors-47"><span class="linenos"> 47</span></a>
+</span><span id="read_ADerrors-48"><a href="#read_ADerrors-48"><span class="linenos"> 48</span></a>    <span class="n">bdio_read_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_f64</span>
+</span><span id="read_ADerrors-49"><a href="#read_ADerrors-49"><span class="linenos"> 49</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="read_ADerrors-50"><a href="#read_ADerrors-50"><span class="linenos"> 50</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_ADerrors-51"><a href="#read_ADerrors-51"><span class="linenos"> 51</span></a>
+</span><span id="read_ADerrors-52"><a href="#read_ADerrors-52"><span class="linenos"> 52</span></a>    <span class="n">bdio_read_int32</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_int32</span>
+</span><span id="read_ADerrors-53"><a href="#read_ADerrors-53"><span class="linenos"> 53</span></a>    <span class="n">bdio_read_int32</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="read_ADerrors-54"><a href="#read_ADerrors-54"><span class="linenos"> 54</span></a>    <span class="n">bdio_read_int32</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_ADerrors-55"><a href="#read_ADerrors-55"><span class="linenos"> 55</span></a>
+</span><span id="read_ADerrors-56"><a href="#read_ADerrors-56"><span class="linenos"> 56</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="read_ADerrors-57"><a href="#read_ADerrors-57"><span class="linenos"> 57</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="s1">&#39;r&#39;</span>
+</span><span id="read_ADerrors-58"><a href="#read_ADerrors-58"><span class="linenos"> 58</span></a>    <span class="n">b_read</span> <span class="o">=</span> <span class="n">read</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="read_ADerrors-59"><a href="#read_ADerrors-59"><span class="linenos"> 59</span></a>
+</span><span id="read_ADerrors-60"><a href="#read_ADerrors-60"><span class="linenos"> 60</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_read</span><span class="p">),</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="read_ADerrors-61"><a href="#read_ADerrors-61"><span class="linenos"> 61</span></a>
+</span><span id="read_ADerrors-62"><a href="#read_ADerrors-62"><span class="linenos"> 62</span></a>    <span class="n">return_list</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_ADerrors-63"><a href="#read_ADerrors-63"><span class="linenos"> 63</span></a>
+</span><span id="read_ADerrors-64"><a href="#read_ADerrors-64"><span class="linenos"> 64</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Reading of bdio file started&#39;</span><span class="p">)</span>
+</span><span id="read_ADerrors-65"><a href="#read_ADerrors-65"><span class="linenos"> 65</span></a>    <span class="k">while</span> <span class="mi">1</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_ADerrors-66"><a href="#read_ADerrors-66"><span class="linenos"> 66</span></a>        <span class="n">bdio_seek_record</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="read_ADerrors-67"><a href="#read_ADerrors-67"><span class="linenos"> 67</span></a>        <span class="n">ruinfo</span> <span class="o">=</span> <span class="n">bdio_get_ruinfo</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="read_ADerrors-68"><a href="#read_ADerrors-68"><span class="linenos"> 68</span></a>
+</span><span id="read_ADerrors-69"><a href="#read_ADerrors-69"><span class="linenos"> 69</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">7</span><span class="p">:</span>
+</span><span id="read_ADerrors-70"><a href="#read_ADerrors-70"><span class="linenos"> 70</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;MD5sum found&#39;</span><span class="p">)</span>  <span class="c1"># For now we just ignore these entries and do not perform any checks on them</span>
+</span><span id="read_ADerrors-71"><a href="#read_ADerrors-71"><span class="linenos"> 71</span></a>            <span class="k">continue</span>
+</span><span id="read_ADerrors-72"><a href="#read_ADerrors-72"><span class="linenos"> 72</span></a>
+</span><span id="read_ADerrors-73"><a href="#read_ADerrors-73"><span class="linenos"> 73</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_ADerrors-74"><a href="#read_ADerrors-74"><span class="linenos"> 74</span></a>            <span class="c1"># EOF reached</span>
+</span><span id="read_ADerrors-75"><a href="#read_ADerrors-75"><span class="linenos"> 75</span></a>            <span class="k">break</span>
+</span><span id="read_ADerrors-76"><a href="#read_ADerrors-76"><span class="linenos"> 76</span></a>        <span class="n">bdio_get_rlen</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="read_ADerrors-77"><a href="#read_ADerrors-77"><span class="linenos"> 77</span></a>
+</span><span id="read_ADerrors-78"><a href="#read_ADerrors-78"><span class="linenos"> 78</span></a>        <span class="k">def</span> <span class="nf">read_c_double</span><span class="p">():</span>
+</span><span id="read_ADerrors-79"><a href="#read_ADerrors-79"><span class="linenos"> 79</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span>
+</span><span id="read_ADerrors-80"><a href="#read_ADerrors-80"><span class="linenos"> 80</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
+</span><span id="read_ADerrors-81"><a href="#read_ADerrors-81"><span class="linenos"> 81</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="read_ADerrors-82"><a href="#read_ADerrors-82"><span class="linenos"> 82</span></a>            <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">8</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="read_ADerrors-83"><a href="#read_ADerrors-83"><span class="linenos"> 83</span></a>            <span class="k">return</span> <span class="n">pd_buf</span><span class="o">.</span><span class="n">value</span>
+</span><span id="read_ADerrors-84"><a href="#read_ADerrors-84"><span class="linenos"> 84</span></a>
+</span><span id="read_ADerrors-85"><a href="#read_ADerrors-85"><span class="linenos"> 85</span></a>        <span class="n">mean</span> <span class="o">=</span> <span class="n">read_c_double</span><span class="p">()</span>
+</span><span id="read_ADerrors-86"><a href="#read_ADerrors-86"><span class="linenos"> 86</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;mean&#39;</span><span class="p">,</span> <span class="n">mean</span><span class="p">)</span>
+</span><span id="read_ADerrors-87"><a href="#read_ADerrors-87"><span class="linenos"> 87</span></a>
+</span><span id="read_ADerrors-88"><a href="#read_ADerrors-88"><span class="linenos"> 88</span></a>        <span class="k">def</span> <span class="nf">read_c_size_t</span><span class="p">():</span>
+</span><span id="read_ADerrors-89"><a href="#read_ADerrors-89"><span class="linenos"> 89</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="read_ADerrors-90"><a href="#read_ADerrors-90"><span class="linenos"> 90</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
+</span><span id="read_ADerrors-91"><a href="#read_ADerrors-91"><span class="linenos"> 91</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="read_ADerrors-92"><a href="#read_ADerrors-92"><span class="linenos"> 92</span></a>            <span class="n">bdio_read_int32</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">4</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="read_ADerrors-93"><a href="#read_ADerrors-93"><span class="linenos"> 93</span></a>            <span class="k">return</span> <span class="n">pd_buf</span><span class="o">.</span><span class="n">value</span>
+</span><span id="read_ADerrors-94"><a href="#read_ADerrors-94"><span class="linenos"> 94</span></a>
+</span><span id="read_ADerrors-95"><a href="#read_ADerrors-95"><span class="linenos"> 95</span></a>        <span class="n">neid</span> <span class="o">=</span> <span class="n">read_c_size_t</span><span class="p">()</span>
+</span><span id="read_ADerrors-96"><a href="#read_ADerrors-96"><span class="linenos"> 96</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;neid&#39;</span><span class="p">,</span> <span class="n">neid</span><span class="p">)</span>
+</span><span id="read_ADerrors-97"><a href="#read_ADerrors-97"><span class="linenos"> 97</span></a>
+</span><span id="read_ADerrors-98"><a href="#read_ADerrors-98"><span class="linenos"> 98</span></a>        <span class="n">ndata</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_ADerrors-99"><a href="#read_ADerrors-99"><span class="linenos"> 99</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="read_ADerrors-100"><a href="#read_ADerrors-100"><span class="linenos">100</span></a>            <span class="n">ndata</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
+</span><span id="read_ADerrors-101"><a href="#read_ADerrors-101"><span class="linenos">101</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ndata&#39;</span><span class="p">,</span> <span class="n">ndata</span><span class="p">)</span>
+</span><span id="read_ADerrors-102"><a href="#read_ADerrors-102"><span class="linenos">102</span></a>
+</span><span id="read_ADerrors-103"><a href="#read_ADerrors-103"><span class="linenos">103</span></a>        <span class="n">nrep</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_ADerrors-104"><a href="#read_ADerrors-104"><span class="linenos">104</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="read_ADerrors-105"><a href="#read_ADerrors-105"><span class="linenos">105</span></a>            <span class="n">nrep</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
+</span><span id="read_ADerrors-106"><a href="#read_ADerrors-106"><span class="linenos">106</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nrep&#39;</span><span class="p">,</span> <span class="n">nrep</span><span class="p">)</span>
+</span><span id="read_ADerrors-107"><a href="#read_ADerrors-107"><span class="linenos">107</span></a>
+</span><span id="read_ADerrors-108"><a href="#read_ADerrors-108"><span class="linenos">108</span></a>        <span class="n">vrep</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_ADerrors-109"><a href="#read_ADerrors-109"><span class="linenos">109</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="read_ADerrors-110"><a href="#read_ADerrors-110"><span class="linenos">110</span></a>            <span class="n">vrep</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="read_ADerrors-111"><a href="#read_ADerrors-111"><span class="linenos">111</span></a>            <span class="k">for</span> <span class="n">jndex</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrep</span><span class="p">[</span><span class="n">index</span><span class="p">]):</span>
+</span><span id="read_ADerrors-112"><a href="#read_ADerrors-112"><span class="linenos">112</span></a>                <span class="n">vrep</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
+</span><span id="read_ADerrors-113"><a href="#read_ADerrors-113"><span class="linenos">113</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;vrep&#39;</span><span class="p">,</span> <span class="n">vrep</span><span class="p">)</span>
+</span><span id="read_ADerrors-114"><a href="#read_ADerrors-114"><span class="linenos">114</span></a>
+</span><span id="read_ADerrors-115"><a href="#read_ADerrors-115"><span class="linenos">115</span></a>        <span class="n">ids</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_ADerrors-116"><a href="#read_ADerrors-116"><span class="linenos">116</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="read_ADerrors-117"><a href="#read_ADerrors-117"><span class="linenos">117</span></a>            <span class="n">ids</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
+</span><span id="read_ADerrors-118"><a href="#read_ADerrors-118"><span class="linenos">118</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ids&#39;</span><span class="p">,</span> <span class="n">ids</span><span class="p">)</span>
+</span><span id="read_ADerrors-119"><a href="#read_ADerrors-119"><span class="linenos">119</span></a>
+</span><span id="read_ADerrors-120"><a href="#read_ADerrors-120"><span class="linenos">120</span></a>        <span class="n">nt</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_ADerrors-121"><a href="#read_ADerrors-121"><span class="linenos">121</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="read_ADerrors-122"><a href="#read_ADerrors-122"><span class="linenos">122</span></a>            <span class="n">nt</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_size_t</span><span class="p">())</span>
+</span><span id="read_ADerrors-123"><a href="#read_ADerrors-123"><span class="linenos">123</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nt&#39;</span><span class="p">,</span> <span class="n">nt</span><span class="p">)</span>
+</span><span id="read_ADerrors-124"><a href="#read_ADerrors-124"><span class="linenos">124</span></a>
+</span><span id="read_ADerrors-125"><a href="#read_ADerrors-125"><span class="linenos">125</span></a>        <span class="n">zero</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_ADerrors-126"><a href="#read_ADerrors-126"><span class="linenos">126</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="read_ADerrors-127"><a href="#read_ADerrors-127"><span class="linenos">127</span></a>            <span class="n">zero</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_double</span><span class="p">())</span>
+</span><span id="read_ADerrors-128"><a href="#read_ADerrors-128"><span class="linenos">128</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;zero&#39;</span><span class="p">,</span> <span class="n">zero</span><span class="p">)</span>
+</span><span id="read_ADerrors-129"><a href="#read_ADerrors-129"><span class="linenos">129</span></a>
+</span><span id="read_ADerrors-130"><a href="#read_ADerrors-130"><span class="linenos">130</span></a>        <span class="n">four</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_ADerrors-131"><a href="#read_ADerrors-131"><span class="linenos">131</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">neid</span><span class="p">):</span>
+</span><span id="read_ADerrors-132"><a href="#read_ADerrors-132"><span class="linenos">132</span></a>            <span class="n">four</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">read_c_double</span><span class="p">())</span>
+</span><span id="read_ADerrors-133"><a href="#read_ADerrors-133"><span class="linenos">133</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;four&#39;</span><span class="p">,</span> <span class="n">four</span><span class="p">)</span>
+</span><span id="read_ADerrors-134"><a href="#read_ADerrors-134"><span class="linenos">134</span></a>
+</span><span id="read_ADerrors-135"><a href="#read_ADerrors-135"><span class="linenos">135</span></a>        <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">ndata</span><span class="p">)</span>
+</span><span id="read_ADerrors-136"><a href="#read_ADerrors-136"><span class="linenos">136</span></a>        <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
+</span><span id="read_ADerrors-137"><a href="#read_ADerrors-137"><span class="linenos">137</span></a>        <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="read_ADerrors-138"><a href="#read_ADerrors-138"><span class="linenos">138</span></a>        <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">ndata</span><span class="p">)),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="read_ADerrors-139"><a href="#read_ADerrors-139"><span class="linenos">139</span></a>        <span class="n">delta</span> <span class="o">=</span> <span class="n">pd_buf</span><span class="p">[:]</span>
+</span><span id="read_ADerrors-140"><a href="#read_ADerrors-140"><span class="linenos">140</span></a>
+</span><span id="read_ADerrors-141"><a href="#read_ADerrors-141"><span class="linenos">141</span></a>        <span class="n">samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">delta</span><span class="p">)</span> <span class="o">+</span> <span class="n">mean</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">cumsum</span><span class="p">([</span><span class="n">a</span> <span class="k">for</span> <span class="n">su</span> <span class="ow">in</span> <span class="n">vrep</span> <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="n">su</span><span class="p">])[:</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="read_ADerrors-142"><a href="#read_ADerrors-142"><span class="linenos">142</span></a>        <span class="n">no_reps</span> <span class="o">=</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">vrep</span><span class="p">]</span>
+</span><span id="read_ADerrors-143"><a href="#read_ADerrors-143"><span class="linenos">143</span></a>        <span class="k">assert</span> <span class="nb">len</span><span class="p">(</span><span class="n">ids</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">no_reps</span><span class="p">)</span>
+</span><span id="read_ADerrors-144"><a href="#read_ADerrors-144"><span class="linenos">144</span></a>        <span class="n">tmp_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_ADerrors-145"><a href="#read_ADerrors-145"><span class="linenos">145</span></a>        <span class="n">ens_length</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">o</span><span class="p">))</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ids</span><span class="p">])</span>
+</span><span id="read_ADerrors-146"><a href="#read_ADerrors-146"><span class="linenos">146</span></a>        <span class="k">for</span> <span class="n">loc_id</span><span class="p">,</span> <span class="n">reps</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">ids</span><span class="p">,</span> <span class="n">no_reps</span><span class="p">):</span>
+</span><span id="read_ADerrors-147"><a href="#read_ADerrors-147"><span class="linenos">147</span></a>            <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">reps</span><span class="p">):</span>
+</span><span id="read_ADerrors-148"><a href="#read_ADerrors-148"><span class="linenos">148</span></a>                <span class="n">missing_chars</span> <span class="o">=</span> <span class="n">ens_length</span> <span class="o">-</span> <span class="nb">len</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">loc_id</span><span class="p">))</span>
+</span><span id="read_ADerrors-149"><a href="#read_ADerrors-149"><span class="linenos">149</span></a>                <span class="n">tmp_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">loc_id</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">*</span> <span class="n">missing_chars</span> <span class="o">+</span> <span class="s1">&#39;|r&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="si">{0:03d}</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">index</span><span class="p">))</span>
+</span><span id="read_ADerrors-150"><a href="#read_ADerrors-150"><span class="linenos">150</span></a>
+</span><span id="read_ADerrors-151"><a href="#read_ADerrors-151"><span class="linenos">151</span></a>        <span class="n">return_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">tmp_names</span><span class="p">))</span>
+</span><span id="read_ADerrors-152"><a href="#read_ADerrors-152"><span class="linenos">152</span></a>
+</span><span id="read_ADerrors-153"><a href="#read_ADerrors-153"><span class="linenos">153</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="read_ADerrors-154"><a href="#read_ADerrors-154"><span class="linenos">154</span></a>    <span class="nb">print</span><span class="p">()</span>
+</span><span id="read_ADerrors-155"><a href="#read_ADerrors-155"><span class="linenos">155</span></a>    <span class="nb">print</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">return_list</span><span class="p">),</span> <span class="s1">&#39;observable(s) extracted.&#39;</span><span class="p">)</span>
+</span><span id="read_ADerrors-156"><a href="#read_ADerrors-156"><span class="linenos">156</span></a>    <span class="k">return</span> <span class="n">return_list</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Extract generic MCMC data from a bdio file</p>
 
@@ -945,141 +946,141 @@ adding the flag -fPIC to CC and changing the all target to</p>
 
                 </section>
                 <section id="write_ADerrors">
-                            <div class="attr function"><a class="headerlink" href="#write_ADerrors">#&nbsp;&nbsp</a>
+                            <input id="write_ADerrors-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">write_ADerrors</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">obs_list</span>, </span><span class="param"><span class="n">file_path</span>, </span><span class="param"><span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="write_ADerrors-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">write_ADerrors</span><span class="signature">(obs_list, file_path, bdio_path=&#39;./libbdio.so&#39;, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="write_ADerrors-158"><a href="#write_ADerrors-158"><span class="linenos">158</span></a><span class="k">def</span> <span class="nf">write_ADerrors</span><span class="p">(</span><span class="n">obs_list</span><span class="p">,</span> <span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="write_ADerrors-159"><a href="#write_ADerrors-159"><span class="linenos">159</span></a>    <span class="sd">&quot;&quot;&quot; Write Obs to a bdio file according to ADerrors conventions</span>
-</span><span id="write_ADerrors-160"><a href="#write_ADerrors-160"><span class="linenos">160</span></a>
-</span><span id="write_ADerrors-161"><a href="#write_ADerrors-161"><span class="linenos">161</span></a><span class="sd">    read_mesons requires bdio to be compiled into a shared library. This can be achieved by</span>
-</span><span id="write_ADerrors-162"><a href="#write_ADerrors-162"><span class="linenos">162</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
-</span><span id="write_ADerrors-163"><a href="#write_ADerrors-163"><span class="linenos">163</span></a>
-</span><span id="write_ADerrors-164"><a href="#write_ADerrors-164"><span class="linenos">164</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
-</span><span id="write_ADerrors-165"><a href="#write_ADerrors-165"><span class="linenos">165</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
-</span><span id="write_ADerrors-166"><a href="#write_ADerrors-166"><span class="linenos">166</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
-</span><span id="write_ADerrors-167"><a href="#write_ADerrors-167"><span class="linenos">167</span></a>
-</span><span id="write_ADerrors-168"><a href="#write_ADerrors-168"><span class="linenos">168</span></a><span class="sd">    Parameters</span>
-</span><span id="write_ADerrors-169"><a href="#write_ADerrors-169"><span class="linenos">169</span></a><span class="sd">    ----------</span>
-</span><span id="write_ADerrors-170"><a href="#write_ADerrors-170"><span class="linenos">170</span></a><span class="sd">    file_path -- path to the bdio file</span>
-</span><span id="write_ADerrors-171"><a href="#write_ADerrors-171"><span class="linenos">171</span></a><span class="sd">    bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
-</span><span id="write_ADerrors-172"><a href="#write_ADerrors-172"><span class="linenos">172</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="write_ADerrors-173"><a href="#write_ADerrors-173"><span class="linenos">173</span></a>
-</span><span id="write_ADerrors-174"><a href="#write_ADerrors-174"><span class="linenos">174</span></a>    <span class="k">for</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">obs_list</span><span class="p">:</span>
-</span><span id="write_ADerrors-175"><a href="#write_ADerrors-175"><span class="linenos">175</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="s1">&#39;e_names&#39;</span><span class="p">):</span>
-</span><span id="write_ADerrors-176"><a href="#write_ADerrors-176"><span class="linenos">176</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first for all obs.&#39;</span><span class="p">)</span>
-</span><span id="write_ADerrors-177"><a href="#write_ADerrors-177"><span class="linenos">177</span></a>
-</span><span id="write_ADerrors-178"><a href="#write_ADerrors-178"><span class="linenos">178</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
-</span><span id="write_ADerrors-179"><a href="#write_ADerrors-179"><span class="linenos">179</span></a>
-</span><span id="write_ADerrors-180"><a href="#write_ADerrors-180"><span class="linenos">180</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
-</span><span id="write_ADerrors-181"><a href="#write_ADerrors-181"><span class="linenos">181</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
-</span><span id="write_ADerrors-182"><a href="#write_ADerrors-182"><span class="linenos">182</span></a>
-</span><span id="write_ADerrors-183"><a href="#write_ADerrors-183"><span class="linenos">183</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
-</span><span id="write_ADerrors-184"><a href="#write_ADerrors-184"><span class="linenos">184</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="write_ADerrors-185"><a href="#write_ADerrors-185"><span class="linenos">185</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="write_ADerrors-186"><a href="#write_ADerrors-186"><span class="linenos">186</span></a>
-</span><span id="write_ADerrors-187"><a href="#write_ADerrors-187"><span class="linenos">187</span></a>    <span class="n">bdio_start_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_start_record</span>
-</span><span id="write_ADerrors-188"><a href="#write_ADerrors-188"><span class="linenos">188</span></a>    <span class="n">bdio_start_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="write_ADerrors-189"><a href="#write_ADerrors-189"><span class="linenos">189</span></a>    <span class="n">bdio_start_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="write_ADerrors-190"><a href="#write_ADerrors-190"><span class="linenos">190</span></a>
-</span><span id="write_ADerrors-191"><a href="#write_ADerrors-191"><span class="linenos">191</span></a>    <span class="n">bdio_flush_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_flush_record</span>
-</span><span id="write_ADerrors-192"><a href="#write_ADerrors-192"><span class="linenos">192</span></a>    <span class="n">bdio_flush_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="write_ADerrors-193"><a href="#write_ADerrors-193"><span class="linenos">193</span></a>    <span class="n">bdio_flush_record</span><span class="o">.</span><span class="n">argytpes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="write_ADerrors-194"><a href="#write_ADerrors-194"><span class="linenos">194</span></a>
-</span><span id="write_ADerrors-195"><a href="#write_ADerrors-195"><span class="linenos">195</span></a>    <span class="n">bdio_write_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_write_f64</span>
-</span><span id="write_ADerrors-196"><a href="#write_ADerrors-196"><span class="linenos">196</span></a>    <span class="n">bdio_write_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="write_ADerrors-197"><a href="#write_ADerrors-197"><span class="linenos">197</span></a>    <span class="n">bdio_write_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="write_ADerrors-198"><a href="#write_ADerrors-198"><span class="linenos">198</span></a>
-</span><span id="write_ADerrors-199"><a href="#write_ADerrors-199"><span class="linenos">199</span></a>    <span class="n">bdio_write_int32</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_write_int32</span>
-</span><span id="write_ADerrors-200"><a href="#write_ADerrors-200"><span class="linenos">200</span></a>    <span class="n">bdio_write_int32</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="write_ADerrors-201"><a href="#write_ADerrors-201"><span class="linenos">201</span></a>    <span class="n">bdio_write_int32</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="write_ADerrors-202"><a href="#write_ADerrors-202"><span class="linenos">202</span></a>
-</span><span id="write_ADerrors-203"><a href="#write_ADerrors-203"><span class="linenos">203</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="write_ADerrors-204"><a href="#write_ADerrors-204"><span class="linenos">204</span></a>    <span class="n">write</span> <span class="o">=</span> <span class="s1">&#39;w&#39;</span>
-</span><span id="write_ADerrors-205"><a href="#write_ADerrors-205"><span class="linenos">205</span></a>    <span class="n">b_write</span> <span class="o">=</span> <span class="n">write</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="write_ADerrors-206"><a href="#write_ADerrors-206"><span class="linenos">206</span></a>    <span class="n">form</span> <span class="o">=</span> <span class="s1">&#39;pyerrors ADerror export&#39;</span>
-</span><span id="write_ADerrors-207"><a href="#write_ADerrors-207"><span class="linenos">207</span></a>    <span class="n">b_form</span> <span class="o">=</span> <span class="n">form</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="write_ADerrors-208"><a href="#write_ADerrors-208"><span class="linenos">208</span></a>
-</span><span id="write_ADerrors-209"><a href="#write_ADerrors-209"><span class="linenos">209</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_write</span><span class="p">),</span> <span class="n">b_form</span><span class="p">)</span>
-</span><span id="write_ADerrors-210"><a href="#write_ADerrors-210"><span class="linenos">210</span></a>
-</span><span id="write_ADerrors-211"><a href="#write_ADerrors-211"><span class="linenos">211</span></a>    <span class="k">for</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">obs_list</span><span class="p">:</span>
-</span><span id="write_ADerrors-212"><a href="#write_ADerrors-212"><span class="linenos">212</span></a>        <span class="c1"># mean = obs.value</span>
-</span><span id="write_ADerrors-213"><a href="#write_ADerrors-213"><span class="linenos">213</span></a>        <span class="n">neid</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span>
-</span><span id="write_ADerrors-214"><a href="#write_ADerrors-214"><span class="linenos">214</span></a>        <span class="n">vrep</span> <span class="o">=</span> <span class="p">[[</span><span class="n">obs</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">o</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">sl</span><span class="p">]</span> <span class="k">for</span> <span class="n">sl</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">values</span><span class="p">())]</span>
-</span><span id="write_ADerrors-215"><a href="#write_ADerrors-215"><span class="linenos">215</span></a>        <span class="n">vrep_write</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="n">vrep</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]</span>
-</span><span id="write_ADerrors-216"><a href="#write_ADerrors-216"><span class="linenos">216</span></a>        <span class="n">ndata</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">vrep</span><span class="p">]</span>
-</span><span id="write_ADerrors-217"><a href="#write_ADerrors-217"><span class="linenos">217</span></a>        <span class="n">nrep</span> <span class="o">=</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">vrep</span><span class="p">]</span>
-</span><span id="write_ADerrors-218"><a href="#write_ADerrors-218"><span class="linenos">218</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ndata&#39;</span><span class="p">,</span> <span class="n">ndata</span><span class="p">)</span>
-</span><span id="write_ADerrors-219"><a href="#write_ADerrors-219"><span class="linenos">219</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nrep&#39;</span><span class="p">,</span> <span class="n">nrep</span><span class="p">)</span>
-</span><span id="write_ADerrors-220"><a href="#write_ADerrors-220"><span class="linenos">220</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;vrep&#39;</span><span class="p">,</span> <span class="n">vrep</span><span class="p">)</span>
-</span><span id="write_ADerrors-221"><a href="#write_ADerrors-221"><span class="linenos">221</span></a>        <span class="n">keys</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
-</span><span id="write_ADerrors-222"><a href="#write_ADerrors-222"><span class="linenos">222</span></a>        <span class="n">ids</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="write_ADerrors-223"><a href="#write_ADerrors-223"><span class="linenos">223</span></a>        <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="n">keys</span><span class="p">:</span>
-</span><span id="write_ADerrors-224"><a href="#write_ADerrors-224"><span class="linenos">224</span></a>            <span class="k">try</span><span class="p">:</span>  <span class="c1"># Try to convert key to integer</span>
-</span><span id="write_ADerrors-225"><a href="#write_ADerrors-225"><span class="linenos">225</span></a>                <span class="n">ids</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">key</span><span class="p">))</span>
-</span><span id="write_ADerrors-226"><a href="#write_ADerrors-226"><span class="linenos">226</span></a>            <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>  <span class="c1"># If not possible construct a hash</span>
-</span><span id="write_ADerrors-227"><a href="#write_ADerrors-227"><span class="linenos">227</span></a>                <span class="n">ids</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">hashlib</span><span class="o">.</span><span class="n">sha256</span><span class="p">(</span><span class="n">key</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span><span class="o">.</span><span class="n">hexdigest</span><span class="p">(),</span> <span class="mi">16</span><span class="p">)</span> <span class="o">%</span> <span class="mi">10</span> <span class="o">**</span> <span class="mi">8</span><span class="p">)</span>
-</span><span id="write_ADerrors-228"><a href="#write_ADerrors-228"><span class="linenos">228</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ids&#39;</span><span class="p">,</span> <span class="n">ids</span><span class="p">)</span>
-</span><span id="write_ADerrors-229"><a href="#write_ADerrors-229"><span class="linenos">229</span></a>        <span class="n">nt</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="write_ADerrors-230"><a href="#write_ADerrors-230"><span class="linenos">230</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
-</span><span id="write_ADerrors-231"><a href="#write_ADerrors-231"><span class="linenos">231</span></a>
-</span><span id="write_ADerrors-232"><a href="#write_ADerrors-232"><span class="linenos">232</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="write_ADerrors-233"><a href="#write_ADerrors-233"><span class="linenos">233</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="write_ADerrors-234"><a href="#write_ADerrors-234"><span class="linenos">234</span></a>                <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
-</span><span id="write_ADerrors-235"><a href="#write_ADerrors-235"><span class="linenos">235</span></a>
-</span><span id="write_ADerrors-236"><a href="#write_ADerrors-236"><span class="linenos">236</span></a>            <span class="c1"># e_N = np.sum(r_length)</span>
-</span><span id="write_ADerrors-237"><a href="#write_ADerrors-237"><span class="linenos">237</span></a>            <span class="n">nt</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">max</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span> <span class="o">//</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="write_ADerrors-238"><a href="#write_ADerrors-238"><span class="linenos">238</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nt&#39;</span><span class="p">,</span> <span class="n">nt</span><span class="p">)</span>
-</span><span id="write_ADerrors-239"><a href="#write_ADerrors-239"><span class="linenos">239</span></a>        <span class="n">zero</span> <span class="o">=</span> <span class="n">neid</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.0</span><span class="p">]</span>
-</span><span id="write_ADerrors-240"><a href="#write_ADerrors-240"><span class="linenos">240</span></a>        <span class="n">four</span> <span class="o">=</span> <span class="n">neid</span> <span class="o">*</span> <span class="p">[</span><span class="mf">4.0</span><span class="p">]</span>
-</span><span id="write_ADerrors-241"><a href="#write_ADerrors-241"><span class="linenos">241</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;zero&#39;</span><span class="p">,</span> <span class="n">zero</span><span class="p">)</span>
-</span><span id="write_ADerrors-242"><a href="#write_ADerrors-242"><span class="linenos">242</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;four&#39;</span><span class="p">,</span> <span class="n">four</span><span class="p">)</span>
-</span><span id="write_ADerrors-243"><a href="#write_ADerrors-243"><span class="linenos">243</span></a>        <span class="n">delta</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">([</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[[</span><span class="n">obs</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">o</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">sl</span><span class="p">]</span> <span class="k">for</span> <span class="n">sl</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">values</span><span class="p">())]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">])</span>
-</span><span id="write_ADerrors-244"><a href="#write_ADerrors-244"><span class="linenos">244</span></a>
-</span><span id="write_ADerrors-245"><a href="#write_ADerrors-245"><span class="linenos">245</span></a>        <span class="n">bdio_start_record</span><span class="p">(</span><span class="mh">0x00</span><span class="p">,</span> <span class="mi">8</span><span class="p">,</span> <span class="n">fbdio</span><span class="p">)</span>
-</span><span id="write_ADerrors-246"><a href="#write_ADerrors-246"><span class="linenos">246</span></a>
-</span><span id="write_ADerrors-247"><a href="#write_ADerrors-247"><span class="linenos">247</span></a>        <span class="k">def</span> <span class="nf">write_c_double</span><span class="p">(</span><span class="n">double</span><span class="p">):</span>
-</span><span id="write_ADerrors-248"><a href="#write_ADerrors-248"><span class="linenos">248</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span><span class="p">(</span><span class="n">double</span><span class="p">)</span>
-</span><span id="write_ADerrors-249"><a href="#write_ADerrors-249"><span class="linenos">249</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="write_ADerrors-250"><a href="#write_ADerrors-250"><span class="linenos">250</span></a>            <span class="n">bdio_write_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">8</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="write_ADerrors-251"><a href="#write_ADerrors-251"><span class="linenos">251</span></a>
-</span><span id="write_ADerrors-252"><a href="#write_ADerrors-252"><span class="linenos">252</span></a>        <span class="k">def</span> <span class="nf">write_c_size_t</span><span class="p">(</span><span class="n">int32</span><span class="p">):</span>
-</span><span id="write_ADerrors-253"><a href="#write_ADerrors-253"><span class="linenos">253</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">int32</span><span class="p">)</span>
-</span><span id="write_ADerrors-254"><a href="#write_ADerrors-254"><span class="linenos">254</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="write_ADerrors-255"><a href="#write_ADerrors-255"><span class="linenos">255</span></a>            <span class="n">bdio_write_int32</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">4</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="write_ADerrors-256"><a href="#write_ADerrors-256"><span class="linenos">256</span></a>
-</span><span id="write_ADerrors-257"><a href="#write_ADerrors-257"><span class="linenos">257</span></a>        <span class="n">write_c_double</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
-</span><span id="write_ADerrors-258"><a href="#write_ADerrors-258"><span class="linenos">258</span></a>        <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">neid</span><span class="p">)</span>
-</span><span id="write_ADerrors-259"><a href="#write_ADerrors-259"><span class="linenos">259</span></a>
-</span><span id="write_ADerrors-260"><a href="#write_ADerrors-260"><span class="linenos">260</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">ndata</span><span class="p">:</span>
-</span><span id="write_ADerrors-261"><a href="#write_ADerrors-261"><span class="linenos">261</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="write_ADerrors-262"><a href="#write_ADerrors-262"><span class="linenos">262</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">nrep</span><span class="p">:</span>
-</span><span id="write_ADerrors-263"><a href="#write_ADerrors-263"><span class="linenos">263</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="write_ADerrors-264"><a href="#write_ADerrors-264"><span class="linenos">264</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">vrep_write</span><span class="p">:</span>
-</span><span id="write_ADerrors-265"><a href="#write_ADerrors-265"><span class="linenos">265</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="write_ADerrors-266"><a href="#write_ADerrors-266"><span class="linenos">266</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">ids</span><span class="p">:</span>
-</span><span id="write_ADerrors-267"><a href="#write_ADerrors-267"><span class="linenos">267</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="write_ADerrors-268"><a href="#write_ADerrors-268"><span class="linenos">268</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">nt</span><span class="p">:</span>
-</span><span id="write_ADerrors-269"><a href="#write_ADerrors-269"><span class="linenos">269</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="write_ADerrors-270"><a href="#write_ADerrors-270"><span class="linenos">270</span></a>
-</span><span id="write_ADerrors-271"><a href="#write_ADerrors-271"><span class="linenos">271</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">zero</span><span class="p">:</span>
-</span><span id="write_ADerrors-272"><a href="#write_ADerrors-272"><span class="linenos">272</span></a>            <span class="n">write_c_double</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="write_ADerrors-273"><a href="#write_ADerrors-273"><span class="linenos">273</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">four</span><span class="p">:</span>
-</span><span id="write_ADerrors-274"><a href="#write_ADerrors-274"><span class="linenos">274</span></a>            <span class="n">write_c_double</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="write_ADerrors-275"><a href="#write_ADerrors-275"><span class="linenos">275</span></a>
-</span><span id="write_ADerrors-276"><a href="#write_ADerrors-276"><span class="linenos">276</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">delta</span><span class="p">:</span>
-</span><span id="write_ADerrors-277"><a href="#write_ADerrors-277"><span class="linenos">277</span></a>            <span class="n">write_c_double</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
-</span><span id="write_ADerrors-278"><a href="#write_ADerrors-278"><span class="linenos">278</span></a>
-</span><span id="write_ADerrors-279"><a href="#write_ADerrors-279"><span class="linenos">279</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="write_ADerrors-280"><a href="#write_ADerrors-280"><span class="linenos">280</span></a>    <span class="k">return</span> <span class="mi">0</span>
+    <a class="headerlink" href="#write_ADerrors"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="write_ADerrors-159"><a href="#write_ADerrors-159"><span class="linenos">159</span></a><span class="k">def</span> <span class="nf">write_ADerrors</span><span class="p">(</span><span class="n">obs_list</span><span class="p">,</span> <span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="write_ADerrors-160"><a href="#write_ADerrors-160"><span class="linenos">160</span></a>    <span class="sd">&quot;&quot;&quot; Write Obs to a bdio file according to ADerrors conventions</span>
+</span><span id="write_ADerrors-161"><a href="#write_ADerrors-161"><span class="linenos">161</span></a>
+</span><span id="write_ADerrors-162"><a href="#write_ADerrors-162"><span class="linenos">162</span></a><span class="sd">    read_mesons requires bdio to be compiled into a shared library. This can be achieved by</span>
+</span><span id="write_ADerrors-163"><a href="#write_ADerrors-163"><span class="linenos">163</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
+</span><span id="write_ADerrors-164"><a href="#write_ADerrors-164"><span class="linenos">164</span></a>
+</span><span id="write_ADerrors-165"><a href="#write_ADerrors-165"><span class="linenos">165</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
+</span><span id="write_ADerrors-166"><a href="#write_ADerrors-166"><span class="linenos">166</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
+</span><span id="write_ADerrors-167"><a href="#write_ADerrors-167"><span class="linenos">167</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
+</span><span id="write_ADerrors-168"><a href="#write_ADerrors-168"><span class="linenos">168</span></a>
+</span><span id="write_ADerrors-169"><a href="#write_ADerrors-169"><span class="linenos">169</span></a><span class="sd">    Parameters</span>
+</span><span id="write_ADerrors-170"><a href="#write_ADerrors-170"><span class="linenos">170</span></a><span class="sd">    ----------</span>
+</span><span id="write_ADerrors-171"><a href="#write_ADerrors-171"><span class="linenos">171</span></a><span class="sd">    file_path -- path to the bdio file</span>
+</span><span id="write_ADerrors-172"><a href="#write_ADerrors-172"><span class="linenos">172</span></a><span class="sd">    bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
+</span><span id="write_ADerrors-173"><a href="#write_ADerrors-173"><span class="linenos">173</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="write_ADerrors-174"><a href="#write_ADerrors-174"><span class="linenos">174</span></a>
+</span><span id="write_ADerrors-175"><a href="#write_ADerrors-175"><span class="linenos">175</span></a>    <span class="k">for</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">obs_list</span><span class="p">:</span>
+</span><span id="write_ADerrors-176"><a href="#write_ADerrors-176"><span class="linenos">176</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="s1">&#39;e_names&#39;</span><span class="p">):</span>
+</span><span id="write_ADerrors-177"><a href="#write_ADerrors-177"><span class="linenos">177</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first for all obs.&#39;</span><span class="p">)</span>
+</span><span id="write_ADerrors-178"><a href="#write_ADerrors-178"><span class="linenos">178</span></a>
+</span><span id="write_ADerrors-179"><a href="#write_ADerrors-179"><span class="linenos">179</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
+</span><span id="write_ADerrors-180"><a href="#write_ADerrors-180"><span class="linenos">180</span></a>
+</span><span id="write_ADerrors-181"><a href="#write_ADerrors-181"><span class="linenos">181</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
+</span><span id="write_ADerrors-182"><a href="#write_ADerrors-182"><span class="linenos">182</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
+</span><span id="write_ADerrors-183"><a href="#write_ADerrors-183"><span class="linenos">183</span></a>
+</span><span id="write_ADerrors-184"><a href="#write_ADerrors-184"><span class="linenos">184</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
+</span><span id="write_ADerrors-185"><a href="#write_ADerrors-185"><span class="linenos">185</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="write_ADerrors-186"><a href="#write_ADerrors-186"><span class="linenos">186</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="write_ADerrors-187"><a href="#write_ADerrors-187"><span class="linenos">187</span></a>
+</span><span id="write_ADerrors-188"><a href="#write_ADerrors-188"><span class="linenos">188</span></a>    <span class="n">bdio_start_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_start_record</span>
+</span><span id="write_ADerrors-189"><a href="#write_ADerrors-189"><span class="linenos">189</span></a>    <span class="n">bdio_start_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="write_ADerrors-190"><a href="#write_ADerrors-190"><span class="linenos">190</span></a>    <span class="n">bdio_start_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="write_ADerrors-191"><a href="#write_ADerrors-191"><span class="linenos">191</span></a>
+</span><span id="write_ADerrors-192"><a href="#write_ADerrors-192"><span class="linenos">192</span></a>    <span class="n">bdio_flush_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_flush_record</span>
+</span><span id="write_ADerrors-193"><a href="#write_ADerrors-193"><span class="linenos">193</span></a>    <span class="n">bdio_flush_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="write_ADerrors-194"><a href="#write_ADerrors-194"><span class="linenos">194</span></a>    <span class="n">bdio_flush_record</span><span class="o">.</span><span class="n">argytpes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="write_ADerrors-195"><a href="#write_ADerrors-195"><span class="linenos">195</span></a>
+</span><span id="write_ADerrors-196"><a href="#write_ADerrors-196"><span class="linenos">196</span></a>    <span class="n">bdio_write_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_write_f64</span>
+</span><span id="write_ADerrors-197"><a href="#write_ADerrors-197"><span class="linenos">197</span></a>    <span class="n">bdio_write_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="write_ADerrors-198"><a href="#write_ADerrors-198"><span class="linenos">198</span></a>    <span class="n">bdio_write_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="write_ADerrors-199"><a href="#write_ADerrors-199"><span class="linenos">199</span></a>
+</span><span id="write_ADerrors-200"><a href="#write_ADerrors-200"><span class="linenos">200</span></a>    <span class="n">bdio_write_int32</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_write_int32</span>
+</span><span id="write_ADerrors-201"><a href="#write_ADerrors-201"><span class="linenos">201</span></a>    <span class="n">bdio_write_int32</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="write_ADerrors-202"><a href="#write_ADerrors-202"><span class="linenos">202</span></a>    <span class="n">bdio_write_int32</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="write_ADerrors-203"><a href="#write_ADerrors-203"><span class="linenos">203</span></a>
+</span><span id="write_ADerrors-204"><a href="#write_ADerrors-204"><span class="linenos">204</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="write_ADerrors-205"><a href="#write_ADerrors-205"><span class="linenos">205</span></a>    <span class="n">write</span> <span class="o">=</span> <span class="s1">&#39;w&#39;</span>
+</span><span id="write_ADerrors-206"><a href="#write_ADerrors-206"><span class="linenos">206</span></a>    <span class="n">b_write</span> <span class="o">=</span> <span class="n">write</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="write_ADerrors-207"><a href="#write_ADerrors-207"><span class="linenos">207</span></a>    <span class="n">form</span> <span class="o">=</span> <span class="s1">&#39;pyerrors ADerror export&#39;</span>
+</span><span id="write_ADerrors-208"><a href="#write_ADerrors-208"><span class="linenos">208</span></a>    <span class="n">b_form</span> <span class="o">=</span> <span class="n">form</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="write_ADerrors-209"><a href="#write_ADerrors-209"><span class="linenos">209</span></a>
+</span><span id="write_ADerrors-210"><a href="#write_ADerrors-210"><span class="linenos">210</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_write</span><span class="p">),</span> <span class="n">b_form</span><span class="p">)</span>
+</span><span id="write_ADerrors-211"><a href="#write_ADerrors-211"><span class="linenos">211</span></a>
+</span><span id="write_ADerrors-212"><a href="#write_ADerrors-212"><span class="linenos">212</span></a>    <span class="k">for</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">obs_list</span><span class="p">:</span>
+</span><span id="write_ADerrors-213"><a href="#write_ADerrors-213"><span class="linenos">213</span></a>        <span class="c1"># mean = obs.value</span>
+</span><span id="write_ADerrors-214"><a href="#write_ADerrors-214"><span class="linenos">214</span></a>        <span class="n">neid</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span>
+</span><span id="write_ADerrors-215"><a href="#write_ADerrors-215"><span class="linenos">215</span></a>        <span class="n">vrep</span> <span class="o">=</span> <span class="p">[[</span><span class="n">obs</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">o</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">sl</span><span class="p">]</span> <span class="k">for</span> <span class="n">sl</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">values</span><span class="p">())]</span>
+</span><span id="write_ADerrors-216"><a href="#write_ADerrors-216"><span class="linenos">216</span></a>        <span class="n">vrep_write</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="n">vrep</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]</span>
+</span><span id="write_ADerrors-217"><a href="#write_ADerrors-217"><span class="linenos">217</span></a>        <span class="n">ndata</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">vrep</span><span class="p">]</span>
+</span><span id="write_ADerrors-218"><a href="#write_ADerrors-218"><span class="linenos">218</span></a>        <span class="n">nrep</span> <span class="o">=</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">vrep</span><span class="p">]</span>
+</span><span id="write_ADerrors-219"><a href="#write_ADerrors-219"><span class="linenos">219</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ndata&#39;</span><span class="p">,</span> <span class="n">ndata</span><span class="p">)</span>
+</span><span id="write_ADerrors-220"><a href="#write_ADerrors-220"><span class="linenos">220</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nrep&#39;</span><span class="p">,</span> <span class="n">nrep</span><span class="p">)</span>
+</span><span id="write_ADerrors-221"><a href="#write_ADerrors-221"><span class="linenos">221</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;vrep&#39;</span><span class="p">,</span> <span class="n">vrep</span><span class="p">)</span>
+</span><span id="write_ADerrors-222"><a href="#write_ADerrors-222"><span class="linenos">222</span></a>        <span class="n">keys</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
+</span><span id="write_ADerrors-223"><a href="#write_ADerrors-223"><span class="linenos">223</span></a>        <span class="n">ids</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="write_ADerrors-224"><a href="#write_ADerrors-224"><span class="linenos">224</span></a>        <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="n">keys</span><span class="p">:</span>
+</span><span id="write_ADerrors-225"><a href="#write_ADerrors-225"><span class="linenos">225</span></a>            <span class="k">try</span><span class="p">:</span>  <span class="c1"># Try to convert key to integer</span>
+</span><span id="write_ADerrors-226"><a href="#write_ADerrors-226"><span class="linenos">226</span></a>                <span class="n">ids</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">key</span><span class="p">))</span>
+</span><span id="write_ADerrors-227"><a href="#write_ADerrors-227"><span class="linenos">227</span></a>            <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>  <span class="c1"># If not possible construct a hash</span>
+</span><span id="write_ADerrors-228"><a href="#write_ADerrors-228"><span class="linenos">228</span></a>                <span class="n">ids</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">hashlib</span><span class="o">.</span><span class="n">sha256</span><span class="p">(</span><span class="n">key</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span><span class="o">.</span><span class="n">hexdigest</span><span class="p">(),</span> <span class="mi">16</span><span class="p">)</span> <span class="o">%</span> <span class="mi">10</span> <span class="o">**</span> <span class="mi">8</span><span class="p">)</span>
+</span><span id="write_ADerrors-229"><a href="#write_ADerrors-229"><span class="linenos">229</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;ids&#39;</span><span class="p">,</span> <span class="n">ids</span><span class="p">)</span>
+</span><span id="write_ADerrors-230"><a href="#write_ADerrors-230"><span class="linenos">230</span></a>        <span class="n">nt</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="write_ADerrors-231"><a href="#write_ADerrors-231"><span class="linenos">231</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
+</span><span id="write_ADerrors-232"><a href="#write_ADerrors-232"><span class="linenos">232</span></a>
+</span><span id="write_ADerrors-233"><a href="#write_ADerrors-233"><span class="linenos">233</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="write_ADerrors-234"><a href="#write_ADerrors-234"><span class="linenos">234</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="write_ADerrors-235"><a href="#write_ADerrors-235"><span class="linenos">235</span></a>                <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
+</span><span id="write_ADerrors-236"><a href="#write_ADerrors-236"><span class="linenos">236</span></a>
+</span><span id="write_ADerrors-237"><a href="#write_ADerrors-237"><span class="linenos">237</span></a>            <span class="c1"># e_N = np.sum(r_length)</span>
+</span><span id="write_ADerrors-238"><a href="#write_ADerrors-238"><span class="linenos">238</span></a>            <span class="n">nt</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">max</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span> <span class="o">//</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="write_ADerrors-239"><a href="#write_ADerrors-239"><span class="linenos">239</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nt&#39;</span><span class="p">,</span> <span class="n">nt</span><span class="p">)</span>
+</span><span id="write_ADerrors-240"><a href="#write_ADerrors-240"><span class="linenos">240</span></a>        <span class="n">zero</span> <span class="o">=</span> <span class="n">neid</span> <span class="o">*</span> <span class="p">[</span><span class="mf">0.0</span><span class="p">]</span>
+</span><span id="write_ADerrors-241"><a href="#write_ADerrors-241"><span class="linenos">241</span></a>        <span class="n">four</span> <span class="o">=</span> <span class="n">neid</span> <span class="o">*</span> <span class="p">[</span><span class="mf">4.0</span><span class="p">]</span>
+</span><span id="write_ADerrors-242"><a href="#write_ADerrors-242"><span class="linenos">242</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;zero&#39;</span><span class="p">,</span> <span class="n">zero</span><span class="p">)</span>
+</span><span id="write_ADerrors-243"><a href="#write_ADerrors-243"><span class="linenos">243</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;four&#39;</span><span class="p">,</span> <span class="n">four</span><span class="p">)</span>
+</span><span id="write_ADerrors-244"><a href="#write_ADerrors-244"><span class="linenos">244</span></a>        <span class="n">delta</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">([</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[[</span><span class="n">obs</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">o</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">sl</span><span class="p">]</span> <span class="k">for</span> <span class="n">sl</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">values</span><span class="p">())]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">])</span>
+</span><span id="write_ADerrors-245"><a href="#write_ADerrors-245"><span class="linenos">245</span></a>
+</span><span id="write_ADerrors-246"><a href="#write_ADerrors-246"><span class="linenos">246</span></a>        <span class="n">bdio_start_record</span><span class="p">(</span><span class="mh">0x00</span><span class="p">,</span> <span class="mi">8</span><span class="p">,</span> <span class="n">fbdio</span><span class="p">)</span>
+</span><span id="write_ADerrors-247"><a href="#write_ADerrors-247"><span class="linenos">247</span></a>
+</span><span id="write_ADerrors-248"><a href="#write_ADerrors-248"><span class="linenos">248</span></a>        <span class="k">def</span> <span class="nf">write_c_double</span><span class="p">(</span><span class="n">double</span><span class="p">):</span>
+</span><span id="write_ADerrors-249"><a href="#write_ADerrors-249"><span class="linenos">249</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span><span class="p">(</span><span class="n">double</span><span class="p">)</span>
+</span><span id="write_ADerrors-250"><a href="#write_ADerrors-250"><span class="linenos">250</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="write_ADerrors-251"><a href="#write_ADerrors-251"><span class="linenos">251</span></a>            <span class="n">bdio_write_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">8</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="write_ADerrors-252"><a href="#write_ADerrors-252"><span class="linenos">252</span></a>
+</span><span id="write_ADerrors-253"><a href="#write_ADerrors-253"><span class="linenos">253</span></a>        <span class="k">def</span> <span class="nf">write_c_size_t</span><span class="p">(</span><span class="n">int32</span><span class="p">):</span>
+</span><span id="write_ADerrors-254"><a href="#write_ADerrors-254"><span class="linenos">254</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">int32</span><span class="p">)</span>
+</span><span id="write_ADerrors-255"><a href="#write_ADerrors-255"><span class="linenos">255</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="write_ADerrors-256"><a href="#write_ADerrors-256"><span class="linenos">256</span></a>            <span class="n">bdio_write_int32</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="mi">4</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="write_ADerrors-257"><a href="#write_ADerrors-257"><span class="linenos">257</span></a>
+</span><span id="write_ADerrors-258"><a href="#write_ADerrors-258"><span class="linenos">258</span></a>        <span class="n">write_c_double</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
+</span><span id="write_ADerrors-259"><a href="#write_ADerrors-259"><span class="linenos">259</span></a>        <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">neid</span><span class="p">)</span>
+</span><span id="write_ADerrors-260"><a href="#write_ADerrors-260"><span class="linenos">260</span></a>
+</span><span id="write_ADerrors-261"><a href="#write_ADerrors-261"><span class="linenos">261</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">ndata</span><span class="p">:</span>
+</span><span id="write_ADerrors-262"><a href="#write_ADerrors-262"><span class="linenos">262</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="write_ADerrors-263"><a href="#write_ADerrors-263"><span class="linenos">263</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">nrep</span><span class="p">:</span>
+</span><span id="write_ADerrors-264"><a href="#write_ADerrors-264"><span class="linenos">264</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="write_ADerrors-265"><a href="#write_ADerrors-265"><span class="linenos">265</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">vrep_write</span><span class="p">:</span>
+</span><span id="write_ADerrors-266"><a href="#write_ADerrors-266"><span class="linenos">266</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="write_ADerrors-267"><a href="#write_ADerrors-267"><span class="linenos">267</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">ids</span><span class="p">:</span>
+</span><span id="write_ADerrors-268"><a href="#write_ADerrors-268"><span class="linenos">268</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="write_ADerrors-269"><a href="#write_ADerrors-269"><span class="linenos">269</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">nt</span><span class="p">:</span>
+</span><span id="write_ADerrors-270"><a href="#write_ADerrors-270"><span class="linenos">270</span></a>            <span class="n">write_c_size_t</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="write_ADerrors-271"><a href="#write_ADerrors-271"><span class="linenos">271</span></a>
+</span><span id="write_ADerrors-272"><a href="#write_ADerrors-272"><span class="linenos">272</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">zero</span><span class="p">:</span>
+</span><span id="write_ADerrors-273"><a href="#write_ADerrors-273"><span class="linenos">273</span></a>            <span class="n">write_c_double</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="write_ADerrors-274"><a href="#write_ADerrors-274"><span class="linenos">274</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">four</span><span class="p">:</span>
+</span><span id="write_ADerrors-275"><a href="#write_ADerrors-275"><span class="linenos">275</span></a>            <span class="n">write_c_double</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="write_ADerrors-276"><a href="#write_ADerrors-276"><span class="linenos">276</span></a>
+</span><span id="write_ADerrors-277"><a href="#write_ADerrors-277"><span class="linenos">277</span></a>        <span class="k">for</span> <span class="n">element</span> <span class="ow">in</span> <span class="n">delta</span><span class="p">:</span>
+</span><span id="write_ADerrors-278"><a href="#write_ADerrors-278"><span class="linenos">278</span></a>            <span class="n">write_c_double</span><span class="p">(</span><span class="n">element</span><span class="p">)</span>
+</span><span id="write_ADerrors-279"><a href="#write_ADerrors-279"><span class="linenos">279</span></a>
+</span><span id="write_ADerrors-280"><a href="#write_ADerrors-280"><span class="linenos">280</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="write_ADerrors-281"><a href="#write_ADerrors-281"><span class="linenos">281</span></a>    <span class="k">return</span> <span class="mi">0</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Write Obs to a bdio file according to ADerrors conventions</p>
 
@@ -1101,226 +1102,226 @@ adding the flag -fPIC to CC and changing the all target to</p>
 
                 </section>
                 <section id="read_mesons">
-                            <div class="attr function"><a class="headerlink" href="#read_mesons">#&nbsp;&nbsp</a>
+                            <input id="read_mesons-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_mesons</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">file_path</span>, </span><span class="param"><span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="read_mesons-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_mesons</span><span class="signature">(file_path, bdio_path=&#39;./libbdio.so&#39;, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_mesons-291"><a href="#read_mesons-291"><span class="linenos">291</span></a><span class="k">def</span> <span class="nf">read_mesons</span><span class="p">(</span><span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="read_mesons-292"><a href="#read_mesons-292"><span class="linenos">292</span></a>    <span class="sd">&quot;&quot;&quot; Extract mesons data from a bdio file and return it as a dictionary</span>
-</span><span id="read_mesons-293"><a href="#read_mesons-293"><span class="linenos">293</span></a>
-</span><span id="read_mesons-294"><a href="#read_mesons-294"><span class="linenos">294</span></a><span class="sd">    The dictionary can be accessed with a tuple consisting of (type, source_position, kappa1, kappa2)</span>
-</span><span id="read_mesons-295"><a href="#read_mesons-295"><span class="linenos">295</span></a>
-</span><span id="read_mesons-296"><a href="#read_mesons-296"><span class="linenos">296</span></a><span class="sd">    read_mesons requires bdio to be compiled into a shared library. This can be achieved by</span>
-</span><span id="read_mesons-297"><a href="#read_mesons-297"><span class="linenos">297</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
-</span><span id="read_mesons-298"><a href="#read_mesons-298"><span class="linenos">298</span></a>
-</span><span id="read_mesons-299"><a href="#read_mesons-299"><span class="linenos">299</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
-</span><span id="read_mesons-300"><a href="#read_mesons-300"><span class="linenos">300</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
-</span><span id="read_mesons-301"><a href="#read_mesons-301"><span class="linenos">301</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
-</span><span id="read_mesons-302"><a href="#read_mesons-302"><span class="linenos">302</span></a>
-</span><span id="read_mesons-303"><a href="#read_mesons-303"><span class="linenos">303</span></a><span class="sd">    Parameters</span>
-</span><span id="read_mesons-304"><a href="#read_mesons-304"><span class="linenos">304</span></a><span class="sd">    ----------</span>
-</span><span id="read_mesons-305"><a href="#read_mesons-305"><span class="linenos">305</span></a><span class="sd">    file_path : str</span>
-</span><span id="read_mesons-306"><a href="#read_mesons-306"><span class="linenos">306</span></a><span class="sd">        path to the bdio file</span>
-</span><span id="read_mesons-307"><a href="#read_mesons-307"><span class="linenos">307</span></a><span class="sd">    bdio_path : str</span>
-</span><span id="read_mesons-308"><a href="#read_mesons-308"><span class="linenos">308</span></a><span class="sd">        path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
-</span><span id="read_mesons-309"><a href="#read_mesons-309"><span class="linenos">309</span></a><span class="sd">    start : int</span>
-</span><span id="read_mesons-310"><a href="#read_mesons-310"><span class="linenos">310</span></a><span class="sd">        The first configuration to be read (default 1)</span>
-</span><span id="read_mesons-311"><a href="#read_mesons-311"><span class="linenos">311</span></a><span class="sd">    stop : int</span>
-</span><span id="read_mesons-312"><a href="#read_mesons-312"><span class="linenos">312</span></a><span class="sd">        The last configuration to be read (default None)</span>
-</span><span id="read_mesons-313"><a href="#read_mesons-313"><span class="linenos">313</span></a><span class="sd">    step : int</span>
-</span><span id="read_mesons-314"><a href="#read_mesons-314"><span class="linenos">314</span></a><span class="sd">        Fixed step size between two measurements (default 1)</span>
-</span><span id="read_mesons-315"><a href="#read_mesons-315"><span class="linenos">315</span></a><span class="sd">    alternative_ensemble_name : str</span>
-</span><span id="read_mesons-316"><a href="#read_mesons-316"><span class="linenos">316</span></a><span class="sd">        Manually overwrite ensemble name</span>
-</span><span id="read_mesons-317"><a href="#read_mesons-317"><span class="linenos">317</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_mesons-318"><a href="#read_mesons-318"><span class="linenos">318</span></a>
-</span><span id="read_mesons-319"><a href="#read_mesons-319"><span class="linenos">319</span></a>    <span class="n">start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;start&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="read_mesons-320"><a href="#read_mesons-320"><span class="linenos">320</span></a>    <span class="n">stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="read_mesons-321"><a href="#read_mesons-321"><span class="linenos">321</span></a>    <span class="n">step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;step&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="read_mesons-322"><a href="#read_mesons-322"><span class="linenos">322</span></a>
-</span><span id="read_mesons-323"><a href="#read_mesons-323"><span class="linenos">323</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
-</span><span id="read_mesons-324"><a href="#read_mesons-324"><span class="linenos">324</span></a>
-</span><span id="read_mesons-325"><a href="#read_mesons-325"><span class="linenos">325</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
-</span><span id="read_mesons-326"><a href="#read_mesons-326"><span class="linenos">326</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
-</span><span id="read_mesons-327"><a href="#read_mesons-327"><span class="linenos">327</span></a>
-</span><span id="read_mesons-328"><a href="#read_mesons-328"><span class="linenos">328</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
-</span><span id="read_mesons-329"><a href="#read_mesons-329"><span class="linenos">329</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="read_mesons-330"><a href="#read_mesons-330"><span class="linenos">330</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_mesons-331"><a href="#read_mesons-331"><span class="linenos">331</span></a>
-</span><span id="read_mesons-332"><a href="#read_mesons-332"><span class="linenos">332</span></a>    <span class="n">bdio_seek_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_seek_record</span>
-</span><span id="read_mesons-333"><a href="#read_mesons-333"><span class="linenos">333</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="read_mesons-334"><a href="#read_mesons-334"><span class="linenos">334</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_mesons-335"><a href="#read_mesons-335"><span class="linenos">335</span></a>
-</span><span id="read_mesons-336"><a href="#read_mesons-336"><span class="linenos">336</span></a>    <span class="n">bdio_get_rlen</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_rlen</span>
-</span><span id="read_mesons-337"><a href="#read_mesons-337"><span class="linenos">337</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="read_mesons-338"><a href="#read_mesons-338"><span class="linenos">338</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_mesons-339"><a href="#read_mesons-339"><span class="linenos">339</span></a>
-</span><span id="read_mesons-340"><a href="#read_mesons-340"><span class="linenos">340</span></a>    <span class="n">bdio_get_ruinfo</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_ruinfo</span>
-</span><span id="read_mesons-341"><a href="#read_mesons-341"><span class="linenos">341</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="read_mesons-342"><a href="#read_mesons-342"><span class="linenos">342</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_mesons-343"><a href="#read_mesons-343"><span class="linenos">343</span></a>
-</span><span id="read_mesons-344"><a href="#read_mesons-344"><span class="linenos">344</span></a>    <span class="n">bdio_read</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read</span>
-</span><span id="read_mesons-345"><a href="#read_mesons-345"><span class="linenos">345</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="read_mesons-346"><a href="#read_mesons-346"><span class="linenos">346</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_mesons-347"><a href="#read_mesons-347"><span class="linenos">347</span></a>
-</span><span id="read_mesons-348"><a href="#read_mesons-348"><span class="linenos">348</span></a>    <span class="n">bdio_read_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_f64</span>
-</span><span id="read_mesons-349"><a href="#read_mesons-349"><span class="linenos">349</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="read_mesons-350"><a href="#read_mesons-350"><span class="linenos">350</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_mesons-351"><a href="#read_mesons-351"><span class="linenos">351</span></a>
-</span><span id="read_mesons-352"><a href="#read_mesons-352"><span class="linenos">352</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="read_mesons-353"><a href="#read_mesons-353"><span class="linenos">353</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="s1">&#39;r&#39;</span>
-</span><span id="read_mesons-354"><a href="#read_mesons-354"><span class="linenos">354</span></a>    <span class="n">b_read</span> <span class="o">=</span> <span class="n">read</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="read_mesons-355"><a href="#read_mesons-355"><span class="linenos">355</span></a>    <span class="n">form</span> <span class="o">=</span> <span class="s1">&#39;Generic Correlator Format 1.0&#39;</span>
-</span><span id="read_mesons-356"><a href="#read_mesons-356"><span class="linenos">356</span></a>    <span class="n">b_form</span> <span class="o">=</span> <span class="n">form</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="read_mesons-357"><a href="#read_mesons-357"><span class="linenos">357</span></a>
-</span><span id="read_mesons-358"><a href="#read_mesons-358"><span class="linenos">358</span></a>    <span class="n">ensemble_name</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="read_mesons-359"><a href="#read_mesons-359"><span class="linenos">359</span></a>    <span class="n">volume</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># lattice volume</span>
-</span><span id="read_mesons-360"><a href="#read_mesons-360"><span class="linenos">360</span></a>    <span class="n">boundary_conditions</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_mesons-361"><a href="#read_mesons-361"><span class="linenos">361</span></a>    <span class="n">corr_name</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator names</span>
-</span><span id="read_mesons-362"><a href="#read_mesons-362"><span class="linenos">362</span></a>    <span class="n">corr_type</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator data type (important for reading out numerical data)</span>
-</span><span id="read_mesons-363"><a href="#read_mesons-363"><span class="linenos">363</span></a>    <span class="n">corr_props</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contanis propagator types (Component of corr_kappa)</span>
-</span><span id="read_mesons-364"><a href="#read_mesons-364"><span class="linenos">364</span></a>    <span class="n">d0</span> <span class="o">=</span> <span class="mi">0</span>  <span class="c1"># tvals</span>
-</span><span id="read_mesons-365"><a href="#read_mesons-365"><span class="linenos">365</span></a>    <span class="n">d1</span> <span class="o">=</span> <span class="mi">0</span>  <span class="c1"># nnoise</span>
-</span><span id="read_mesons-366"><a href="#read_mesons-366"><span class="linenos">366</span></a>    <span class="n">prop_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator kappas (Component of corr_kappa)</span>
-</span><span id="read_mesons-367"><a href="#read_mesons-367"><span class="linenos">367</span></a>    <span class="n">prop_source</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator source positions</span>
-</span><span id="read_mesons-368"><a href="#read_mesons-368"><span class="linenos">368</span></a>    <span class="c1"># Check noise type for multiple replica?</span>
-</span><span id="read_mesons-369"><a href="#read_mesons-369"><span class="linenos">369</span></a>    <span class="n">corr_no</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
-</span><span id="read_mesons-370"><a href="#read_mesons-370"><span class="linenos">370</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_mesons-371"><a href="#read_mesons-371"><span class="linenos">371</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_mesons-372"><a href="#read_mesons-372"><span class="linenos">372</span></a>
-</span><span id="read_mesons-373"><a href="#read_mesons-373"><span class="linenos">373</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_read</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_form</span><span class="p">))</span>
-</span><span id="read_mesons-374"><a href="#read_mesons-374"><span class="linenos">374</span></a>
-</span><span id="read_mesons-375"><a href="#read_mesons-375"><span class="linenos">375</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Reading of bdio file started&#39;</span><span class="p">)</span>
-</span><span id="read_mesons-376"><a href="#read_mesons-376"><span class="linenos">376</span></a>    <span class="k">while</span> <span class="mi">1</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_mesons-377"><a href="#read_mesons-377"><span class="linenos">377</span></a>        <span class="n">bdio_seek_record</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="read_mesons-378"><a href="#read_mesons-378"><span class="linenos">378</span></a>        <span class="n">ruinfo</span> <span class="o">=</span> <span class="n">bdio_get_ruinfo</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="read_mesons-379"><a href="#read_mesons-379"><span class="linenos">379</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_mesons-380"><a href="#read_mesons-380"><span class="linenos">380</span></a>            <span class="c1"># EOF reached</span>
-</span><span id="read_mesons-381"><a href="#read_mesons-381"><span class="linenos">381</span></a>            <span class="k">break</span>
-</span><span id="read_mesons-382"><a href="#read_mesons-382"><span class="linenos">382</span></a>        <span class="n">rlen</span> <span class="o">=</span> <span class="n">bdio_get_rlen</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="read_mesons-383"><a href="#read_mesons-383"><span class="linenos">383</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">5</span><span class="p">:</span>
-</span><span id="read_mesons-384"><a href="#read_mesons-384"><span class="linenos">384</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">+</span> <span class="n">d0</span> <span class="o">*</span> <span class="n">d1</span> <span class="o">*</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="read_mesons-385"><a href="#read_mesons-385"><span class="linenos">385</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
-</span><span id="read_mesons-386"><a href="#read_mesons-386"><span class="linenos">386</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="read_mesons-387"><a href="#read_mesons-387"><span class="linenos">387</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="read_mesons-388"><a href="#read_mesons-388"><span class="linenos">388</span></a>            <span class="k">if</span> <span class="n">corr_type</span><span class="p">[</span><span class="n">corr_no</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;complex&#39;</span><span class="p">:</span>
-</span><span id="read_mesons-389"><a href="#read_mesons-389"><span class="linenos">389</span></a>                <span class="n">tmp_mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">[</span><span class="mi">2</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">d1</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span> <span class="o">*</span> <span class="n">d1</span><span class="p">:</span><span class="mi">2</span><span class="p">]),</span> <span class="n">d0</span> <span class="o">-</span> <span class="mi">2</span><span class="p">)),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="read_mesons-390"><a href="#read_mesons-390"><span class="linenos">390</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_mesons-391"><a href="#read_mesons-391"><span class="linenos">391</span></a>                <span class="n">tmp_mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">[</span><span class="mi">2</span> <span class="o">+</span> <span class="n">d1</span><span class="p">:</span><span class="o">-</span><span class="n">d0</span> <span class="o">*</span> <span class="n">d1</span> <span class="o">-</span> <span class="n">d1</span><span class="p">]),</span> <span class="n">d0</span> <span class="o">-</span> <span class="mi">2</span><span class="p">)),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="read_mesons-392"><a href="#read_mesons-392"><span class="linenos">392</span></a>
-</span><span id="read_mesons-393"><a href="#read_mesons-393"><span class="linenos">393</span></a>            <span class="n">data</span><span class="p">[</span><span class="n">corr_no</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_mean</span><span class="p">)</span>
-</span><span id="read_mesons-394"><a href="#read_mesons-394"><span class="linenos">394</span></a>            <span class="n">corr_no</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="read_mesons-395"><a href="#read_mesons-395"><span class="linenos">395</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_mesons-396"><a href="#read_mesons-396"><span class="linenos">396</span></a>            <span class="n">alt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">create_string_buffer</span><span class="p">(</span><span class="mi">1024</span><span class="p">)</span>
-</span><span id="read_mesons-397"><a href="#read_mesons-397"><span class="linenos">397</span></a>            <span class="n">palt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">))</span>
-</span><span id="read_mesons-398"><a href="#read_mesons-398"><span class="linenos">398</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read</span><span class="p">(</span><span class="n">palt_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="read_mesons-399"><a href="#read_mesons-399"><span class="linenos">399</span></a>            <span class="k">if</span> <span class="n">rlen</span> <span class="o">!=</span> <span class="n">iread</span><span class="p">:</span>
-</span><span id="read_mesons-400"><a href="#read_mesons-400"><span class="linenos">400</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error&#39;</span><span class="p">)</span>
-</span><span id="read_mesons-401"><a href="#read_mesons-401"><span class="linenos">401</span></a>            <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">):</span>
-</span><span id="read_mesons-402"><a href="#read_mesons-402"><span class="linenos">402</span></a>                <span class="k">if</span> <span class="n">item</span> <span class="o">==</span> <span class="sa">b</span><span class="s1">&#39;</span><span class="se">\x00</span><span class="s1">&#39;</span><span class="p">:</span>
-</span><span id="read_mesons-403"><a href="#read_mesons-403"><span class="linenos">403</span></a>                    <span class="n">alt_buf</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="sa">b</span><span class="s1">&#39; &#39;</span>
-</span><span id="read_mesons-404"><a href="#read_mesons-404"><span class="linenos">404</span></a>            <span class="n">tmp_string</span> <span class="o">=</span> <span class="p">(</span><span class="n">alt_buf</span><span class="p">[:]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s2">&quot;utf-8&quot;</span><span class="p">))</span><span class="o">.</span><span class="n">rstrip</span><span class="p">()</span>
-</span><span id="read_mesons-405"><a href="#read_mesons-405"><span class="linenos">405</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_mesons-406"><a href="#read_mesons-406"><span class="linenos">406</span></a>                <span class="n">ensemble_name</span> <span class="o">=</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;ENSEMBLE=&#39;</span><span class="p">)</span>
-</span><span id="read_mesons-407"><a href="#read_mesons-407"><span class="linenos">407</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L0=&#39;</span><span class="p">)))</span>
-</span><span id="read_mesons-408"><a href="#read_mesons-408"><span class="linenos">408</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L1=&#39;</span><span class="p">)))</span>
-</span><span id="read_mesons-409"><a href="#read_mesons-409"><span class="linenos">409</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L2=&#39;</span><span class="p">)))</span>
-</span><span id="read_mesons-410"><a href="#read_mesons-410"><span class="linenos">410</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L3=&#39;</span><span class="p">)))</span>
-</span><span id="read_mesons-411"><a href="#read_mesons-411"><span class="linenos">411</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC0=&#39;</span><span class="p">))</span>
-</span><span id="read_mesons-412"><a href="#read_mesons-412"><span class="linenos">412</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC1=&#39;</span><span class="p">))</span>
-</span><span id="read_mesons-413"><a href="#read_mesons-413"><span class="linenos">413</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC2=&#39;</span><span class="p">))</span>
-</span><span id="read_mesons-414"><a href="#read_mesons-414"><span class="linenos">414</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC3=&#39;</span><span class="p">))</span>
-</span><span id="read_mesons-415"><a href="#read_mesons-415"><span class="linenos">415</span></a>
-</span><span id="read_mesons-416"><a href="#read_mesons-416"><span class="linenos">416</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_mesons-417"><a href="#read_mesons-417"><span class="linenos">417</span></a>                <span class="n">corr_name</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_corr_name</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CORR_NAME=&#39;</span><span class="p">))</span>
-</span><span id="read_mesons-418"><a href="#read_mesons-418"><span class="linenos">418</span></a>                <span class="n">corr_type</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;DATATYPE=&#39;</span><span class="p">))</span>
-</span><span id="read_mesons-419"><a href="#read_mesons-419"><span class="linenos">419</span></a>                <span class="n">corr_props</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;PROP0=&#39;</span><span class="p">),</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;PROP1=&#39;</span><span class="p">)])</span>
-</span><span id="read_mesons-420"><a href="#read_mesons-420"><span class="linenos">420</span></a>                <span class="k">if</span> <span class="n">d0</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_mesons-421"><a href="#read_mesons-421"><span class="linenos">421</span></a>                    <span class="n">d0</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">))</span>
-</span><span id="read_mesons-422"><a href="#read_mesons-422"><span class="linenos">422</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="read_mesons-423"><a href="#read_mesons-423"><span class="linenos">423</span></a>                    <span class="k">if</span> <span class="n">d0</span> <span class="o">!=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">)):</span>
-</span><span id="read_mesons-424"><a href="#read_mesons-424"><span class="linenos">424</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error: Varying number of time values&#39;</span><span class="p">)</span>
-</span><span id="read_mesons-425"><a href="#read_mesons-425"><span class="linenos">425</span></a>                <span class="k">if</span> <span class="n">d1</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_mesons-426"><a href="#read_mesons-426"><span class="linenos">426</span></a>                    <span class="n">d1</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D1=&#39;</span><span class="p">))</span>
-</span><span id="read_mesons-427"><a href="#read_mesons-427"><span class="linenos">427</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="read_mesons-428"><a href="#read_mesons-428"><span class="linenos">428</span></a>                    <span class="k">if</span> <span class="n">d1</span> <span class="o">!=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D1=&#39;</span><span class="p">)):</span>
-</span><span id="read_mesons-429"><a href="#read_mesons-429"><span class="linenos">429</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error: Varying number of random sources&#39;</span><span class="p">)</span>
-</span><span id="read_mesons-430"><a href="#read_mesons-430"><span class="linenos">430</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="read_mesons-431"><a href="#read_mesons-431"><span class="linenos">431</span></a>                <span class="n">prop_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;KAPPA=&#39;</span><span class="p">))</span>
-</span><span id="read_mesons-432"><a href="#read_mesons-432"><span class="linenos">432</span></a>                <span class="n">prop_source</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;x0=&#39;</span><span class="p">))</span>
-</span><span id="read_mesons-433"><a href="#read_mesons-433"><span class="linenos">433</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">4</span><span class="p">:</span>
-</span><span id="read_mesons-434"><a href="#read_mesons-434"><span class="linenos">434</span></a>                <span class="n">cnfg_no</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CNFG_ID=&#39;</span><span class="p">))</span>
-</span><span id="read_mesons-435"><a href="#read_mesons-435"><span class="linenos">435</span></a>                <span class="k">if</span> <span class="n">stop</span><span class="p">:</span>
-</span><span id="read_mesons-436"><a href="#read_mesons-436"><span class="linenos">436</span></a>                    <span class="k">if</span> <span class="n">cnfg_no</span> <span class="o">&gt;</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">):</span>
-</span><span id="read_mesons-437"><a href="#read_mesons-437"><span class="linenos">437</span></a>                        <span class="k">break</span>
-</span><span id="read_mesons-438"><a href="#read_mesons-438"><span class="linenos">438</span></a>                <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg_no</span><span class="p">)</span>
-</span><span id="read_mesons-439"><a href="#read_mesons-439"><span class="linenos">439</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\r</span><span class="si">%s</span><span class="s1"> </span><span class="si">%i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;Reading configuration&#39;</span><span class="p">,</span> <span class="n">cnfg_no</span><span class="p">),</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;</span><span class="se">\r</span><span class="s1">&#39;</span><span class="p">)</span>
-</span><span id="read_mesons-440"><a href="#read_mesons-440"><span class="linenos">440</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_mesons-441"><a href="#read_mesons-441"><span class="linenos">441</span></a>                    <span class="n">no_corrs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">)</span>
-</span><span id="read_mesons-442"><a href="#read_mesons-442"><span class="linenos">442</span></a>                    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_mesons-443"><a href="#read_mesons-443"><span class="linenos">443</span></a>                    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
-</span><span id="read_mesons-444"><a href="#read_mesons-444"><span class="linenos">444</span></a>                        <span class="n">data</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="read_mesons-445"><a href="#read_mesons-445"><span class="linenos">445</span></a>
-</span><span id="read_mesons-446"><a href="#read_mesons-446"><span class="linenos">446</span></a>                <span class="n">corr_no</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="read_mesons-447"><a href="#read_mesons-447"><span class="linenos">447</span></a>
-</span><span id="read_mesons-448"><a href="#read_mesons-448"><span class="linenos">448</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="read_mesons-449"><a href="#read_mesons-449"><span class="linenos">449</span></a>
-</span><span id="read_mesons-450"><a href="#read_mesons-450"><span class="linenos">450</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">Ensemble: &#39;</span><span class="p">,</span> <span class="n">ensemble_name</span><span class="p">)</span>
-</span><span id="read_mesons-451"><a href="#read_mesons-451"><span class="linenos">451</span></a>    <span class="k">if</span> <span class="s1">&#39;alternative_ensemble_name&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_mesons-452"><a href="#read_mesons-452"><span class="linenos">452</span></a>        <span class="n">ensemble_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;alternative_ensemble_name&#39;</span><span class="p">)</span>
-</span><span id="read_mesons-453"><a href="#read_mesons-453"><span class="linenos">453</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Ensemble name overwritten to&#39;</span><span class="p">,</span> <span class="n">ensemble_name</span><span class="p">)</span>
-</span><span id="read_mesons-454"><a href="#read_mesons-454"><span class="linenos">454</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Lattice volume: &#39;</span><span class="p">,</span> <span class="n">volume</span><span class="p">)</span>
-</span><span id="read_mesons-455"><a href="#read_mesons-455"><span class="linenos">455</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Boundary conditions: &#39;</span><span class="p">,</span> <span class="n">boundary_conditions</span><span class="p">)</span>
-</span><span id="read_mesons-456"><a href="#read_mesons-456"><span class="linenos">456</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of time values: &#39;</span><span class="p">,</span> <span class="n">d0</span><span class="p">)</span>
-</span><span id="read_mesons-457"><a href="#read_mesons-457"><span class="linenos">457</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of random sources: &#39;</span><span class="p">,</span> <span class="n">d1</span><span class="p">)</span>
-</span><span id="read_mesons-458"><a href="#read_mesons-458"><span class="linenos">458</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of corrs: &#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">))</span>
-</span><span id="read_mesons-459"><a href="#read_mesons-459"><span class="linenos">459</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of configurations: &#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">))</span>
-</span><span id="read_mesons-460"><a href="#read_mesons-460"><span class="linenos">460</span></a>
-</span><span id="read_mesons-461"><a href="#read_mesons-461"><span class="linenos">461</span></a>    <span class="n">corr_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains kappa values for both propagators of given correlation function</span>
-</span><span id="read_mesons-462"><a href="#read_mesons-462"><span class="linenos">462</span></a>    <span class="n">corr_source</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_mesons-463"><a href="#read_mesons-463"><span class="linenos">463</span></a>    <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">corr_props</span><span class="p">:</span>
-</span><span id="read_mesons-464"><a href="#read_mesons-464"><span class="linenos">464</span></a>        <span class="n">corr_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="nb">float</span><span class="p">(</span><span class="n">prop_kappa</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">])]),</span> <span class="nb">float</span><span class="p">(</span><span class="n">prop_kappa</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">1</span><span class="p">])])])</span>
-</span><span id="read_mesons-465"><a href="#read_mesons-465"><span class="linenos">465</span></a>        <span class="k">if</span> <span class="n">prop_source</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">])]</span> <span class="o">!=</span> <span class="n">prop_source</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">1</span><span class="p">])]:</span>
-</span><span id="read_mesons-466"><a href="#read_mesons-466"><span class="linenos">466</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Source position do not match for correlator&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">item</span><span class="p">))</span>
-</span><span id="read_mesons-467"><a href="#read_mesons-467"><span class="linenos">467</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_mesons-468"><a href="#read_mesons-468"><span class="linenos">468</span></a>            <span class="n">corr_source</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">prop_source</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">])]))</span>
-</span><span id="read_mesons-469"><a href="#read_mesons-469"><span class="linenos">469</span></a>
-</span><span id="read_mesons-470"><a href="#read_mesons-470"><span class="linenos">470</span></a>    <span class="k">if</span> <span class="n">stop</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_mesons-471"><a href="#read_mesons-471"><span class="linenos">471</span></a>        <span class="n">stop</span> <span class="o">=</span> <span class="n">idl</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="read_mesons-472"><a href="#read_mesons-472"><span class="linenos">472</span></a>    <span class="n">idl_target</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">start</span><span class="p">,</span> <span class="n">stop</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">step</span><span class="p">)</span>
-</span><span id="read_mesons-473"><a href="#read_mesons-473"><span class="linenos">473</span></a>
-</span><span id="read_mesons-474"><a href="#read_mesons-474"><span class="linenos">474</span></a>    <span class="k">if</span> <span class="nb">set</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">set</span><span class="p">(</span><span class="n">idl_target</span><span class="p">):</span>
-</span><span id="read_mesons-475"><a href="#read_mesons-475"><span class="linenos">475</span></a>        <span class="k">try</span><span class="p">:</span>
-</span><span id="read_mesons-476"><a href="#read_mesons-476"><span class="linenos">476</span></a>            <span class="n">indices</span> <span class="o">=</span> <span class="p">[</span><span class="n">idl</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">idl_target</span><span class="p">]</span>
-</span><span id="read_mesons-477"><a href="#read_mesons-477"><span class="linenos">477</span></a>        <span class="k">except</span> <span class="ne">ValueError</span> <span class="k">as</span> <span class="n">err</span><span class="p">:</span>
-</span><span id="read_mesons-478"><a href="#read_mesons-478"><span class="linenos">478</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Configurations in file do no match target list!&#39;</span><span class="p">,</span> <span class="n">err</span><span class="p">)</span>
-</span><span id="read_mesons-479"><a href="#read_mesons-479"><span class="linenos">479</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_mesons-480"><a href="#read_mesons-480"><span class="linenos">480</span></a>        <span class="n">indices</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="read_mesons-481"><a href="#read_mesons-481"><span class="linenos">481</span></a>
-</span><span id="read_mesons-482"><a href="#read_mesons-482"><span class="linenos">482</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="read_mesons-483"><a href="#read_mesons-483"><span class="linenos">483</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
-</span><span id="read_mesons-484"><a href="#read_mesons-484"><span class="linenos">484</span></a>        <span class="n">tmp_corr</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_mesons-485"><a href="#read_mesons-485"><span class="linenos">485</span></a>        <span class="n">tmp_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="n">c</span><span class="p">])</span>
-</span><span id="read_mesons-486"><a href="#read_mesons-486"><span class="linenos">486</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">d0</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="read_mesons-487"><a href="#read_mesons-487"><span class="linenos">487</span></a>            <span class="k">if</span> <span class="n">indices</span><span class="p">:</span>
-</span><span id="read_mesons-488"><a href="#read_mesons-488"><span class="linenos">488</span></a>                <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">tmp_data</span><span class="p">[:,</span> <span class="n">t</span><span class="p">][</span><span class="n">index</span><span class="p">]</span> <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">indices</span><span class="p">]</span>
-</span><span id="read_mesons-489"><a href="#read_mesons-489"><span class="linenos">489</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_mesons-490"><a href="#read_mesons-490"><span class="linenos">490</span></a>                <span class="n">deltas</span> <span class="o">=</span> <span class="n">tmp_data</span><span class="p">[:,</span> <span class="n">t</span><span class="p">]</span>
-</span><span id="read_mesons-491"><a href="#read_mesons-491"><span class="linenos">491</span></a>            <span class="n">tmp_corr</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="n">deltas</span><span class="p">],</span> <span class="p">[</span><span class="n">ensemble_name</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idl_target</span><span class="p">]))</span>
-</span><span id="read_mesons-492"><a href="#read_mesons-492"><span class="linenos">492</span></a>        <span class="n">result</span><span class="p">[(</span><span class="n">corr_name</span><span class="p">[</span><span class="n">c</span><span class="p">],</span> <span class="n">corr_source</span><span class="p">[</span><span class="n">c</span><span class="p">])</span> <span class="o">+</span> <span class="nb">tuple</span><span class="p">(</span><span class="n">corr_kappa</span><span class="p">[</span><span class="n">c</span><span class="p">])]</span> <span class="o">=</span> <span class="n">tmp_corr</span>
-</span><span id="read_mesons-493"><a href="#read_mesons-493"><span class="linenos">493</span></a>
-</span><span id="read_mesons-494"><a href="#read_mesons-494"><span class="linenos">494</span></a>    <span class="c1"># Check that all data entries have the same number of configurations</span>
-</span><span id="read_mesons-495"><a href="#read_mesons-495"><span class="linenos">495</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">N</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">result</span><span class="o">.</span><span class="n">values</span><span class="p">())]))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_mesons-496"><a href="#read_mesons-496"><span class="linenos">496</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not all correlators have the same number of configurations. bdio file is possibly corrupted.&#39;</span><span class="p">)</span>
-</span><span id="read_mesons-497"><a href="#read_mesons-497"><span class="linenos">497</span></a>
-</span><span id="read_mesons-498"><a href="#read_mesons-498"><span class="linenos">498</span></a>    <span class="k">return</span> <span class="n">result</span>
+    <a class="headerlink" href="#read_mesons"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_mesons-292"><a href="#read_mesons-292"><span class="linenos">292</span></a><span class="k">def</span> <span class="nf">read_mesons</span><span class="p">(</span><span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="read_mesons-293"><a href="#read_mesons-293"><span class="linenos">293</span></a>    <span class="sd">&quot;&quot;&quot; Extract mesons data from a bdio file and return it as a dictionary</span>
+</span><span id="read_mesons-294"><a href="#read_mesons-294"><span class="linenos">294</span></a>
+</span><span id="read_mesons-295"><a href="#read_mesons-295"><span class="linenos">295</span></a><span class="sd">    The dictionary can be accessed with a tuple consisting of (type, source_position, kappa1, kappa2)</span>
+</span><span id="read_mesons-296"><a href="#read_mesons-296"><span class="linenos">296</span></a>
+</span><span id="read_mesons-297"><a href="#read_mesons-297"><span class="linenos">297</span></a><span class="sd">    read_mesons requires bdio to be compiled into a shared library. This can be achieved by</span>
+</span><span id="read_mesons-298"><a href="#read_mesons-298"><span class="linenos">298</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
+</span><span id="read_mesons-299"><a href="#read_mesons-299"><span class="linenos">299</span></a>
+</span><span id="read_mesons-300"><a href="#read_mesons-300"><span class="linenos">300</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
+</span><span id="read_mesons-301"><a href="#read_mesons-301"><span class="linenos">301</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
+</span><span id="read_mesons-302"><a href="#read_mesons-302"><span class="linenos">302</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
+</span><span id="read_mesons-303"><a href="#read_mesons-303"><span class="linenos">303</span></a>
+</span><span id="read_mesons-304"><a href="#read_mesons-304"><span class="linenos">304</span></a><span class="sd">    Parameters</span>
+</span><span id="read_mesons-305"><a href="#read_mesons-305"><span class="linenos">305</span></a><span class="sd">    ----------</span>
+</span><span id="read_mesons-306"><a href="#read_mesons-306"><span class="linenos">306</span></a><span class="sd">    file_path : str</span>
+</span><span id="read_mesons-307"><a href="#read_mesons-307"><span class="linenos">307</span></a><span class="sd">        path to the bdio file</span>
+</span><span id="read_mesons-308"><a href="#read_mesons-308"><span class="linenos">308</span></a><span class="sd">    bdio_path : str</span>
+</span><span id="read_mesons-309"><a href="#read_mesons-309"><span class="linenos">309</span></a><span class="sd">        path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
+</span><span id="read_mesons-310"><a href="#read_mesons-310"><span class="linenos">310</span></a><span class="sd">    start : int</span>
+</span><span id="read_mesons-311"><a href="#read_mesons-311"><span class="linenos">311</span></a><span class="sd">        The first configuration to be read (default 1)</span>
+</span><span id="read_mesons-312"><a href="#read_mesons-312"><span class="linenos">312</span></a><span class="sd">    stop : int</span>
+</span><span id="read_mesons-313"><a href="#read_mesons-313"><span class="linenos">313</span></a><span class="sd">        The last configuration to be read (default None)</span>
+</span><span id="read_mesons-314"><a href="#read_mesons-314"><span class="linenos">314</span></a><span class="sd">    step : int</span>
+</span><span id="read_mesons-315"><a href="#read_mesons-315"><span class="linenos">315</span></a><span class="sd">        Fixed step size between two measurements (default 1)</span>
+</span><span id="read_mesons-316"><a href="#read_mesons-316"><span class="linenos">316</span></a><span class="sd">    alternative_ensemble_name : str</span>
+</span><span id="read_mesons-317"><a href="#read_mesons-317"><span class="linenos">317</span></a><span class="sd">        Manually overwrite ensemble name</span>
+</span><span id="read_mesons-318"><a href="#read_mesons-318"><span class="linenos">318</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_mesons-319"><a href="#read_mesons-319"><span class="linenos">319</span></a>
+</span><span id="read_mesons-320"><a href="#read_mesons-320"><span class="linenos">320</span></a>    <span class="n">start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;start&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="read_mesons-321"><a href="#read_mesons-321"><span class="linenos">321</span></a>    <span class="n">stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="read_mesons-322"><a href="#read_mesons-322"><span class="linenos">322</span></a>    <span class="n">step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;step&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="read_mesons-323"><a href="#read_mesons-323"><span class="linenos">323</span></a>
+</span><span id="read_mesons-324"><a href="#read_mesons-324"><span class="linenos">324</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
+</span><span id="read_mesons-325"><a href="#read_mesons-325"><span class="linenos">325</span></a>
+</span><span id="read_mesons-326"><a href="#read_mesons-326"><span class="linenos">326</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
+</span><span id="read_mesons-327"><a href="#read_mesons-327"><span class="linenos">327</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
+</span><span id="read_mesons-328"><a href="#read_mesons-328"><span class="linenos">328</span></a>
+</span><span id="read_mesons-329"><a href="#read_mesons-329"><span class="linenos">329</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
+</span><span id="read_mesons-330"><a href="#read_mesons-330"><span class="linenos">330</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="read_mesons-331"><a href="#read_mesons-331"><span class="linenos">331</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_mesons-332"><a href="#read_mesons-332"><span class="linenos">332</span></a>
+</span><span id="read_mesons-333"><a href="#read_mesons-333"><span class="linenos">333</span></a>    <span class="n">bdio_seek_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_seek_record</span>
+</span><span id="read_mesons-334"><a href="#read_mesons-334"><span class="linenos">334</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="read_mesons-335"><a href="#read_mesons-335"><span class="linenos">335</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_mesons-336"><a href="#read_mesons-336"><span class="linenos">336</span></a>
+</span><span id="read_mesons-337"><a href="#read_mesons-337"><span class="linenos">337</span></a>    <span class="n">bdio_get_rlen</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_rlen</span>
+</span><span id="read_mesons-338"><a href="#read_mesons-338"><span class="linenos">338</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="read_mesons-339"><a href="#read_mesons-339"><span class="linenos">339</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_mesons-340"><a href="#read_mesons-340"><span class="linenos">340</span></a>
+</span><span id="read_mesons-341"><a href="#read_mesons-341"><span class="linenos">341</span></a>    <span class="n">bdio_get_ruinfo</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_ruinfo</span>
+</span><span id="read_mesons-342"><a href="#read_mesons-342"><span class="linenos">342</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="read_mesons-343"><a href="#read_mesons-343"><span class="linenos">343</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_mesons-344"><a href="#read_mesons-344"><span class="linenos">344</span></a>
+</span><span id="read_mesons-345"><a href="#read_mesons-345"><span class="linenos">345</span></a>    <span class="n">bdio_read</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read</span>
+</span><span id="read_mesons-346"><a href="#read_mesons-346"><span class="linenos">346</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="read_mesons-347"><a href="#read_mesons-347"><span class="linenos">347</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_mesons-348"><a href="#read_mesons-348"><span class="linenos">348</span></a>
+</span><span id="read_mesons-349"><a href="#read_mesons-349"><span class="linenos">349</span></a>    <span class="n">bdio_read_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_f64</span>
+</span><span id="read_mesons-350"><a href="#read_mesons-350"><span class="linenos">350</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="read_mesons-351"><a href="#read_mesons-351"><span class="linenos">351</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_mesons-352"><a href="#read_mesons-352"><span class="linenos">352</span></a>
+</span><span id="read_mesons-353"><a href="#read_mesons-353"><span class="linenos">353</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="read_mesons-354"><a href="#read_mesons-354"><span class="linenos">354</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="s1">&#39;r&#39;</span>
+</span><span id="read_mesons-355"><a href="#read_mesons-355"><span class="linenos">355</span></a>    <span class="n">b_read</span> <span class="o">=</span> <span class="n">read</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="read_mesons-356"><a href="#read_mesons-356"><span class="linenos">356</span></a>    <span class="n">form</span> <span class="o">=</span> <span class="s1">&#39;Generic Correlator Format 1.0&#39;</span>
+</span><span id="read_mesons-357"><a href="#read_mesons-357"><span class="linenos">357</span></a>    <span class="n">b_form</span> <span class="o">=</span> <span class="n">form</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="read_mesons-358"><a href="#read_mesons-358"><span class="linenos">358</span></a>
+</span><span id="read_mesons-359"><a href="#read_mesons-359"><span class="linenos">359</span></a>    <span class="n">ensemble_name</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="read_mesons-360"><a href="#read_mesons-360"><span class="linenos">360</span></a>    <span class="n">volume</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># lattice volume</span>
+</span><span id="read_mesons-361"><a href="#read_mesons-361"><span class="linenos">361</span></a>    <span class="n">boundary_conditions</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_mesons-362"><a href="#read_mesons-362"><span class="linenos">362</span></a>    <span class="n">corr_name</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator names</span>
+</span><span id="read_mesons-363"><a href="#read_mesons-363"><span class="linenos">363</span></a>    <span class="n">corr_type</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator data type (important for reading out numerical data)</span>
+</span><span id="read_mesons-364"><a href="#read_mesons-364"><span class="linenos">364</span></a>    <span class="n">corr_props</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contanis propagator types (Component of corr_kappa)</span>
+</span><span id="read_mesons-365"><a href="#read_mesons-365"><span class="linenos">365</span></a>    <span class="n">d0</span> <span class="o">=</span> <span class="mi">0</span>  <span class="c1"># tvals</span>
+</span><span id="read_mesons-366"><a href="#read_mesons-366"><span class="linenos">366</span></a>    <span class="n">d1</span> <span class="o">=</span> <span class="mi">0</span>  <span class="c1"># nnoise</span>
+</span><span id="read_mesons-367"><a href="#read_mesons-367"><span class="linenos">367</span></a>    <span class="n">prop_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator kappas (Component of corr_kappa)</span>
+</span><span id="read_mesons-368"><a href="#read_mesons-368"><span class="linenos">368</span></a>    <span class="n">prop_source</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator source positions</span>
+</span><span id="read_mesons-369"><a href="#read_mesons-369"><span class="linenos">369</span></a>    <span class="c1"># Check noise type for multiple replica?</span>
+</span><span id="read_mesons-370"><a href="#read_mesons-370"><span class="linenos">370</span></a>    <span class="n">corr_no</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
+</span><span id="read_mesons-371"><a href="#read_mesons-371"><span class="linenos">371</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_mesons-372"><a href="#read_mesons-372"><span class="linenos">372</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_mesons-373"><a href="#read_mesons-373"><span class="linenos">373</span></a>
+</span><span id="read_mesons-374"><a href="#read_mesons-374"><span class="linenos">374</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_read</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_form</span><span class="p">))</span>
+</span><span id="read_mesons-375"><a href="#read_mesons-375"><span class="linenos">375</span></a>
+</span><span id="read_mesons-376"><a href="#read_mesons-376"><span class="linenos">376</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Reading of bdio file started&#39;</span><span class="p">)</span>
+</span><span id="read_mesons-377"><a href="#read_mesons-377"><span class="linenos">377</span></a>    <span class="k">while</span> <span class="mi">1</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_mesons-378"><a href="#read_mesons-378"><span class="linenos">378</span></a>        <span class="n">bdio_seek_record</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="read_mesons-379"><a href="#read_mesons-379"><span class="linenos">379</span></a>        <span class="n">ruinfo</span> <span class="o">=</span> <span class="n">bdio_get_ruinfo</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="read_mesons-380"><a href="#read_mesons-380"><span class="linenos">380</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_mesons-381"><a href="#read_mesons-381"><span class="linenos">381</span></a>            <span class="c1"># EOF reached</span>
+</span><span id="read_mesons-382"><a href="#read_mesons-382"><span class="linenos">382</span></a>            <span class="k">break</span>
+</span><span id="read_mesons-383"><a href="#read_mesons-383"><span class="linenos">383</span></a>        <span class="n">rlen</span> <span class="o">=</span> <span class="n">bdio_get_rlen</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="read_mesons-384"><a href="#read_mesons-384"><span class="linenos">384</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">5</span><span class="p">:</span>
+</span><span id="read_mesons-385"><a href="#read_mesons-385"><span class="linenos">385</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">+</span> <span class="n">d0</span> <span class="o">*</span> <span class="n">d1</span> <span class="o">*</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="read_mesons-386"><a href="#read_mesons-386"><span class="linenos">386</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
+</span><span id="read_mesons-387"><a href="#read_mesons-387"><span class="linenos">387</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="read_mesons-388"><a href="#read_mesons-388"><span class="linenos">388</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="read_mesons-389"><a href="#read_mesons-389"><span class="linenos">389</span></a>            <span class="k">if</span> <span class="n">corr_type</span><span class="p">[</span><span class="n">corr_no</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;complex&#39;</span><span class="p">:</span>
+</span><span id="read_mesons-390"><a href="#read_mesons-390"><span class="linenos">390</span></a>                <span class="n">tmp_mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">[</span><span class="mi">2</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">d1</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span> <span class="o">*</span> <span class="n">d1</span><span class="p">:</span><span class="mi">2</span><span class="p">]),</span> <span class="n">d0</span> <span class="o">-</span> <span class="mi">2</span><span class="p">)),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="read_mesons-391"><a href="#read_mesons-391"><span class="linenos">391</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_mesons-392"><a href="#read_mesons-392"><span class="linenos">392</span></a>                <span class="n">tmp_mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">[</span><span class="mi">2</span> <span class="o">+</span> <span class="n">d1</span><span class="p">:</span><span class="o">-</span><span class="n">d0</span> <span class="o">*</span> <span class="n">d1</span> <span class="o">-</span> <span class="n">d1</span><span class="p">]),</span> <span class="n">d0</span> <span class="o">-</span> <span class="mi">2</span><span class="p">)),</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="read_mesons-393"><a href="#read_mesons-393"><span class="linenos">393</span></a>
+</span><span id="read_mesons-394"><a href="#read_mesons-394"><span class="linenos">394</span></a>            <span class="n">data</span><span class="p">[</span><span class="n">corr_no</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_mean</span><span class="p">)</span>
+</span><span id="read_mesons-395"><a href="#read_mesons-395"><span class="linenos">395</span></a>            <span class="n">corr_no</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="read_mesons-396"><a href="#read_mesons-396"><span class="linenos">396</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_mesons-397"><a href="#read_mesons-397"><span class="linenos">397</span></a>            <span class="n">alt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">create_string_buffer</span><span class="p">(</span><span class="mi">1024</span><span class="p">)</span>
+</span><span id="read_mesons-398"><a href="#read_mesons-398"><span class="linenos">398</span></a>            <span class="n">palt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">))</span>
+</span><span id="read_mesons-399"><a href="#read_mesons-399"><span class="linenos">399</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read</span><span class="p">(</span><span class="n">palt_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="read_mesons-400"><a href="#read_mesons-400"><span class="linenos">400</span></a>            <span class="k">if</span> <span class="n">rlen</span> <span class="o">!=</span> <span class="n">iread</span><span class="p">:</span>
+</span><span id="read_mesons-401"><a href="#read_mesons-401"><span class="linenos">401</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error&#39;</span><span class="p">)</span>
+</span><span id="read_mesons-402"><a href="#read_mesons-402"><span class="linenos">402</span></a>            <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">):</span>
+</span><span id="read_mesons-403"><a href="#read_mesons-403"><span class="linenos">403</span></a>                <span class="k">if</span> <span class="n">item</span> <span class="o">==</span> <span class="sa">b</span><span class="s1">&#39;</span><span class="se">\x00</span><span class="s1">&#39;</span><span class="p">:</span>
+</span><span id="read_mesons-404"><a href="#read_mesons-404"><span class="linenos">404</span></a>                    <span class="n">alt_buf</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="sa">b</span><span class="s1">&#39; &#39;</span>
+</span><span id="read_mesons-405"><a href="#read_mesons-405"><span class="linenos">405</span></a>            <span class="n">tmp_string</span> <span class="o">=</span> <span class="p">(</span><span class="n">alt_buf</span><span class="p">[:]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s2">&quot;utf-8&quot;</span><span class="p">))</span><span class="o">.</span><span class="n">rstrip</span><span class="p">()</span>
+</span><span id="read_mesons-406"><a href="#read_mesons-406"><span class="linenos">406</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_mesons-407"><a href="#read_mesons-407"><span class="linenos">407</span></a>                <span class="n">ensemble_name</span> <span class="o">=</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;ENSEMBLE=&#39;</span><span class="p">)</span>
+</span><span id="read_mesons-408"><a href="#read_mesons-408"><span class="linenos">408</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L0=&#39;</span><span class="p">)))</span>
+</span><span id="read_mesons-409"><a href="#read_mesons-409"><span class="linenos">409</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L1=&#39;</span><span class="p">)))</span>
+</span><span id="read_mesons-410"><a href="#read_mesons-410"><span class="linenos">410</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L2=&#39;</span><span class="p">)))</span>
+</span><span id="read_mesons-411"><a href="#read_mesons-411"><span class="linenos">411</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L3=&#39;</span><span class="p">)))</span>
+</span><span id="read_mesons-412"><a href="#read_mesons-412"><span class="linenos">412</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC0=&#39;</span><span class="p">))</span>
+</span><span id="read_mesons-413"><a href="#read_mesons-413"><span class="linenos">413</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC1=&#39;</span><span class="p">))</span>
+</span><span id="read_mesons-414"><a href="#read_mesons-414"><span class="linenos">414</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC2=&#39;</span><span class="p">))</span>
+</span><span id="read_mesons-415"><a href="#read_mesons-415"><span class="linenos">415</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC3=&#39;</span><span class="p">))</span>
+</span><span id="read_mesons-416"><a href="#read_mesons-416"><span class="linenos">416</span></a>
+</span><span id="read_mesons-417"><a href="#read_mesons-417"><span class="linenos">417</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_mesons-418"><a href="#read_mesons-418"><span class="linenos">418</span></a>                <span class="n">corr_name</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_corr_name</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CORR_NAME=&#39;</span><span class="p">))</span>
+</span><span id="read_mesons-419"><a href="#read_mesons-419"><span class="linenos">419</span></a>                <span class="n">corr_type</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;DATATYPE=&#39;</span><span class="p">))</span>
+</span><span id="read_mesons-420"><a href="#read_mesons-420"><span class="linenos">420</span></a>                <span class="n">corr_props</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;PROP0=&#39;</span><span class="p">),</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;PROP1=&#39;</span><span class="p">)])</span>
+</span><span id="read_mesons-421"><a href="#read_mesons-421"><span class="linenos">421</span></a>                <span class="k">if</span> <span class="n">d0</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_mesons-422"><a href="#read_mesons-422"><span class="linenos">422</span></a>                    <span class="n">d0</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">))</span>
+</span><span id="read_mesons-423"><a href="#read_mesons-423"><span class="linenos">423</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="read_mesons-424"><a href="#read_mesons-424"><span class="linenos">424</span></a>                    <span class="k">if</span> <span class="n">d0</span> <span class="o">!=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">)):</span>
+</span><span id="read_mesons-425"><a href="#read_mesons-425"><span class="linenos">425</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error: Varying number of time values&#39;</span><span class="p">)</span>
+</span><span id="read_mesons-426"><a href="#read_mesons-426"><span class="linenos">426</span></a>                <span class="k">if</span> <span class="n">d1</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_mesons-427"><a href="#read_mesons-427"><span class="linenos">427</span></a>                    <span class="n">d1</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D1=&#39;</span><span class="p">))</span>
+</span><span id="read_mesons-428"><a href="#read_mesons-428"><span class="linenos">428</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="read_mesons-429"><a href="#read_mesons-429"><span class="linenos">429</span></a>                    <span class="k">if</span> <span class="n">d1</span> <span class="o">!=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D1=&#39;</span><span class="p">)):</span>
+</span><span id="read_mesons-430"><a href="#read_mesons-430"><span class="linenos">430</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error: Varying number of random sources&#39;</span><span class="p">)</span>
+</span><span id="read_mesons-431"><a href="#read_mesons-431"><span class="linenos">431</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="read_mesons-432"><a href="#read_mesons-432"><span class="linenos">432</span></a>                <span class="n">prop_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;KAPPA=&#39;</span><span class="p">))</span>
+</span><span id="read_mesons-433"><a href="#read_mesons-433"><span class="linenos">433</span></a>                <span class="n">prop_source</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;x0=&#39;</span><span class="p">))</span>
+</span><span id="read_mesons-434"><a href="#read_mesons-434"><span class="linenos">434</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">4</span><span class="p">:</span>
+</span><span id="read_mesons-435"><a href="#read_mesons-435"><span class="linenos">435</span></a>                <span class="n">cnfg_no</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CNFG_ID=&#39;</span><span class="p">))</span>
+</span><span id="read_mesons-436"><a href="#read_mesons-436"><span class="linenos">436</span></a>                <span class="k">if</span> <span class="n">stop</span><span class="p">:</span>
+</span><span id="read_mesons-437"><a href="#read_mesons-437"><span class="linenos">437</span></a>                    <span class="k">if</span> <span class="n">cnfg_no</span> <span class="o">&gt;</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">):</span>
+</span><span id="read_mesons-438"><a href="#read_mesons-438"><span class="linenos">438</span></a>                        <span class="k">break</span>
+</span><span id="read_mesons-439"><a href="#read_mesons-439"><span class="linenos">439</span></a>                <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg_no</span><span class="p">)</span>
+</span><span id="read_mesons-440"><a href="#read_mesons-440"><span class="linenos">440</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\r</span><span class="si">%s</span><span class="s1"> </span><span class="si">%i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;Reading configuration&#39;</span><span class="p">,</span> <span class="n">cnfg_no</span><span class="p">),</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;</span><span class="se">\r</span><span class="s1">&#39;</span><span class="p">)</span>
+</span><span id="read_mesons-441"><a href="#read_mesons-441"><span class="linenos">441</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_mesons-442"><a href="#read_mesons-442"><span class="linenos">442</span></a>                    <span class="n">no_corrs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">)</span>
+</span><span id="read_mesons-443"><a href="#read_mesons-443"><span class="linenos">443</span></a>                    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_mesons-444"><a href="#read_mesons-444"><span class="linenos">444</span></a>                    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
+</span><span id="read_mesons-445"><a href="#read_mesons-445"><span class="linenos">445</span></a>                        <span class="n">data</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="read_mesons-446"><a href="#read_mesons-446"><span class="linenos">446</span></a>
+</span><span id="read_mesons-447"><a href="#read_mesons-447"><span class="linenos">447</span></a>                <span class="n">corr_no</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="read_mesons-448"><a href="#read_mesons-448"><span class="linenos">448</span></a>
+</span><span id="read_mesons-449"><a href="#read_mesons-449"><span class="linenos">449</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="read_mesons-450"><a href="#read_mesons-450"><span class="linenos">450</span></a>
+</span><span id="read_mesons-451"><a href="#read_mesons-451"><span class="linenos">451</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">Ensemble: &#39;</span><span class="p">,</span> <span class="n">ensemble_name</span><span class="p">)</span>
+</span><span id="read_mesons-452"><a href="#read_mesons-452"><span class="linenos">452</span></a>    <span class="k">if</span> <span class="s1">&#39;alternative_ensemble_name&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_mesons-453"><a href="#read_mesons-453"><span class="linenos">453</span></a>        <span class="n">ensemble_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;alternative_ensemble_name&#39;</span><span class="p">)</span>
+</span><span id="read_mesons-454"><a href="#read_mesons-454"><span class="linenos">454</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Ensemble name overwritten to&#39;</span><span class="p">,</span> <span class="n">ensemble_name</span><span class="p">)</span>
+</span><span id="read_mesons-455"><a href="#read_mesons-455"><span class="linenos">455</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Lattice volume: &#39;</span><span class="p">,</span> <span class="n">volume</span><span class="p">)</span>
+</span><span id="read_mesons-456"><a href="#read_mesons-456"><span class="linenos">456</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Boundary conditions: &#39;</span><span class="p">,</span> <span class="n">boundary_conditions</span><span class="p">)</span>
+</span><span id="read_mesons-457"><a href="#read_mesons-457"><span class="linenos">457</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of time values: &#39;</span><span class="p">,</span> <span class="n">d0</span><span class="p">)</span>
+</span><span id="read_mesons-458"><a href="#read_mesons-458"><span class="linenos">458</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of random sources: &#39;</span><span class="p">,</span> <span class="n">d1</span><span class="p">)</span>
+</span><span id="read_mesons-459"><a href="#read_mesons-459"><span class="linenos">459</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of corrs: &#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">))</span>
+</span><span id="read_mesons-460"><a href="#read_mesons-460"><span class="linenos">460</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of configurations: &#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">))</span>
+</span><span id="read_mesons-461"><a href="#read_mesons-461"><span class="linenos">461</span></a>
+</span><span id="read_mesons-462"><a href="#read_mesons-462"><span class="linenos">462</span></a>    <span class="n">corr_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains kappa values for both propagators of given correlation function</span>
+</span><span id="read_mesons-463"><a href="#read_mesons-463"><span class="linenos">463</span></a>    <span class="n">corr_source</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_mesons-464"><a href="#read_mesons-464"><span class="linenos">464</span></a>    <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">corr_props</span><span class="p">:</span>
+</span><span id="read_mesons-465"><a href="#read_mesons-465"><span class="linenos">465</span></a>        <span class="n">corr_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="nb">float</span><span class="p">(</span><span class="n">prop_kappa</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">])]),</span> <span class="nb">float</span><span class="p">(</span><span class="n">prop_kappa</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">1</span><span class="p">])])])</span>
+</span><span id="read_mesons-466"><a href="#read_mesons-466"><span class="linenos">466</span></a>        <span class="k">if</span> <span class="n">prop_source</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">])]</span> <span class="o">!=</span> <span class="n">prop_source</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">1</span><span class="p">])]:</span>
+</span><span id="read_mesons-467"><a href="#read_mesons-467"><span class="linenos">467</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Source position do not match for correlator&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">item</span><span class="p">))</span>
+</span><span id="read_mesons-468"><a href="#read_mesons-468"><span class="linenos">468</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_mesons-469"><a href="#read_mesons-469"><span class="linenos">469</span></a>            <span class="n">corr_source</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">prop_source</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="mi">0</span><span class="p">])]))</span>
+</span><span id="read_mesons-470"><a href="#read_mesons-470"><span class="linenos">470</span></a>
+</span><span id="read_mesons-471"><a href="#read_mesons-471"><span class="linenos">471</span></a>    <span class="k">if</span> <span class="n">stop</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_mesons-472"><a href="#read_mesons-472"><span class="linenos">472</span></a>        <span class="n">stop</span> <span class="o">=</span> <span class="n">idl</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="read_mesons-473"><a href="#read_mesons-473"><span class="linenos">473</span></a>    <span class="n">idl_target</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">start</span><span class="p">,</span> <span class="n">stop</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">step</span><span class="p">)</span>
+</span><span id="read_mesons-474"><a href="#read_mesons-474"><span class="linenos">474</span></a>
+</span><span id="read_mesons-475"><a href="#read_mesons-475"><span class="linenos">475</span></a>    <span class="k">if</span> <span class="nb">set</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">set</span><span class="p">(</span><span class="n">idl_target</span><span class="p">):</span>
+</span><span id="read_mesons-476"><a href="#read_mesons-476"><span class="linenos">476</span></a>        <span class="k">try</span><span class="p">:</span>
+</span><span id="read_mesons-477"><a href="#read_mesons-477"><span class="linenos">477</span></a>            <span class="n">indices</span> <span class="o">=</span> <span class="p">[</span><span class="n">idl</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">idl_target</span><span class="p">]</span>
+</span><span id="read_mesons-478"><a href="#read_mesons-478"><span class="linenos">478</span></a>        <span class="k">except</span> <span class="ne">ValueError</span> <span class="k">as</span> <span class="n">err</span><span class="p">:</span>
+</span><span id="read_mesons-479"><a href="#read_mesons-479"><span class="linenos">479</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Configurations in file do no match target list!&#39;</span><span class="p">,</span> <span class="n">err</span><span class="p">)</span>
+</span><span id="read_mesons-480"><a href="#read_mesons-480"><span class="linenos">480</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_mesons-481"><a href="#read_mesons-481"><span class="linenos">481</span></a>        <span class="n">indices</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="read_mesons-482"><a href="#read_mesons-482"><span class="linenos">482</span></a>
+</span><span id="read_mesons-483"><a href="#read_mesons-483"><span class="linenos">483</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="read_mesons-484"><a href="#read_mesons-484"><span class="linenos">484</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
+</span><span id="read_mesons-485"><a href="#read_mesons-485"><span class="linenos">485</span></a>        <span class="n">tmp_corr</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_mesons-486"><a href="#read_mesons-486"><span class="linenos">486</span></a>        <span class="n">tmp_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="n">c</span><span class="p">])</span>
+</span><span id="read_mesons-487"><a href="#read_mesons-487"><span class="linenos">487</span></a>        <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">d0</span> <span class="o">-</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="read_mesons-488"><a href="#read_mesons-488"><span class="linenos">488</span></a>            <span class="k">if</span> <span class="n">indices</span><span class="p">:</span>
+</span><span id="read_mesons-489"><a href="#read_mesons-489"><span class="linenos">489</span></a>                <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">tmp_data</span><span class="p">[:,</span> <span class="n">t</span><span class="p">][</span><span class="n">index</span><span class="p">]</span> <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">indices</span><span class="p">]</span>
+</span><span id="read_mesons-490"><a href="#read_mesons-490"><span class="linenos">490</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_mesons-491"><a href="#read_mesons-491"><span class="linenos">491</span></a>                <span class="n">deltas</span> <span class="o">=</span> <span class="n">tmp_data</span><span class="p">[:,</span> <span class="n">t</span><span class="p">]</span>
+</span><span id="read_mesons-492"><a href="#read_mesons-492"><span class="linenos">492</span></a>            <span class="n">tmp_corr</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="n">deltas</span><span class="p">],</span> <span class="p">[</span><span class="n">ensemble_name</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idl_target</span><span class="p">]))</span>
+</span><span id="read_mesons-493"><a href="#read_mesons-493"><span class="linenos">493</span></a>        <span class="n">result</span><span class="p">[(</span><span class="n">corr_name</span><span class="p">[</span><span class="n">c</span><span class="p">],</span> <span class="n">corr_source</span><span class="p">[</span><span class="n">c</span><span class="p">])</span> <span class="o">+</span> <span class="nb">tuple</span><span class="p">(</span><span class="n">corr_kappa</span><span class="p">[</span><span class="n">c</span><span class="p">])]</span> <span class="o">=</span> <span class="n">tmp_corr</span>
+</span><span id="read_mesons-494"><a href="#read_mesons-494"><span class="linenos">494</span></a>
+</span><span id="read_mesons-495"><a href="#read_mesons-495"><span class="linenos">495</span></a>    <span class="c1"># Check that all data entries have the same number of configurations</span>
+</span><span id="read_mesons-496"><a href="#read_mesons-496"><span class="linenos">496</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">N</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">result</span><span class="o">.</span><span class="n">values</span><span class="p">())]))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_mesons-497"><a href="#read_mesons-497"><span class="linenos">497</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not all correlators have the same number of configurations. bdio file is possibly corrupted.&#39;</span><span class="p">)</span>
+</span><span id="read_mesons-498"><a href="#read_mesons-498"><span class="linenos">498</span></a>
+</span><span id="read_mesons-499"><a href="#read_mesons-499"><span class="linenos">499</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Extract mesons data from a bdio file and return it as a dictionary</p>
 
@@ -1354,197 +1355,197 @@ Manually overwrite ensemble name</li>
 
                 </section>
                 <section id="read_dSdm">
-                            <div class="attr function"><a class="headerlink" href="#read_dSdm">#&nbsp;&nbsp</a>
+                            <input id="read_dSdm-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_dSdm</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">file_path</span>, </span><span class="param"><span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="read_dSdm-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_dSdm</span><span class="signature">(file_path, bdio_path=&#39;./libbdio.so&#39;, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_dSdm-501"><a href="#read_dSdm-501"><span class="linenos">501</span></a><span class="k">def</span> <span class="nf">read_dSdm</span><span class="p">(</span><span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="read_dSdm-502"><a href="#read_dSdm-502"><span class="linenos">502</span></a>    <span class="sd">&quot;&quot;&quot; Extract dSdm data from a bdio file and return it as a dictionary</span>
-</span><span id="read_dSdm-503"><a href="#read_dSdm-503"><span class="linenos">503</span></a>
-</span><span id="read_dSdm-504"><a href="#read_dSdm-504"><span class="linenos">504</span></a><span class="sd">    The dictionary can be accessed with a tuple consisting of (type, kappa)</span>
-</span><span id="read_dSdm-505"><a href="#read_dSdm-505"><span class="linenos">505</span></a>
-</span><span id="read_dSdm-506"><a href="#read_dSdm-506"><span class="linenos">506</span></a><span class="sd">    read_dSdm requires bdio to be compiled into a shared library. This can be achieved by</span>
-</span><span id="read_dSdm-507"><a href="#read_dSdm-507"><span class="linenos">507</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
-</span><span id="read_dSdm-508"><a href="#read_dSdm-508"><span class="linenos">508</span></a>
-</span><span id="read_dSdm-509"><a href="#read_dSdm-509"><span class="linenos">509</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
-</span><span id="read_dSdm-510"><a href="#read_dSdm-510"><span class="linenos">510</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
-</span><span id="read_dSdm-511"><a href="#read_dSdm-511"><span class="linenos">511</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
-</span><span id="read_dSdm-512"><a href="#read_dSdm-512"><span class="linenos">512</span></a>
-</span><span id="read_dSdm-513"><a href="#read_dSdm-513"><span class="linenos">513</span></a><span class="sd">    Parameters</span>
-</span><span id="read_dSdm-514"><a href="#read_dSdm-514"><span class="linenos">514</span></a><span class="sd">    ----------</span>
-</span><span id="read_dSdm-515"><a href="#read_dSdm-515"><span class="linenos">515</span></a><span class="sd">    file_path : str</span>
-</span><span id="read_dSdm-516"><a href="#read_dSdm-516"><span class="linenos">516</span></a><span class="sd">        path to the bdio file</span>
-</span><span id="read_dSdm-517"><a href="#read_dSdm-517"><span class="linenos">517</span></a><span class="sd">    bdio_path : str</span>
-</span><span id="read_dSdm-518"><a href="#read_dSdm-518"><span class="linenos">518</span></a><span class="sd">        path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
-</span><span id="read_dSdm-519"><a href="#read_dSdm-519"><span class="linenos">519</span></a><span class="sd">    start : int</span>
-</span><span id="read_dSdm-520"><a href="#read_dSdm-520"><span class="linenos">520</span></a><span class="sd">        The first configuration to be read (default 1)</span>
-</span><span id="read_dSdm-521"><a href="#read_dSdm-521"><span class="linenos">521</span></a><span class="sd">    stop : int</span>
-</span><span id="read_dSdm-522"><a href="#read_dSdm-522"><span class="linenos">522</span></a><span class="sd">        The last configuration to be read (default None)</span>
-</span><span id="read_dSdm-523"><a href="#read_dSdm-523"><span class="linenos">523</span></a><span class="sd">    step : int</span>
-</span><span id="read_dSdm-524"><a href="#read_dSdm-524"><span class="linenos">524</span></a><span class="sd">        Fixed step size between two measurements (default 1)</span>
-</span><span id="read_dSdm-525"><a href="#read_dSdm-525"><span class="linenos">525</span></a><span class="sd">    alternative_ensemble_name : str</span>
-</span><span id="read_dSdm-526"><a href="#read_dSdm-526"><span class="linenos">526</span></a><span class="sd">        Manually overwrite ensemble name</span>
-</span><span id="read_dSdm-527"><a href="#read_dSdm-527"><span class="linenos">527</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_dSdm-528"><a href="#read_dSdm-528"><span class="linenos">528</span></a>
-</span><span id="read_dSdm-529"><a href="#read_dSdm-529"><span class="linenos">529</span></a>    <span class="n">start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;start&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="read_dSdm-530"><a href="#read_dSdm-530"><span class="linenos">530</span></a>    <span class="n">stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="read_dSdm-531"><a href="#read_dSdm-531"><span class="linenos">531</span></a>    <span class="n">step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;step&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="read_dSdm-532"><a href="#read_dSdm-532"><span class="linenos">532</span></a>
-</span><span id="read_dSdm-533"><a href="#read_dSdm-533"><span class="linenos">533</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
-</span><span id="read_dSdm-534"><a href="#read_dSdm-534"><span class="linenos">534</span></a>
-</span><span id="read_dSdm-535"><a href="#read_dSdm-535"><span class="linenos">535</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
-</span><span id="read_dSdm-536"><a href="#read_dSdm-536"><span class="linenos">536</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
-</span><span id="read_dSdm-537"><a href="#read_dSdm-537"><span class="linenos">537</span></a>
-</span><span id="read_dSdm-538"><a href="#read_dSdm-538"><span class="linenos">538</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
-</span><span id="read_dSdm-539"><a href="#read_dSdm-539"><span class="linenos">539</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="read_dSdm-540"><a href="#read_dSdm-540"><span class="linenos">540</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_dSdm-541"><a href="#read_dSdm-541"><span class="linenos">541</span></a>
-</span><span id="read_dSdm-542"><a href="#read_dSdm-542"><span class="linenos">542</span></a>    <span class="n">bdio_seek_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_seek_record</span>
-</span><span id="read_dSdm-543"><a href="#read_dSdm-543"><span class="linenos">543</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="read_dSdm-544"><a href="#read_dSdm-544"><span class="linenos">544</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_dSdm-545"><a href="#read_dSdm-545"><span class="linenos">545</span></a>
-</span><span id="read_dSdm-546"><a href="#read_dSdm-546"><span class="linenos">546</span></a>    <span class="n">bdio_get_rlen</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_rlen</span>
-</span><span id="read_dSdm-547"><a href="#read_dSdm-547"><span class="linenos">547</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="read_dSdm-548"><a href="#read_dSdm-548"><span class="linenos">548</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_dSdm-549"><a href="#read_dSdm-549"><span class="linenos">549</span></a>
-</span><span id="read_dSdm-550"><a href="#read_dSdm-550"><span class="linenos">550</span></a>    <span class="n">bdio_get_ruinfo</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_ruinfo</span>
-</span><span id="read_dSdm-551"><a href="#read_dSdm-551"><span class="linenos">551</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
-</span><span id="read_dSdm-552"><a href="#read_dSdm-552"><span class="linenos">552</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_dSdm-553"><a href="#read_dSdm-553"><span class="linenos">553</span></a>
-</span><span id="read_dSdm-554"><a href="#read_dSdm-554"><span class="linenos">554</span></a>    <span class="n">bdio_read</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read</span>
-</span><span id="read_dSdm-555"><a href="#read_dSdm-555"><span class="linenos">555</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="read_dSdm-556"><a href="#read_dSdm-556"><span class="linenos">556</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_dSdm-557"><a href="#read_dSdm-557"><span class="linenos">557</span></a>
-</span><span id="read_dSdm-558"><a href="#read_dSdm-558"><span class="linenos">558</span></a>    <span class="n">bdio_read_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_f64</span>
-</span><span id="read_dSdm-559"><a href="#read_dSdm-559"><span class="linenos">559</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
-</span><span id="read_dSdm-560"><a href="#read_dSdm-560"><span class="linenos">560</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
-</span><span id="read_dSdm-561"><a href="#read_dSdm-561"><span class="linenos">561</span></a>
-</span><span id="read_dSdm-562"><a href="#read_dSdm-562"><span class="linenos">562</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="read_dSdm-563"><a href="#read_dSdm-563"><span class="linenos">563</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="s1">&#39;r&#39;</span>
-</span><span id="read_dSdm-564"><a href="#read_dSdm-564"><span class="linenos">564</span></a>    <span class="n">b_read</span> <span class="o">=</span> <span class="n">read</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="read_dSdm-565"><a href="#read_dSdm-565"><span class="linenos">565</span></a>    <span class="n">form</span> <span class="o">=</span> <span class="s1">&#39;Generic Correlator Format 1.0&#39;</span>
-</span><span id="read_dSdm-566"><a href="#read_dSdm-566"><span class="linenos">566</span></a>    <span class="n">b_form</span> <span class="o">=</span> <span class="n">form</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="read_dSdm-567"><a href="#read_dSdm-567"><span class="linenos">567</span></a>
-</span><span id="read_dSdm-568"><a href="#read_dSdm-568"><span class="linenos">568</span></a>    <span class="n">ensemble_name</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="read_dSdm-569"><a href="#read_dSdm-569"><span class="linenos">569</span></a>    <span class="n">volume</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># lattice volume</span>
-</span><span id="read_dSdm-570"><a href="#read_dSdm-570"><span class="linenos">570</span></a>    <span class="n">boundary_conditions</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_dSdm-571"><a href="#read_dSdm-571"><span class="linenos">571</span></a>    <span class="n">corr_name</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator names</span>
-</span><span id="read_dSdm-572"><a href="#read_dSdm-572"><span class="linenos">572</span></a>    <span class="n">corr_type</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator data type (important for reading out numerical data)</span>
-</span><span id="read_dSdm-573"><a href="#read_dSdm-573"><span class="linenos">573</span></a>    <span class="n">corr_props</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator types (Component of corr_kappa)</span>
-</span><span id="read_dSdm-574"><a href="#read_dSdm-574"><span class="linenos">574</span></a>    <span class="n">d0</span> <span class="o">=</span> <span class="mi">0</span>  <span class="c1"># tvals</span>
-</span><span id="read_dSdm-575"><a href="#read_dSdm-575"><span class="linenos">575</span></a>    <span class="c1"># d1 = 0  # nnoise</span>
-</span><span id="read_dSdm-576"><a href="#read_dSdm-576"><span class="linenos">576</span></a>    <span class="n">prop_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator kappas (Component of corr_kappa)</span>
-</span><span id="read_dSdm-577"><a href="#read_dSdm-577"><span class="linenos">577</span></a>    <span class="c1"># Check noise type for multiple replica?</span>
-</span><span id="read_dSdm-578"><a href="#read_dSdm-578"><span class="linenos">578</span></a>    <span class="n">corr_no</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
-</span><span id="read_dSdm-579"><a href="#read_dSdm-579"><span class="linenos">579</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_dSdm-580"><a href="#read_dSdm-580"><span class="linenos">580</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_dSdm-581"><a href="#read_dSdm-581"><span class="linenos">581</span></a>
-</span><span id="read_dSdm-582"><a href="#read_dSdm-582"><span class="linenos">582</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_read</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_form</span><span class="p">))</span>
-</span><span id="read_dSdm-583"><a href="#read_dSdm-583"><span class="linenos">583</span></a>
-</span><span id="read_dSdm-584"><a href="#read_dSdm-584"><span class="linenos">584</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Reading of bdio file started&#39;</span><span class="p">)</span>
-</span><span id="read_dSdm-585"><a href="#read_dSdm-585"><span class="linenos">585</span></a>    <span class="k">while</span> <span class="mi">1</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_dSdm-586"><a href="#read_dSdm-586"><span class="linenos">586</span></a>        <span class="n">bdio_seek_record</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="read_dSdm-587"><a href="#read_dSdm-587"><span class="linenos">587</span></a>        <span class="n">ruinfo</span> <span class="o">=</span> <span class="n">bdio_get_ruinfo</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="read_dSdm-588"><a href="#read_dSdm-588"><span class="linenos">588</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_dSdm-589"><a href="#read_dSdm-589"><span class="linenos">589</span></a>            <span class="c1"># EOF reached</span>
-</span><span id="read_dSdm-590"><a href="#read_dSdm-590"><span class="linenos">590</span></a>            <span class="k">break</span>
-</span><span id="read_dSdm-591"><a href="#read_dSdm-591"><span class="linenos">591</span></a>        <span class="n">rlen</span> <span class="o">=</span> <span class="n">bdio_get_rlen</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="read_dSdm-592"><a href="#read_dSdm-592"><span class="linenos">592</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">5</span><span class="p">:</span>
-</span><span id="read_dSdm-593"><a href="#read_dSdm-593"><span class="linenos">593</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">+</span> <span class="n">d0</span><span class="p">)</span>
-</span><span id="read_dSdm-594"><a href="#read_dSdm-594"><span class="linenos">594</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
-</span><span id="read_dSdm-595"><a href="#read_dSdm-595"><span class="linenos">595</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
-</span><span id="read_dSdm-596"><a href="#read_dSdm-596"><span class="linenos">596</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="read_dSdm-597"><a href="#read_dSdm-597"><span class="linenos">597</span></a>            <span class="n">tmp_mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">[</span><span class="mi">2</span><span class="p">:]))</span>
-</span><span id="read_dSdm-598"><a href="#read_dSdm-598"><span class="linenos">598</span></a>
-</span><span id="read_dSdm-599"><a href="#read_dSdm-599"><span class="linenos">599</span></a>            <span class="n">data</span><span class="p">[</span><span class="n">corr_no</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_mean</span><span class="p">)</span>
-</span><span id="read_dSdm-600"><a href="#read_dSdm-600"><span class="linenos">600</span></a>            <span class="n">corr_no</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="read_dSdm-601"><a href="#read_dSdm-601"><span class="linenos">601</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_dSdm-602"><a href="#read_dSdm-602"><span class="linenos">602</span></a>            <span class="n">alt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">create_string_buffer</span><span class="p">(</span><span class="mi">1024</span><span class="p">)</span>
-</span><span id="read_dSdm-603"><a href="#read_dSdm-603"><span class="linenos">603</span></a>            <span class="n">palt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">))</span>
-</span><span id="read_dSdm-604"><a href="#read_dSdm-604"><span class="linenos">604</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read</span><span class="p">(</span><span class="n">palt_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
-</span><span id="read_dSdm-605"><a href="#read_dSdm-605"><span class="linenos">605</span></a>            <span class="k">if</span> <span class="n">rlen</span> <span class="o">!=</span> <span class="n">iread</span><span class="p">:</span>
-</span><span id="read_dSdm-606"><a href="#read_dSdm-606"><span class="linenos">606</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error&#39;</span><span class="p">)</span>
-</span><span id="read_dSdm-607"><a href="#read_dSdm-607"><span class="linenos">607</span></a>            <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">):</span>
-</span><span id="read_dSdm-608"><a href="#read_dSdm-608"><span class="linenos">608</span></a>                <span class="k">if</span> <span class="n">item</span> <span class="o">==</span> <span class="sa">b</span><span class="s1">&#39;</span><span class="se">\x00</span><span class="s1">&#39;</span><span class="p">:</span>
-</span><span id="read_dSdm-609"><a href="#read_dSdm-609"><span class="linenos">609</span></a>                    <span class="n">alt_buf</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="sa">b</span><span class="s1">&#39; &#39;</span>
-</span><span id="read_dSdm-610"><a href="#read_dSdm-610"><span class="linenos">610</span></a>            <span class="n">tmp_string</span> <span class="o">=</span> <span class="p">(</span><span class="n">alt_buf</span><span class="p">[:]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s2">&quot;utf-8&quot;</span><span class="p">))</span><span class="o">.</span><span class="n">rstrip</span><span class="p">()</span>
-</span><span id="read_dSdm-611"><a href="#read_dSdm-611"><span class="linenos">611</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_dSdm-612"><a href="#read_dSdm-612"><span class="linenos">612</span></a>                <span class="n">creator</span> <span class="o">=</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CREATOR=&#39;</span><span class="p">)</span>
-</span><span id="read_dSdm-613"><a href="#read_dSdm-613"><span class="linenos">613</span></a>                <span class="n">ensemble_name</span> <span class="o">=</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;ENSEMBLE=&#39;</span><span class="p">)</span>
-</span><span id="read_dSdm-614"><a href="#read_dSdm-614"><span class="linenos">614</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L0=&#39;</span><span class="p">)))</span>
-</span><span id="read_dSdm-615"><a href="#read_dSdm-615"><span class="linenos">615</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L1=&#39;</span><span class="p">)))</span>
-</span><span id="read_dSdm-616"><a href="#read_dSdm-616"><span class="linenos">616</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L2=&#39;</span><span class="p">)))</span>
-</span><span id="read_dSdm-617"><a href="#read_dSdm-617"><span class="linenos">617</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L3=&#39;</span><span class="p">)))</span>
-</span><span id="read_dSdm-618"><a href="#read_dSdm-618"><span class="linenos">618</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC0=&#39;</span><span class="p">))</span>
-</span><span id="read_dSdm-619"><a href="#read_dSdm-619"><span class="linenos">619</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC1=&#39;</span><span class="p">))</span>
-</span><span id="read_dSdm-620"><a href="#read_dSdm-620"><span class="linenos">620</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC2=&#39;</span><span class="p">))</span>
-</span><span id="read_dSdm-621"><a href="#read_dSdm-621"><span class="linenos">621</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC3=&#39;</span><span class="p">))</span>
-</span><span id="read_dSdm-622"><a href="#read_dSdm-622"><span class="linenos">622</span></a>
-</span><span id="read_dSdm-623"><a href="#read_dSdm-623"><span class="linenos">623</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_dSdm-624"><a href="#read_dSdm-624"><span class="linenos">624</span></a>                <span class="n">corr_name</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_corr_name</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CORR_NAME=&#39;</span><span class="p">))</span>
-</span><span id="read_dSdm-625"><a href="#read_dSdm-625"><span class="linenos">625</span></a>                <span class="n">corr_type</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;DATATYPE=&#39;</span><span class="p">))</span>
-</span><span id="read_dSdm-626"><a href="#read_dSdm-626"><span class="linenos">626</span></a>                <span class="n">corr_props</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;PROP0=&#39;</span><span class="p">))</span>
-</span><span id="read_dSdm-627"><a href="#read_dSdm-627"><span class="linenos">627</span></a>                <span class="k">if</span> <span class="n">d0</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_dSdm-628"><a href="#read_dSdm-628"><span class="linenos">628</span></a>                    <span class="n">d0</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">))</span>
-</span><span id="read_dSdm-629"><a href="#read_dSdm-629"><span class="linenos">629</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="read_dSdm-630"><a href="#read_dSdm-630"><span class="linenos">630</span></a>                    <span class="k">if</span> <span class="n">d0</span> <span class="o">!=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">)):</span>
-</span><span id="read_dSdm-631"><a href="#read_dSdm-631"><span class="linenos">631</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error: Varying number of time values&#39;</span><span class="p">)</span>
-</span><span id="read_dSdm-632"><a href="#read_dSdm-632"><span class="linenos">632</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="read_dSdm-633"><a href="#read_dSdm-633"><span class="linenos">633</span></a>                <span class="n">prop_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;KAPPA=&#39;</span><span class="p">))</span>
-</span><span id="read_dSdm-634"><a href="#read_dSdm-634"><span class="linenos">634</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">4</span><span class="p">:</span>
-</span><span id="read_dSdm-635"><a href="#read_dSdm-635"><span class="linenos">635</span></a>                <span class="n">cnfg_no</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CNFG_ID=&#39;</span><span class="p">))</span>
-</span><span id="read_dSdm-636"><a href="#read_dSdm-636"><span class="linenos">636</span></a>                <span class="k">if</span> <span class="n">stop</span><span class="p">:</span>
-</span><span id="read_dSdm-637"><a href="#read_dSdm-637"><span class="linenos">637</span></a>                    <span class="k">if</span> <span class="n">cnfg_no</span> <span class="o">&gt;</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">):</span>
-</span><span id="read_dSdm-638"><a href="#read_dSdm-638"><span class="linenos">638</span></a>                        <span class="k">break</span>
-</span><span id="read_dSdm-639"><a href="#read_dSdm-639"><span class="linenos">639</span></a>                <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg_no</span><span class="p">)</span>
-</span><span id="read_dSdm-640"><a href="#read_dSdm-640"><span class="linenos">640</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\r</span><span class="si">%s</span><span class="s1"> </span><span class="si">%i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;Reading configuration&#39;</span><span class="p">,</span> <span class="n">cnfg_no</span><span class="p">),</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;</span><span class="se">\r</span><span class="s1">&#39;</span><span class="p">)</span>
-</span><span id="read_dSdm-641"><a href="#read_dSdm-641"><span class="linenos">641</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_dSdm-642"><a href="#read_dSdm-642"><span class="linenos">642</span></a>                    <span class="n">no_corrs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">)</span>
-</span><span id="read_dSdm-643"><a href="#read_dSdm-643"><span class="linenos">643</span></a>                    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_dSdm-644"><a href="#read_dSdm-644"><span class="linenos">644</span></a>                    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
-</span><span id="read_dSdm-645"><a href="#read_dSdm-645"><span class="linenos">645</span></a>                        <span class="n">data</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="read_dSdm-646"><a href="#read_dSdm-646"><span class="linenos">646</span></a>
-</span><span id="read_dSdm-647"><a href="#read_dSdm-647"><span class="linenos">647</span></a>                <span class="n">corr_no</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="read_dSdm-648"><a href="#read_dSdm-648"><span class="linenos">648</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
-</span><span id="read_dSdm-649"><a href="#read_dSdm-649"><span class="linenos">649</span></a>
-</span><span id="read_dSdm-650"><a href="#read_dSdm-650"><span class="linenos">650</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">Creator: &#39;</span><span class="p">,</span> <span class="n">creator</span><span class="p">)</span>
-</span><span id="read_dSdm-651"><a href="#read_dSdm-651"><span class="linenos">651</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Ensemble: &#39;</span><span class="p">,</span> <span class="n">ensemble_name</span><span class="p">)</span>
-</span><span id="read_dSdm-652"><a href="#read_dSdm-652"><span class="linenos">652</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Lattice volume: &#39;</span><span class="p">,</span> <span class="n">volume</span><span class="p">)</span>
-</span><span id="read_dSdm-653"><a href="#read_dSdm-653"><span class="linenos">653</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Boundary conditions: &#39;</span><span class="p">,</span> <span class="n">boundary_conditions</span><span class="p">)</span>
-</span><span id="read_dSdm-654"><a href="#read_dSdm-654"><span class="linenos">654</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of random sources: &#39;</span><span class="p">,</span> <span class="n">d0</span><span class="p">)</span>
-</span><span id="read_dSdm-655"><a href="#read_dSdm-655"><span class="linenos">655</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of corrs: &#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">))</span>
-</span><span id="read_dSdm-656"><a href="#read_dSdm-656"><span class="linenos">656</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of configurations: &#39;</span><span class="p">,</span> <span class="n">cnfg_no</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="read_dSdm-657"><a href="#read_dSdm-657"><span class="linenos">657</span></a>
-</span><span id="read_dSdm-658"><a href="#read_dSdm-658"><span class="linenos">658</span></a>    <span class="n">corr_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains kappa values for both propagators of given correlation function</span>
-</span><span id="read_dSdm-659"><a href="#read_dSdm-659"><span class="linenos">659</span></a>    <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">corr_props</span><span class="p">:</span>
-</span><span id="read_dSdm-660"><a href="#read_dSdm-660"><span class="linenos">660</span></a>        <span class="n">corr_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">float</span><span class="p">(</span><span class="n">prop_kappa</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">)]))</span>
-</span><span id="read_dSdm-661"><a href="#read_dSdm-661"><span class="linenos">661</span></a>
-</span><span id="read_dSdm-662"><a href="#read_dSdm-662"><span class="linenos">662</span></a>    <span class="k">if</span> <span class="n">stop</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_dSdm-663"><a href="#read_dSdm-663"><span class="linenos">663</span></a>        <span class="n">stop</span> <span class="o">=</span> <span class="n">idl</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="read_dSdm-664"><a href="#read_dSdm-664"><span class="linenos">664</span></a>    <span class="n">idl_target</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">start</span><span class="p">,</span> <span class="n">stop</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">step</span><span class="p">)</span>
-</span><span id="read_dSdm-665"><a href="#read_dSdm-665"><span class="linenos">665</span></a>    <span class="k">try</span><span class="p">:</span>
-</span><span id="read_dSdm-666"><a href="#read_dSdm-666"><span class="linenos">666</span></a>        <span class="n">indices</span> <span class="o">=</span> <span class="p">[</span><span class="n">idl</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">idl_target</span><span class="p">]</span>
-</span><span id="read_dSdm-667"><a href="#read_dSdm-667"><span class="linenos">667</span></a>    <span class="k">except</span> <span class="ne">ValueError</span> <span class="k">as</span> <span class="n">err</span><span class="p">:</span>
-</span><span id="read_dSdm-668"><a href="#read_dSdm-668"><span class="linenos">668</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Configurations in file do no match target list!&#39;</span><span class="p">,</span> <span class="n">err</span><span class="p">)</span>
-</span><span id="read_dSdm-669"><a href="#read_dSdm-669"><span class="linenos">669</span></a>
-</span><span id="read_dSdm-670"><a href="#read_dSdm-670"><span class="linenos">670</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="read_dSdm-671"><a href="#read_dSdm-671"><span class="linenos">671</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
-</span><span id="read_dSdm-672"><a href="#read_dSdm-672"><span class="linenos">672</span></a>        <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="n">c</span><span class="p">])[</span><span class="n">index</span><span class="p">]</span> <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">indices</span><span class="p">]</span>
-</span><span id="read_dSdm-673"><a href="#read_dSdm-673"><span class="linenos">673</span></a>        <span class="n">result</span><span class="p">[(</span><span class="n">corr_name</span><span class="p">[</span><span class="n">c</span><span class="p">],</span> <span class="nb">str</span><span class="p">(</span><span class="n">corr_kappa</span><span class="p">[</span><span class="n">c</span><span class="p">]))]</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">deltas</span><span class="p">],</span> <span class="p">[</span><span class="n">ensemble_name</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idl_target</span><span class="p">])</span>
-</span><span id="read_dSdm-674"><a href="#read_dSdm-674"><span class="linenos">674</span></a>
-</span><span id="read_dSdm-675"><a href="#read_dSdm-675"><span class="linenos">675</span></a>    <span class="c1"># Check that all data entries have the same number of configurations</span>
-</span><span id="read_dSdm-676"><a href="#read_dSdm-676"><span class="linenos">676</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">N</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">result</span><span class="o">.</span><span class="n">values</span><span class="p">())]))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_dSdm-677"><a href="#read_dSdm-677"><span class="linenos">677</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not all correlators have the same number of configurations. bdio file is possibly corrupted.&#39;</span><span class="p">)</span>
-</span><span id="read_dSdm-678"><a href="#read_dSdm-678"><span class="linenos">678</span></a>
-</span><span id="read_dSdm-679"><a href="#read_dSdm-679"><span class="linenos">679</span></a>    <span class="k">return</span> <span class="n">result</span>
+    <a class="headerlink" href="#read_dSdm"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_dSdm-502"><a href="#read_dSdm-502"><span class="linenos">502</span></a><span class="k">def</span> <span class="nf">read_dSdm</span><span class="p">(</span><span class="n">file_path</span><span class="p">,</span> <span class="n">bdio_path</span><span class="o">=</span><span class="s1">&#39;./libbdio.so&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="read_dSdm-503"><a href="#read_dSdm-503"><span class="linenos">503</span></a>    <span class="sd">&quot;&quot;&quot; Extract dSdm data from a bdio file and return it as a dictionary</span>
+</span><span id="read_dSdm-504"><a href="#read_dSdm-504"><span class="linenos">504</span></a>
+</span><span id="read_dSdm-505"><a href="#read_dSdm-505"><span class="linenos">505</span></a><span class="sd">    The dictionary can be accessed with a tuple consisting of (type, kappa)</span>
+</span><span id="read_dSdm-506"><a href="#read_dSdm-506"><span class="linenos">506</span></a>
+</span><span id="read_dSdm-507"><a href="#read_dSdm-507"><span class="linenos">507</span></a><span class="sd">    read_dSdm requires bdio to be compiled into a shared library. This can be achieved by</span>
+</span><span id="read_dSdm-508"><a href="#read_dSdm-508"><span class="linenos">508</span></a><span class="sd">    adding the flag -fPIC to CC and changing the all target to</span>
+</span><span id="read_dSdm-509"><a href="#read_dSdm-509"><span class="linenos">509</span></a>
+</span><span id="read_dSdm-510"><a href="#read_dSdm-510"><span class="linenos">510</span></a><span class="sd">    all:		bdio.o $(LIBDIR)</span>
+</span><span id="read_dSdm-511"><a href="#read_dSdm-511"><span class="linenos">511</span></a><span class="sd">                gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o</span>
+</span><span id="read_dSdm-512"><a href="#read_dSdm-512"><span class="linenos">512</span></a><span class="sd">                cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</span>
+</span><span id="read_dSdm-513"><a href="#read_dSdm-513"><span class="linenos">513</span></a>
+</span><span id="read_dSdm-514"><a href="#read_dSdm-514"><span class="linenos">514</span></a><span class="sd">    Parameters</span>
+</span><span id="read_dSdm-515"><a href="#read_dSdm-515"><span class="linenos">515</span></a><span class="sd">    ----------</span>
+</span><span id="read_dSdm-516"><a href="#read_dSdm-516"><span class="linenos">516</span></a><span class="sd">    file_path : str</span>
+</span><span id="read_dSdm-517"><a href="#read_dSdm-517"><span class="linenos">517</span></a><span class="sd">        path to the bdio file</span>
+</span><span id="read_dSdm-518"><a href="#read_dSdm-518"><span class="linenos">518</span></a><span class="sd">    bdio_path : str</span>
+</span><span id="read_dSdm-519"><a href="#read_dSdm-519"><span class="linenos">519</span></a><span class="sd">        path to the shared bdio library libbdio.so (default ./libbdio.so)</span>
+</span><span id="read_dSdm-520"><a href="#read_dSdm-520"><span class="linenos">520</span></a><span class="sd">    start : int</span>
+</span><span id="read_dSdm-521"><a href="#read_dSdm-521"><span class="linenos">521</span></a><span class="sd">        The first configuration to be read (default 1)</span>
+</span><span id="read_dSdm-522"><a href="#read_dSdm-522"><span class="linenos">522</span></a><span class="sd">    stop : int</span>
+</span><span id="read_dSdm-523"><a href="#read_dSdm-523"><span class="linenos">523</span></a><span class="sd">        The last configuration to be read (default None)</span>
+</span><span id="read_dSdm-524"><a href="#read_dSdm-524"><span class="linenos">524</span></a><span class="sd">    step : int</span>
+</span><span id="read_dSdm-525"><a href="#read_dSdm-525"><span class="linenos">525</span></a><span class="sd">        Fixed step size between two measurements (default 1)</span>
+</span><span id="read_dSdm-526"><a href="#read_dSdm-526"><span class="linenos">526</span></a><span class="sd">    alternative_ensemble_name : str</span>
+</span><span id="read_dSdm-527"><a href="#read_dSdm-527"><span class="linenos">527</span></a><span class="sd">        Manually overwrite ensemble name</span>
+</span><span id="read_dSdm-528"><a href="#read_dSdm-528"><span class="linenos">528</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_dSdm-529"><a href="#read_dSdm-529"><span class="linenos">529</span></a>
+</span><span id="read_dSdm-530"><a href="#read_dSdm-530"><span class="linenos">530</span></a>    <span class="n">start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;start&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="read_dSdm-531"><a href="#read_dSdm-531"><span class="linenos">531</span></a>    <span class="n">stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="read_dSdm-532"><a href="#read_dSdm-532"><span class="linenos">532</span></a>    <span class="n">step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;step&#39;</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="read_dSdm-533"><a href="#read_dSdm-533"><span class="linenos">533</span></a>
+</span><span id="read_dSdm-534"><a href="#read_dSdm-534"><span class="linenos">534</span></a>    <span class="n">bdio</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">cdll</span><span class="o">.</span><span class="n">LoadLibrary</span><span class="p">(</span><span class="n">bdio_path</span><span class="p">)</span>
+</span><span id="read_dSdm-535"><a href="#read_dSdm-535"><span class="linenos">535</span></a>
+</span><span id="read_dSdm-536"><a href="#read_dSdm-536"><span class="linenos">536</span></a>    <span class="n">bdio_open</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_open</span>
+</span><span id="read_dSdm-537"><a href="#read_dSdm-537"><span class="linenos">537</span></a>    <span class="n">bdio_open</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span>
+</span><span id="read_dSdm-538"><a href="#read_dSdm-538"><span class="linenos">538</span></a>
+</span><span id="read_dSdm-539"><a href="#read_dSdm-539"><span class="linenos">539</span></a>    <span class="n">bdio_close</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_close</span>
+</span><span id="read_dSdm-540"><a href="#read_dSdm-540"><span class="linenos">540</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="read_dSdm-541"><a href="#read_dSdm-541"><span class="linenos">541</span></a>    <span class="n">bdio_close</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_dSdm-542"><a href="#read_dSdm-542"><span class="linenos">542</span></a>
+</span><span id="read_dSdm-543"><a href="#read_dSdm-543"><span class="linenos">543</span></a>    <span class="n">bdio_seek_record</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_seek_record</span>
+</span><span id="read_dSdm-544"><a href="#read_dSdm-544"><span class="linenos">544</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="read_dSdm-545"><a href="#read_dSdm-545"><span class="linenos">545</span></a>    <span class="n">bdio_seek_record</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_dSdm-546"><a href="#read_dSdm-546"><span class="linenos">546</span></a>
+</span><span id="read_dSdm-547"><a href="#read_dSdm-547"><span class="linenos">547</span></a>    <span class="n">bdio_get_rlen</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_rlen</span>
+</span><span id="read_dSdm-548"><a href="#read_dSdm-548"><span class="linenos">548</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="read_dSdm-549"><a href="#read_dSdm-549"><span class="linenos">549</span></a>    <span class="n">bdio_get_rlen</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_dSdm-550"><a href="#read_dSdm-550"><span class="linenos">550</span></a>
+</span><span id="read_dSdm-551"><a href="#read_dSdm-551"><span class="linenos">551</span></a>    <span class="n">bdio_get_ruinfo</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_get_ruinfo</span>
+</span><span id="read_dSdm-552"><a href="#read_dSdm-552"><span class="linenos">552</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_int</span>
+</span><span id="read_dSdm-553"><a href="#read_dSdm-553"><span class="linenos">553</span></a>    <span class="n">bdio_get_ruinfo</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_dSdm-554"><a href="#read_dSdm-554"><span class="linenos">554</span></a>
+</span><span id="read_dSdm-555"><a href="#read_dSdm-555"><span class="linenos">555</span></a>    <span class="n">bdio_read</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read</span>
+</span><span id="read_dSdm-556"><a href="#read_dSdm-556"><span class="linenos">556</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="read_dSdm-557"><a href="#read_dSdm-557"><span class="linenos">557</span></a>    <span class="n">bdio_read</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_dSdm-558"><a href="#read_dSdm-558"><span class="linenos">558</span></a>
+</span><span id="read_dSdm-559"><a href="#read_dSdm-559"><span class="linenos">559</span></a>    <span class="n">bdio_read_f64</span> <span class="o">=</span> <span class="n">bdio</span><span class="o">.</span><span class="n">bdio_read_f64</span>
+</span><span id="read_dSdm-560"><a href="#read_dSdm-560"><span class="linenos">560</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">restype</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span>
+</span><span id="read_dSdm-561"><a href="#read_dSdm-561"><span class="linenos">561</span></a>    <span class="n">bdio_read_f64</span><span class="o">.</span><span class="n">argtypes</span> <span class="o">=</span> <span class="p">[</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">]</span>
+</span><span id="read_dSdm-562"><a href="#read_dSdm-562"><span class="linenos">562</span></a>
+</span><span id="read_dSdm-563"><a href="#read_dSdm-563"><span class="linenos">563</span></a>    <span class="n">b_path</span> <span class="o">=</span> <span class="n">file_path</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="read_dSdm-564"><a href="#read_dSdm-564"><span class="linenos">564</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="s1">&#39;r&#39;</span>
+</span><span id="read_dSdm-565"><a href="#read_dSdm-565"><span class="linenos">565</span></a>    <span class="n">b_read</span> <span class="o">=</span> <span class="n">read</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="read_dSdm-566"><a href="#read_dSdm-566"><span class="linenos">566</span></a>    <span class="n">form</span> <span class="o">=</span> <span class="s1">&#39;Generic Correlator Format 1.0&#39;</span>
+</span><span id="read_dSdm-567"><a href="#read_dSdm-567"><span class="linenos">567</span></a>    <span class="n">b_form</span> <span class="o">=</span> <span class="n">form</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="read_dSdm-568"><a href="#read_dSdm-568"><span class="linenos">568</span></a>
+</span><span id="read_dSdm-569"><a href="#read_dSdm-569"><span class="linenos">569</span></a>    <span class="n">ensemble_name</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="read_dSdm-570"><a href="#read_dSdm-570"><span class="linenos">570</span></a>    <span class="n">volume</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># lattice volume</span>
+</span><span id="read_dSdm-571"><a href="#read_dSdm-571"><span class="linenos">571</span></a>    <span class="n">boundary_conditions</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_dSdm-572"><a href="#read_dSdm-572"><span class="linenos">572</span></a>    <span class="n">corr_name</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator names</span>
+</span><span id="read_dSdm-573"><a href="#read_dSdm-573"><span class="linenos">573</span></a>    <span class="n">corr_type</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains correlator data type (important for reading out numerical data)</span>
+</span><span id="read_dSdm-574"><a href="#read_dSdm-574"><span class="linenos">574</span></a>    <span class="n">corr_props</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator types (Component of corr_kappa)</span>
+</span><span id="read_dSdm-575"><a href="#read_dSdm-575"><span class="linenos">575</span></a>    <span class="n">d0</span> <span class="o">=</span> <span class="mi">0</span>  <span class="c1"># tvals</span>
+</span><span id="read_dSdm-576"><a href="#read_dSdm-576"><span class="linenos">576</span></a>    <span class="c1"># d1 = 0  # nnoise</span>
+</span><span id="read_dSdm-577"><a href="#read_dSdm-577"><span class="linenos">577</span></a>    <span class="n">prop_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains propagator kappas (Component of corr_kappa)</span>
+</span><span id="read_dSdm-578"><a href="#read_dSdm-578"><span class="linenos">578</span></a>    <span class="c1"># Check noise type for multiple replica?</span>
+</span><span id="read_dSdm-579"><a href="#read_dSdm-579"><span class="linenos">579</span></a>    <span class="n">corr_no</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
+</span><span id="read_dSdm-580"><a href="#read_dSdm-580"><span class="linenos">580</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_dSdm-581"><a href="#read_dSdm-581"><span class="linenos">581</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_dSdm-582"><a href="#read_dSdm-582"><span class="linenos">582</span></a>
+</span><span id="read_dSdm-583"><a href="#read_dSdm-583"><span class="linenos">583</span></a>    <span class="n">fbdio</span> <span class="o">=</span> <span class="n">bdio_open</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_path</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_read</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">b_form</span><span class="p">))</span>
+</span><span id="read_dSdm-584"><a href="#read_dSdm-584"><span class="linenos">584</span></a>
+</span><span id="read_dSdm-585"><a href="#read_dSdm-585"><span class="linenos">585</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Reading of bdio file started&#39;</span><span class="p">)</span>
+</span><span id="read_dSdm-586"><a href="#read_dSdm-586"><span class="linenos">586</span></a>    <span class="k">while</span> <span class="mi">1</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_dSdm-587"><a href="#read_dSdm-587"><span class="linenos">587</span></a>        <span class="n">bdio_seek_record</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="read_dSdm-588"><a href="#read_dSdm-588"><span class="linenos">588</span></a>        <span class="n">ruinfo</span> <span class="o">=</span> <span class="n">bdio_get_ruinfo</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="read_dSdm-589"><a href="#read_dSdm-589"><span class="linenos">589</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_dSdm-590"><a href="#read_dSdm-590"><span class="linenos">590</span></a>            <span class="c1"># EOF reached</span>
+</span><span id="read_dSdm-591"><a href="#read_dSdm-591"><span class="linenos">591</span></a>            <span class="k">break</span>
+</span><span id="read_dSdm-592"><a href="#read_dSdm-592"><span class="linenos">592</span></a>        <span class="n">rlen</span> <span class="o">=</span> <span class="n">bdio_get_rlen</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="read_dSdm-593"><a href="#read_dSdm-593"><span class="linenos">593</span></a>        <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">5</span><span class="p">:</span>
+</span><span id="read_dSdm-594"><a href="#read_dSdm-594"><span class="linenos">594</span></a>            <span class="n">d_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_double</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">+</span> <span class="n">d0</span><span class="p">)</span>
+</span><span id="read_dSdm-595"><a href="#read_dSdm-595"><span class="linenos">595</span></a>            <span class="n">pd_buf</span> <span class="o">=</span> <span class="n">d_buf</span><span class="p">()</span>
+</span><span id="read_dSdm-596"><a href="#read_dSdm-596"><span class="linenos">596</span></a>            <span class="n">ppd_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">))</span>
+</span><span id="read_dSdm-597"><a href="#read_dSdm-597"><span class="linenos">597</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read_f64</span><span class="p">(</span><span class="n">ppd_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="read_dSdm-598"><a href="#read_dSdm-598"><span class="linenos">598</span></a>            <span class="n">tmp_mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">pd_buf</span><span class="p">[</span><span class="mi">2</span><span class="p">:]))</span>
+</span><span id="read_dSdm-599"><a href="#read_dSdm-599"><span class="linenos">599</span></a>
+</span><span id="read_dSdm-600"><a href="#read_dSdm-600"><span class="linenos">600</span></a>            <span class="n">data</span><span class="p">[</span><span class="n">corr_no</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_mean</span><span class="p">)</span>
+</span><span id="read_dSdm-601"><a href="#read_dSdm-601"><span class="linenos">601</span></a>            <span class="n">corr_no</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="read_dSdm-602"><a href="#read_dSdm-602"><span class="linenos">602</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_dSdm-603"><a href="#read_dSdm-603"><span class="linenos">603</span></a>            <span class="n">alt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">create_string_buffer</span><span class="p">(</span><span class="mi">1024</span><span class="p">)</span>
+</span><span id="read_dSdm-604"><a href="#read_dSdm-604"><span class="linenos">604</span></a>            <span class="n">palt_buf</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_char_p</span><span class="p">(</span><span class="n">ctypes</span><span class="o">.</span><span class="n">addressof</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">))</span>
+</span><span id="read_dSdm-605"><a href="#read_dSdm-605"><span class="linenos">605</span></a>            <span class="n">iread</span> <span class="o">=</span> <span class="n">bdio_read</span><span class="p">(</span><span class="n">palt_buf</span><span class="p">,</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_size_t</span><span class="p">(</span><span class="n">rlen</span><span class="p">),</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="p">(</span><span class="n">fbdio</span><span class="p">))</span>
+</span><span id="read_dSdm-606"><a href="#read_dSdm-606"><span class="linenos">606</span></a>            <span class="k">if</span> <span class="n">rlen</span> <span class="o">!=</span> <span class="n">iread</span><span class="p">:</span>
+</span><span id="read_dSdm-607"><a href="#read_dSdm-607"><span class="linenos">607</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error&#39;</span><span class="p">)</span>
+</span><span id="read_dSdm-608"><a href="#read_dSdm-608"><span class="linenos">608</span></a>            <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">alt_buf</span><span class="p">):</span>
+</span><span id="read_dSdm-609"><a href="#read_dSdm-609"><span class="linenos">609</span></a>                <span class="k">if</span> <span class="n">item</span> <span class="o">==</span> <span class="sa">b</span><span class="s1">&#39;</span><span class="se">\x00</span><span class="s1">&#39;</span><span class="p">:</span>
+</span><span id="read_dSdm-610"><a href="#read_dSdm-610"><span class="linenos">610</span></a>                    <span class="n">alt_buf</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="sa">b</span><span class="s1">&#39; &#39;</span>
+</span><span id="read_dSdm-611"><a href="#read_dSdm-611"><span class="linenos">611</span></a>            <span class="n">tmp_string</span> <span class="o">=</span> <span class="p">(</span><span class="n">alt_buf</span><span class="p">[:]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s2">&quot;utf-8&quot;</span><span class="p">))</span><span class="o">.</span><span class="n">rstrip</span><span class="p">()</span>
+</span><span id="read_dSdm-612"><a href="#read_dSdm-612"><span class="linenos">612</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_dSdm-613"><a href="#read_dSdm-613"><span class="linenos">613</span></a>                <span class="n">creator</span> <span class="o">=</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CREATOR=&#39;</span><span class="p">)</span>
+</span><span id="read_dSdm-614"><a href="#read_dSdm-614"><span class="linenos">614</span></a>                <span class="n">ensemble_name</span> <span class="o">=</span> <span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;ENSEMBLE=&#39;</span><span class="p">)</span>
+</span><span id="read_dSdm-615"><a href="#read_dSdm-615"><span class="linenos">615</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L0=&#39;</span><span class="p">)))</span>
+</span><span id="read_dSdm-616"><a href="#read_dSdm-616"><span class="linenos">616</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L1=&#39;</span><span class="p">)))</span>
+</span><span id="read_dSdm-617"><a href="#read_dSdm-617"><span class="linenos">617</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L2=&#39;</span><span class="p">)))</span>
+</span><span id="read_dSdm-618"><a href="#read_dSdm-618"><span class="linenos">618</span></a>                <span class="n">volume</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;L3=&#39;</span><span class="p">)))</span>
+</span><span id="read_dSdm-619"><a href="#read_dSdm-619"><span class="linenos">619</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC0=&#39;</span><span class="p">))</span>
+</span><span id="read_dSdm-620"><a href="#read_dSdm-620"><span class="linenos">620</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC1=&#39;</span><span class="p">))</span>
+</span><span id="read_dSdm-621"><a href="#read_dSdm-621"><span class="linenos">621</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC2=&#39;</span><span class="p">))</span>
+</span><span id="read_dSdm-622"><a href="#read_dSdm-622"><span class="linenos">622</span></a>                <span class="n">boundary_conditions</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;BC3=&#39;</span><span class="p">))</span>
+</span><span id="read_dSdm-623"><a href="#read_dSdm-623"><span class="linenos">623</span></a>
+</span><span id="read_dSdm-624"><a href="#read_dSdm-624"><span class="linenos">624</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_dSdm-625"><a href="#read_dSdm-625"><span class="linenos">625</span></a>                <span class="n">corr_name</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_corr_name</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CORR_NAME=&#39;</span><span class="p">))</span>
+</span><span id="read_dSdm-626"><a href="#read_dSdm-626"><span class="linenos">626</span></a>                <span class="n">corr_type</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;DATATYPE=&#39;</span><span class="p">))</span>
+</span><span id="read_dSdm-627"><a href="#read_dSdm-627"><span class="linenos">627</span></a>                <span class="n">corr_props</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;PROP0=&#39;</span><span class="p">))</span>
+</span><span id="read_dSdm-628"><a href="#read_dSdm-628"><span class="linenos">628</span></a>                <span class="k">if</span> <span class="n">d0</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_dSdm-629"><a href="#read_dSdm-629"><span class="linenos">629</span></a>                    <span class="n">d0</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">))</span>
+</span><span id="read_dSdm-630"><a href="#read_dSdm-630"><span class="linenos">630</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="read_dSdm-631"><a href="#read_dSdm-631"><span class="linenos">631</span></a>                    <span class="k">if</span> <span class="n">d0</span> <span class="o">!=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;D0=&#39;</span><span class="p">)):</span>
+</span><span id="read_dSdm-632"><a href="#read_dSdm-632"><span class="linenos">632</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Error: Varying number of time values&#39;</span><span class="p">)</span>
+</span><span id="read_dSdm-633"><a href="#read_dSdm-633"><span class="linenos">633</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="read_dSdm-634"><a href="#read_dSdm-634"><span class="linenos">634</span></a>                <span class="n">prop_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;KAPPA=&#39;</span><span class="p">))</span>
+</span><span id="read_dSdm-635"><a href="#read_dSdm-635"><span class="linenos">635</span></a>            <span class="k">if</span> <span class="n">ruinfo</span> <span class="o">==</span> <span class="mi">4</span><span class="p">:</span>
+</span><span id="read_dSdm-636"><a href="#read_dSdm-636"><span class="linenos">636</span></a>                <span class="n">cnfg_no</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">_get_kwd</span><span class="p">(</span><span class="n">tmp_string</span><span class="p">,</span> <span class="s1">&#39;CNFG_ID=&#39;</span><span class="p">))</span>
+</span><span id="read_dSdm-637"><a href="#read_dSdm-637"><span class="linenos">637</span></a>                <span class="k">if</span> <span class="n">stop</span><span class="p">:</span>
+</span><span id="read_dSdm-638"><a href="#read_dSdm-638"><span class="linenos">638</span></a>                    <span class="k">if</span> <span class="n">cnfg_no</span> <span class="o">&gt;</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;stop&#39;</span><span class="p">):</span>
+</span><span id="read_dSdm-639"><a href="#read_dSdm-639"><span class="linenos">639</span></a>                        <span class="k">break</span>
+</span><span id="read_dSdm-640"><a href="#read_dSdm-640"><span class="linenos">640</span></a>                <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg_no</span><span class="p">)</span>
+</span><span id="read_dSdm-641"><a href="#read_dSdm-641"><span class="linenos">641</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\r</span><span class="si">%s</span><span class="s1"> </span><span class="si">%i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;Reading configuration&#39;</span><span class="p">,</span> <span class="n">cnfg_no</span><span class="p">),</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;</span><span class="se">\r</span><span class="s1">&#39;</span><span class="p">)</span>
+</span><span id="read_dSdm-642"><a href="#read_dSdm-642"><span class="linenos">642</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_dSdm-643"><a href="#read_dSdm-643"><span class="linenos">643</span></a>                    <span class="n">no_corrs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">)</span>
+</span><span id="read_dSdm-644"><a href="#read_dSdm-644"><span class="linenos">644</span></a>                    <span class="n">data</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_dSdm-645"><a href="#read_dSdm-645"><span class="linenos">645</span></a>                    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
+</span><span id="read_dSdm-646"><a href="#read_dSdm-646"><span class="linenos">646</span></a>                        <span class="n">data</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="read_dSdm-647"><a href="#read_dSdm-647"><span class="linenos">647</span></a>
+</span><span id="read_dSdm-648"><a href="#read_dSdm-648"><span class="linenos">648</span></a>                <span class="n">corr_no</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="read_dSdm-649"><a href="#read_dSdm-649"><span class="linenos">649</span></a>    <span class="n">bdio_close</span><span class="p">(</span><span class="n">fbdio</span><span class="p">)</span>
+</span><span id="read_dSdm-650"><a href="#read_dSdm-650"><span class="linenos">650</span></a>
+</span><span id="read_dSdm-651"><a href="#read_dSdm-651"><span class="linenos">651</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">Creator: &#39;</span><span class="p">,</span> <span class="n">creator</span><span class="p">)</span>
+</span><span id="read_dSdm-652"><a href="#read_dSdm-652"><span class="linenos">652</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Ensemble: &#39;</span><span class="p">,</span> <span class="n">ensemble_name</span><span class="p">)</span>
+</span><span id="read_dSdm-653"><a href="#read_dSdm-653"><span class="linenos">653</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Lattice volume: &#39;</span><span class="p">,</span> <span class="n">volume</span><span class="p">)</span>
+</span><span id="read_dSdm-654"><a href="#read_dSdm-654"><span class="linenos">654</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Boundary conditions: &#39;</span><span class="p">,</span> <span class="n">boundary_conditions</span><span class="p">)</span>
+</span><span id="read_dSdm-655"><a href="#read_dSdm-655"><span class="linenos">655</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of random sources: &#39;</span><span class="p">,</span> <span class="n">d0</span><span class="p">)</span>
+</span><span id="read_dSdm-656"><a href="#read_dSdm-656"><span class="linenos">656</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of corrs: &#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">corr_name</span><span class="p">))</span>
+</span><span id="read_dSdm-657"><a href="#read_dSdm-657"><span class="linenos">657</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Number of configurations: &#39;</span><span class="p">,</span> <span class="n">cnfg_no</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="read_dSdm-658"><a href="#read_dSdm-658"><span class="linenos">658</span></a>
+</span><span id="read_dSdm-659"><a href="#read_dSdm-659"><span class="linenos">659</span></a>    <span class="n">corr_kappa</span> <span class="o">=</span> <span class="p">[]</span>  <span class="c1"># Contains kappa values for both propagators of given correlation function</span>
+</span><span id="read_dSdm-660"><a href="#read_dSdm-660"><span class="linenos">660</span></a>    <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">corr_props</span><span class="p">:</span>
+</span><span id="read_dSdm-661"><a href="#read_dSdm-661"><span class="linenos">661</span></a>        <span class="n">corr_kappa</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">float</span><span class="p">(</span><span class="n">prop_kappa</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">item</span><span class="p">)]))</span>
+</span><span id="read_dSdm-662"><a href="#read_dSdm-662"><span class="linenos">662</span></a>
+</span><span id="read_dSdm-663"><a href="#read_dSdm-663"><span class="linenos">663</span></a>    <span class="k">if</span> <span class="n">stop</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_dSdm-664"><a href="#read_dSdm-664"><span class="linenos">664</span></a>        <span class="n">stop</span> <span class="o">=</span> <span class="n">idl</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="read_dSdm-665"><a href="#read_dSdm-665"><span class="linenos">665</span></a>    <span class="n">idl_target</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">start</span><span class="p">,</span> <span class="n">stop</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">step</span><span class="p">)</span>
+</span><span id="read_dSdm-666"><a href="#read_dSdm-666"><span class="linenos">666</span></a>    <span class="k">try</span><span class="p">:</span>
+</span><span id="read_dSdm-667"><a href="#read_dSdm-667"><span class="linenos">667</span></a>        <span class="n">indices</span> <span class="o">=</span> <span class="p">[</span><span class="n">idl</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">idl_target</span><span class="p">]</span>
+</span><span id="read_dSdm-668"><a href="#read_dSdm-668"><span class="linenos">668</span></a>    <span class="k">except</span> <span class="ne">ValueError</span> <span class="k">as</span> <span class="n">err</span><span class="p">:</span>
+</span><span id="read_dSdm-669"><a href="#read_dSdm-669"><span class="linenos">669</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Configurations in file do no match target list!&#39;</span><span class="p">,</span> <span class="n">err</span><span class="p">)</span>
+</span><span id="read_dSdm-670"><a href="#read_dSdm-670"><span class="linenos">670</span></a>
+</span><span id="read_dSdm-671"><a href="#read_dSdm-671"><span class="linenos">671</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="read_dSdm-672"><a href="#read_dSdm-672"><span class="linenos">672</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_corrs</span><span class="p">):</span>
+</span><span id="read_dSdm-673"><a href="#read_dSdm-673"><span class="linenos">673</span></a>        <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="n">c</span><span class="p">])[</span><span class="n">index</span><span class="p">]</span> <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">indices</span><span class="p">]</span>
+</span><span id="read_dSdm-674"><a href="#read_dSdm-674"><span class="linenos">674</span></a>        <span class="n">result</span><span class="p">[(</span><span class="n">corr_name</span><span class="p">[</span><span class="n">c</span><span class="p">],</span> <span class="nb">str</span><span class="p">(</span><span class="n">corr_kappa</span><span class="p">[</span><span class="n">c</span><span class="p">]))]</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">deltas</span><span class="p">],</span> <span class="p">[</span><span class="n">ensemble_name</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idl_target</span><span class="p">])</span>
+</span><span id="read_dSdm-675"><a href="#read_dSdm-675"><span class="linenos">675</span></a>
+</span><span id="read_dSdm-676"><a href="#read_dSdm-676"><span class="linenos">676</span></a>    <span class="c1"># Check that all data entries have the same number of configurations</span>
+</span><span id="read_dSdm-677"><a href="#read_dSdm-677"><span class="linenos">677</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">N</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">result</span><span class="o">.</span><span class="n">values</span><span class="p">())]))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_dSdm-678"><a href="#read_dSdm-678"><span class="linenos">678</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not all correlators have the same number of configurations. bdio file is possibly corrupted.&#39;</span><span class="p">)</span>
+</span><span id="read_dSdm-679"><a href="#read_dSdm-679"><span class="linenos">679</span></a>
+</span><span id="read_dSdm-680"><a href="#read_dSdm-680"><span class="linenos">680</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Extract dSdm data from a bdio file and return it as a dictionary</p>
 
diff --git a/docs/pyerrors/input/dobs.html b/docs/pyerrors/input/dobs.html
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@@ -85,983 +85,984 @@
 <a href="./../../pyerrors.html">pyerrors</a><wbr>.<a href="./../input.html">input</a><wbr>.dobs    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">  0</span></a><span class="kn">from</span> <span class="nn">collections</span> <span class="kn">import</span> <span class="n">defaultdict</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">gzip</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">lxml.etree</span> <span class="k">as</span> <span class="nn">et</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">getpass</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">socket</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">import</span> <span class="nn">datetime</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="kn">import</span> <span class="nn">json</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="kn">import</span> <span class="nn">warnings</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">_merge_idx</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="kn">from</span> <span class="nn">..covobs</span> <span class="kn">import</span> <span class="n">Covobs</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="kn">from</span> <span class="nn">..</span> <span class="kn">import</span> <span class="n">version</span> <span class="k">as</span> <span class="n">pyerrorsversion</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a>
+                        <input id="dobs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="dobs-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">from</span> <span class="nn">collections</span> <span class="kn">import</span> <span class="n">defaultdict</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">gzip</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">lxml.etree</span> <span class="k">as</span> <span class="nn">et</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">getpass</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">import</span> <span class="nn">socket</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="kn">import</span> <span class="nn">datetime</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="kn">import</span> <span class="nn">json</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="kn">import</span> <span class="nn">warnings</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">_merge_idx</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="kn">from</span> <span class="nn">..covobs</span> <span class="kn">import</span> <span class="n">Covobs</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="kn">from</span> <span class="nn">..</span> <span class="kn">import</span> <span class="n">version</span> <span class="k">as</span> <span class="n">pyerrorsversion</span>
 </span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a>
-</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="c1"># Based on https://stackoverflow.com/a/10076823</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="k">def</span> <span class="nf">_etree_to_dict</span><span class="p">(</span><span class="n">t</span><span class="p">):</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a>    <span class="sd">&quot;&quot;&quot; Convert the content of an XML file to a python dict&quot;&quot;&quot;</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a>    <span class="n">d</span> <span class="o">=</span> <span class="p">{</span><span class="n">t</span><span class="o">.</span><span class="n">tag</span><span class="p">:</span> <span class="p">{}</span> <span class="k">if</span> <span class="n">t</span><span class="o">.</span><span class="n">attrib</span> <span class="k">else</span> <span class="kc">None</span><span class="p">}</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>    <span class="n">children</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t</span><span class="p">)</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a>    <span class="k">if</span> <span class="n">children</span><span class="p">:</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a>        <span class="n">dd</span> <span class="o">=</span> <span class="n">defaultdict</span><span class="p">(</span><span class="nb">list</span><span class="p">)</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>        <span class="k">for</span> <span class="n">dc</span> <span class="ow">in</span> <span class="nb">map</span><span class="p">(</span><span class="n">_etree_to_dict</span><span class="p">,</span> <span class="n">children</span><span class="p">):</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>            <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">dc</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>                <span class="n">dd</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{</span><span class="n">t</span><span class="o">.</span><span class="n">tag</span><span class="p">:</span> <span class="p">{</span><span class="n">k</span><span class="p">:</span> <span class="n">v</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">v</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span> <span class="k">else</span> <span class="n">v</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>                     <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">dd</span><span class="o">.</span><span class="n">items</span><span class="p">()}}</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>    <span class="k">if</span> <span class="n">t</span><span class="o">.</span><span class="n">attrib</span><span class="p">:</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>        <span class="n">d</span><span class="p">[</span><span class="n">t</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span><span class="o">.</span><span class="n">update</span><span class="p">((</span><span class="s1">&#39;@&#39;</span> <span class="o">+</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span><span class="p">)</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>                        <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">t</span><span class="o">.</span><span class="n">attrib</span><span class="o">.</span><span class="n">items</span><span class="p">())</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>    <span class="k">if</span> <span class="n">t</span><span class="o">.</span><span class="n">text</span><span class="p">:</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>        <span class="n">text</span> <span class="o">=</span> <span class="n">t</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>        <span class="k">if</span> <span class="n">children</span> <span class="ow">or</span> <span class="n">t</span><span class="o">.</span><span class="n">attrib</span><span class="p">:</span>
-</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>            <span class="k">if</span> <span class="n">text</span><span class="p">:</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>                <span class="n">d</span><span class="p">[</span><span class="n">t</span><span class="o">.</span><span class="n">tag</span><span class="p">][</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">text</span><span class="p">]</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>            <span class="n">d</span><span class="p">[</span><span class="n">t</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span> <span class="o">=</span> <span class="n">text</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>    <span class="k">return</span> <span class="n">d</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>
+</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a>
+</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="c1"># Based on https://stackoverflow.com/a/10076823</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="k">def</span> <span class="nf">_etree_to_dict</span><span class="p">(</span><span class="n">t</span><span class="p">):</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a>    <span class="sd">&quot;&quot;&quot; Convert the content of an XML file to a python dict&quot;&quot;&quot;</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>    <span class="n">d</span> <span class="o">=</span> <span class="p">{</span><span class="n">t</span><span class="o">.</span><span class="n">tag</span><span class="p">:</span> <span class="p">{}</span> <span class="k">if</span> <span class="n">t</span><span class="o">.</span><span class="n">attrib</span> <span class="k">else</span> <span class="kc">None</span><span class="p">}</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a>    <span class="n">children</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t</span><span class="p">)</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a>    <span class="k">if</span> <span class="n">children</span><span class="p">:</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>        <span class="n">dd</span> <span class="o">=</span> <span class="n">defaultdict</span><span class="p">(</span><span class="nb">list</span><span class="p">)</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>        <span class="k">for</span> <span class="n">dc</span> <span class="ow">in</span> <span class="nb">map</span><span class="p">(</span><span class="n">_etree_to_dict</span><span class="p">,</span> <span class="n">children</span><span class="p">):</span>
+</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>            <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">dc</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>                <span class="n">dd</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{</span><span class="n">t</span><span class="o">.</span><span class="n">tag</span><span class="p">:</span> <span class="p">{</span><span class="n">k</span><span class="p">:</span> <span class="n">v</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">v</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span> <span class="k">else</span> <span class="n">v</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>                     <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">dd</span><span class="o">.</span><span class="n">items</span><span class="p">()}}</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>    <span class="k">if</span> <span class="n">t</span><span class="o">.</span><span class="n">attrib</span><span class="p">:</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>        <span class="n">d</span><span class="p">[</span><span class="n">t</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span><span class="o">.</span><span class="n">update</span><span class="p">((</span><span class="s1">&#39;@&#39;</span> <span class="o">+</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span><span class="p">)</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>                        <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">t</span><span class="o">.</span><span class="n">attrib</span><span class="o">.</span><span class="n">items</span><span class="p">())</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>    <span class="k">if</span> <span class="n">t</span><span class="o">.</span><span class="n">text</span><span class="p">:</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>        <span class="n">text</span> <span class="o">=</span> <span class="n">t</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>        <span class="k">if</span> <span class="n">children</span> <span class="ow">or</span> <span class="n">t</span><span class="o">.</span><span class="n">attrib</span><span class="p">:</span>
+</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>            <span class="k">if</span> <span class="n">text</span><span class="p">:</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>                <span class="n">d</span><span class="p">[</span><span class="n">t</span><span class="o">.</span><span class="n">tag</span><span class="p">][</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">text</span><span class="p">]</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>            <span class="n">d</span><span class="p">[</span><span class="n">t</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span> <span class="o">=</span> <span class="n">text</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>    <span class="k">return</span> <span class="n">d</span>
 </span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>
-</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a><span class="k">def</span> <span class="nf">_dict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>        <span class="n">iters</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>        <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="n">d</span><span class="p">:</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>            <span class="k">if</span> <span class="n">k</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;#&#39;</span><span class="p">):</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>                <span class="k">for</span> <span class="n">la</span> <span class="ow">in</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]:</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="n">la</span>
-</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>                <span class="n">iters</span> <span class="o">=</span> <span class="s1">&#39;&lt;array&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">iters</span> <span class="o">+</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">array&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">)</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>                <span class="k">return</span> <span class="n">iters</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="nb">dict</span><span class="p">):</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>                <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">_dict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])</span> <span class="o">+</span> <span class="s1">&#39;&lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])</span> <span class="o">&gt;</span> <span class="mi">100</span><span class="p">:</span>
-</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; </span><span class="se">\n</span><span class="s1">&lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt; &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; &lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])):</span>
-</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="n">_dict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>            <span class="k">elif</span> <span class="ow">not</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]:</span>
-</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>                <span class="k">return</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Type&#39;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]),</span> <span class="s1">&#39;not supported in export!&#39;</span><span class="p">)</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Type&#39;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">d</span><span class="p">),</span> <span class="s1">&#39;not supported in export!&#39;</span><span class="p">)</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>    <span class="k">return</span> <span class="n">iters</span>
-</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>
+</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>
+</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a><span class="k">def</span> <span class="nf">_dict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>        <span class="n">iters</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>        <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="n">d</span><span class="p">:</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>            <span class="k">if</span> <span class="n">k</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;#&#39;</span><span class="p">):</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>                <span class="k">for</span> <span class="n">la</span> <span class="ow">in</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]:</span>
+</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="n">la</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>                <span class="n">iters</span> <span class="o">=</span> <span class="s1">&#39;&lt;array&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">iters</span> <span class="o">+</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">array&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">)</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>                <span class="k">return</span> <span class="n">iters</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="nb">dict</span><span class="p">):</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>                <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">_dict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])</span> <span class="o">+</span> <span class="s1">&#39;&lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])</span> <span class="o">&gt;</span> <span class="mi">100</span><span class="p">:</span>
+</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; </span><span class="se">\n</span><span class="s1">&lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt; &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; &lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])):</span>
+</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="n">_dict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>            <span class="k">elif</span> <span class="ow">not</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]:</span>
+</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>                <span class="k">return</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Type&#39;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]),</span> <span class="s1">&#39;not supported in export!&#39;</span><span class="p">)</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Type&#39;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">d</span><span class="p">),</span> <span class="s1">&#39;not supported in export!&#39;</span><span class="p">)</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>    <span class="k">return</span> <span class="n">iters</span>
 </span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>
-</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a><span class="k">def</span> <span class="nf">_dict_to_xmlstring_spaces</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">space</span><span class="o">=</span><span class="s1">&#39;  &#39;</span><span class="p">):</span>
-</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>    <span class="n">s</span> <span class="o">=</span> <span class="n">_dict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">)</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>    <span class="n">o</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>    <span class="n">c</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>    <span class="n">cm</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>    <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">s</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">):</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>        <span class="k">if</span> <span class="n">li</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">)):</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>            <span class="n">c</span> <span class="o">-=</span> <span class="mi">1</span>
-</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>            <span class="n">cm</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">c</span><span class="p">):</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>            <span class="n">o</span> <span class="o">+=</span> <span class="n">space</span>
-</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>        <span class="n">o</span> <span class="o">+=</span> <span class="n">li</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>        <span class="k">if</span> <span class="n">li</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;&lt;&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">cm</span><span class="p">:</span>
-</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">)</span> <span class="ow">in</span> <span class="n">li</span><span class="p">:</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>                <span class="n">c</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>        <span class="n">cm</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>    <span class="k">return</span> <span class="n">o</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>
+</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>
+</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a><span class="k">def</span> <span class="nf">_dict_to_xmlstring_spaces</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">space</span><span class="o">=</span><span class="s1">&#39;  &#39;</span><span class="p">):</span>
+</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>    <span class="n">s</span> <span class="o">=</span> <span class="n">_dict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">)</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>    <span class="n">o</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>    <span class="n">c</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>    <span class="n">cm</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>    <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">s</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">):</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>        <span class="k">if</span> <span class="n">li</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">)):</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>            <span class="n">c</span> <span class="o">-=</span> <span class="mi">1</span>
+</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>            <span class="n">cm</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">c</span><span class="p">):</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>            <span class="n">o</span> <span class="o">+=</span> <span class="n">space</span>
+</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>        <span class="n">o</span> <span class="o">+=</span> <span class="n">li</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>        <span class="k">if</span> <span class="n">li</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;&lt;&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">cm</span><span class="p">:</span>
+</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">)</span> <span class="ow">in</span> <span class="n">li</span><span class="p">:</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>                <span class="n">c</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>        <span class="n">cm</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>    <span class="k">return</span> <span class="n">o</span>
 </span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>
-</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a><span class="k">def</span> <span class="nf">create_pobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">enstag</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to an xml string</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a><span class="sd">    according to the Zeuthen pobs format.</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>
-</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a><span class="sd">    Tags are not written or recovered automatically. The separator | is removed from the replica names.</span>
-</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>
-</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a><span class="sd">    Parameters</span>
-</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a><span class="sd">    ----------</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a><span class="sd">    obsl : list</span>
-</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a><span class="sd">        List of Obs that will be exported.</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a><span class="sd">        The Obs inside a structure have to be defined on the same ensemble.</span>
-</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a><span class="sd">    name : str</span>
-</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a><span class="sd">        The name of the observable.</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a><span class="sd">    spec : str</span>
-</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a><span class="sd">    origin : str</span>
-</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a><span class="sd">        Specify where the data has its origin.</span>
-</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a><span class="sd">    symbol : list</span>
-</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
-</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a><span class="sd">    enstag : str</span>
-</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a><span class="sd">        Enstag that is written to pobs. If None, the ensemble name is used.</span>
-</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>
-</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>    <span class="n">od</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>    <span class="n">ename</span> <span class="o">=</span> <span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">e_names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
-</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>    <span class="n">nr</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
-</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>    <span class="n">onames</span> <span class="o">=</span> <span class="p">[</span><span class="n">name</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">]</span>
-</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
-</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You try to export dobs to obs!&#39;</span><span class="p">)</span>
-</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">e_names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">!=</span> <span class="n">ename</span><span class="p">:</span>
-</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You try to export dobs to obs!&#39;</span><span class="p">)</span>
-</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span> <span class="o">!=</span> <span class="n">nr</span><span class="p">:</span>
-</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Incompatible obses in list&#39;</span><span class="p">)</span>
-</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;schema&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="s1">&#39;lattobs&#39;</span><span class="p">,</span> <span class="s1">&#39;version&#39;</span><span class="p">:</span> <span class="s1">&#39;1.0&#39;</span><span class="p">}</span>
-</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span>
-</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>        <span class="s1">&#39;who&#39;</span><span class="p">:</span> <span class="n">getpass</span><span class="o">.</span><span class="n">getuser</span><span class="p">(),</span>
-</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>        <span class="s1">&#39;date&#39;</span><span class="p">:</span> <span class="nb">str</span><span class="p">(</span><span class="n">datetime</span><span class="o">.</span><span class="n">datetime</span><span class="o">.</span><span class="n">now</span><span class="p">())[:</span><span class="o">-</span><span class="mi">7</span><span class="p">],</span>
-</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>        <span class="s1">&#39;host&#39;</span><span class="p">:</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">(),</span>
-</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>        <span class="s1">&#39;tool&#39;</span><span class="p">:</span> <span class="p">{</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="s1">&#39;pyerrors&#39;</span><span class="p">,</span> <span class="s1">&#39;version&#39;</span><span class="p">:</span> <span class="n">pyerrorsversion</span><span class="o">.</span><span class="n">__version__</span><span class="p">}}</span>
-</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;pobs&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>    <span class="n">pd</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;pobs&#39;</span><span class="p">]</span>
-</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;spec&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">spec</span>
-</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">origin</span>
-</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>    <span class="k">if</span> <span class="n">enstag</span><span class="p">:</span>
-</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">enstag</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;enstag has to be a string!&#39;</span><span class="p">)</span>
-</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;enstag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">enstag</span>
-</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;enstag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ename</span>
-</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;nr&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">nr</span><span class="p">)</span>
-</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>    <span class="n">osymbol</span> <span class="o">=</span> <span class="s1">&#39;cfg&#39;</span>
-</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">symbol</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list!&#39;</span><span class="p">)</span>
-</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)):</span>
-</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list of lenght 0 or </span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)))</span>
-</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>    <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">symbol</span><span class="p">:</span>
-</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>        <span class="n">osymbol</span> <span class="o">+=</span> <span class="s1">&#39; </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="n">s</span>
-</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>    <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nr</span><span class="p">):</span>
-</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>        <span class="n">ad</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">onames</span><span class="p">[</span><span class="n">r</span><span class="p">]</span>
-</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>        <span class="n">Nconf</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]])</span>
-</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>        <span class="n">layout</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> i f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">Nconf</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
-</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">layout</span>
-</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">osymbol</span>
-</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>        <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Nconf</span><span class="p">):</span>
-</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]][</span><span class="n">c</span><span class="p">]</span>
-</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>            <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
-</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>                <span class="n">num</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]][</span><span class="n">c</span><span class="p">]</span> <span class="o">+</span> <span class="n">o</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]]</span>
-</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a>                <span class="k">if</span> <span class="n">num</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>                    <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>                    <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.16e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">num</span><span class="p">)</span>
-</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
-</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ad</span><span class="p">)</span>
-</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>
-</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>    <span class="n">rs</span> <span class="o">=</span> <span class="s1">&#39;&lt;?xml version=&quot;1.0&quot; encoding=&quot;utf-8&quot;?&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">_dict_to_xmlstring_spaces</span><span class="p">(</span><span class="n">od</span><span class="p">)</span>
-</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>    <span class="k">return</span> <span class="n">rs</span>
-</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>
+</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>
+</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a><span class="k">def</span> <span class="nf">create_pobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">enstag</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to an xml string</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a><span class="sd">    according to the Zeuthen pobs format.</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>
+</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a><span class="sd">    Tags are not written or recovered automatically. The separator | is removed from the replica names.</span>
+</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>
+</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a><span class="sd">    Parameters</span>
+</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a><span class="sd">    ----------</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a><span class="sd">    obsl : list</span>
+</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a><span class="sd">        List of Obs that will be exported.</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a><span class="sd">        The Obs inside a structure have to be defined on the same ensemble.</span>
+</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a><span class="sd">    name : str</span>
+</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a><span class="sd">        The name of the observable.</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a><span class="sd">    spec : str</span>
+</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a><span class="sd">    origin : str</span>
+</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a><span class="sd">        Specify where the data has its origin.</span>
+</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a><span class="sd">    symbol : list</span>
+</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
+</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a><span class="sd">    enstag : str</span>
+</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a><span class="sd">        Enstag that is written to pobs. If None, the ensemble name is used.</span>
+</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>
+</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>    <span class="n">od</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>    <span class="n">ename</span> <span class="o">=</span> <span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">e_names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
+</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>    <span class="n">nr</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
+</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>    <span class="n">onames</span> <span class="o">=</span> <span class="p">[</span><span class="n">name</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">]</span>
+</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
+</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You try to export dobs to obs!&#39;</span><span class="p">)</span>
+</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">e_names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">!=</span> <span class="n">ename</span><span class="p">:</span>
+</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You try to export dobs to obs!&#39;</span><span class="p">)</span>
+</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span> <span class="o">!=</span> <span class="n">nr</span><span class="p">:</span>
+</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Incompatible obses in list&#39;</span><span class="p">)</span>
+</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;schema&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="s1">&#39;lattobs&#39;</span><span class="p">,</span> <span class="s1">&#39;version&#39;</span><span class="p">:</span> <span class="s1">&#39;1.0&#39;</span><span class="p">}</span>
+</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span>
+</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>        <span class="s1">&#39;who&#39;</span><span class="p">:</span> <span class="n">getpass</span><span class="o">.</span><span class="n">getuser</span><span class="p">(),</span>
+</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>        <span class="s1">&#39;date&#39;</span><span class="p">:</span> <span class="nb">str</span><span class="p">(</span><span class="n">datetime</span><span class="o">.</span><span class="n">datetime</span><span class="o">.</span><span class="n">now</span><span class="p">())[:</span><span class="o">-</span><span class="mi">7</span><span class="p">],</span>
+</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>        <span class="s1">&#39;host&#39;</span><span class="p">:</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">(),</span>
+</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>        <span class="s1">&#39;tool&#39;</span><span class="p">:</span> <span class="p">{</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="s1">&#39;pyerrors&#39;</span><span class="p">,</span> <span class="s1">&#39;version&#39;</span><span class="p">:</span> <span class="n">pyerrorsversion</span><span class="o">.</span><span class="n">__version__</span><span class="p">}}</span>
+</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;pobs&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>    <span class="n">pd</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;pobs&#39;</span><span class="p">]</span>
+</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;spec&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">spec</span>
+</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">origin</span>
+</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>    <span class="k">if</span> <span class="n">enstag</span><span class="p">:</span>
+</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">enstag</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;enstag has to be a string!&#39;</span><span class="p">)</span>
+</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;enstag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">enstag</span>
+</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;enstag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ename</span>
+</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;nr&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">nr</span><span class="p">)</span>
+</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>    <span class="n">osymbol</span> <span class="o">=</span> <span class="s1">&#39;cfg&#39;</span>
+</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">symbol</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list!&#39;</span><span class="p">)</span>
+</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)):</span>
+</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list of lenght 0 or </span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)))</span>
+</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>    <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">symbol</span><span class="p">:</span>
+</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>        <span class="n">osymbol</span> <span class="o">+=</span> <span class="s1">&#39; </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="n">s</span>
+</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>    <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nr</span><span class="p">):</span>
+</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>        <span class="n">ad</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">onames</span><span class="p">[</span><span class="n">r</span><span class="p">]</span>
+</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>        <span class="n">Nconf</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]])</span>
+</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>        <span class="n">layout</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> i f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">Nconf</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
+</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">layout</span>
+</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">osymbol</span>
+</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>        <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Nconf</span><span class="p">):</span>
+</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]][</span><span class="n">c</span><span class="p">]</span>
+</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>            <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
+</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a>                <span class="n">num</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]][</span><span class="n">c</span><span class="p">]</span> <span class="o">+</span> <span class="n">o</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]]</span>
+</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>                <span class="k">if</span> <span class="n">num</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>                    <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>                    <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.16e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">num</span><span class="p">)</span>
+</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
+</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ad</span><span class="p">)</span>
+</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>
+</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>    <span class="n">rs</span> <span class="o">=</span> <span class="s1">&#39;&lt;?xml version=&quot;1.0&quot; encoding=&quot;utf-8&quot;?&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">_dict_to_xmlstring_spaces</span><span class="p">(</span><span class="n">od</span><span class="p">)</span>
+</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>    <span class="k">return</span> <span class="n">rs</span>
 </span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>
-</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a><span class="k">def</span> <span class="nf">write_pobs</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">enstag</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to a .xml.gz file</span>
-</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a><span class="sd">    according to the Zeuthen pobs format.</span>
-</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>
-</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a><span class="sd">    Tags are not written or recovered automatically. The separator | is removed from the replica names.</span>
-</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>
-</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a><span class="sd">    Parameters</span>
-</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a><span class="sd">    ----------</span>
-</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a><span class="sd">    obsl : list</span>
-</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a><span class="sd">        List of Obs that will be exported.</span>
-</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a><span class="sd">        The Obs inside a structure have to be defined on the same ensemble.</span>
-</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a><span class="sd">    fname : str</span>
-</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a><span class="sd">        Filename of the output file.</span>
-</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a><span class="sd">    name : str</span>
-</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a><span class="sd">        The name of the observable.</span>
-</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a><span class="sd">    spec : str</span>
-</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
-</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a><span class="sd">    origin : str</span>
-</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a><span class="sd">        Specify where the data has its origin.</span>
-</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a><span class="sd">    symbol : list</span>
-</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
-</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a><span class="sd">    enstag : str</span>
-</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a><span class="sd">        Enstag that is written to pobs. If None, the ensemble name is used.</span>
-</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a><span class="sd">    gz : bool</span>
-</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a><span class="sd">        If True, the output is a gzipped xml. If False, the output is an xml file.</span>
-</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>    <span class="n">pobsstring</span> <span class="o">=</span> <span class="n">create_pobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="p">,</span> <span class="n">origin</span><span class="p">,</span> <span class="n">symbol</span><span class="p">,</span> <span class="n">enstag</span><span class="p">)</span>
-</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>
-</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
-</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>
-</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
-</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
-</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>
-</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
-</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">pobsstring</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span>
-</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">pobsstring</span><span class="p">)</span>
-</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>    <span class="n">fp</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>
+</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>
+</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a><span class="k">def</span> <span class="nf">write_pobs</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">enstag</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to a .xml.gz file</span>
+</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a><span class="sd">    according to the Zeuthen pobs format.</span>
+</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>
+</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a><span class="sd">    Tags are not written or recovered automatically. The separator | is removed from the replica names.</span>
+</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>
+</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a><span class="sd">    Parameters</span>
+</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a><span class="sd">    ----------</span>
+</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a><span class="sd">    obsl : list</span>
+</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a><span class="sd">        List of Obs that will be exported.</span>
+</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a><span class="sd">        The Obs inside a structure have to be defined on the same ensemble.</span>
+</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a><span class="sd">    fname : str</span>
+</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a><span class="sd">        Filename of the output file.</span>
+</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a><span class="sd">    name : str</span>
+</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a><span class="sd">        The name of the observable.</span>
+</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a><span class="sd">    spec : str</span>
+</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
+</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a><span class="sd">    origin : str</span>
+</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a><span class="sd">        Specify where the data has its origin.</span>
+</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a><span class="sd">    symbol : list</span>
+</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
+</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a><span class="sd">    enstag : str</span>
+</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a><span class="sd">        Enstag that is written to pobs. If None, the ensemble name is used.</span>
+</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a><span class="sd">    gz : bool</span>
+</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a><span class="sd">        If True, the output is a gzipped xml. If False, the output is an xml file.</span>
+</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>    <span class="n">pobsstring</span> <span class="o">=</span> <span class="n">create_pobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="p">,</span> <span class="n">origin</span><span class="p">,</span> <span class="n">symbol</span><span class="p">,</span> <span class="n">enstag</span><span class="p">)</span>
+</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>
+</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
+</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>
+</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
+</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
+</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>
+</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
+</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">pobsstring</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span>
+</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">pobsstring</span><span class="p">)</span>
+</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>    <span class="n">fp</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
 </span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>
-</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a><span class="k">def</span> <span class="nf">_import_data</span><span class="p">(</span><span class="n">string</span><span class="p">):</span>
-</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>    <span class="k">return</span> <span class="n">json</span><span class="o">.</span><span class="n">loads</span><span class="p">(</span><span class="s2">&quot;[&quot;</span> <span class="o">+</span> <span class="s2">&quot;,&quot;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">string</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s1">&#39; +&#39;</span><span class="p">,</span> <span class="s1">&#39; &#39;</span><span class="p">)</span><span class="o">.</span><span class="n">split</span><span class="p">())</span> <span class="o">+</span> <span class="s2">&quot;]&quot;</span><span class="p">)</span>
-</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>
+</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>
+</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a><span class="k">def</span> <span class="nf">_import_data</span><span class="p">(</span><span class="n">string</span><span class="p">):</span>
+</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>    <span class="k">return</span> <span class="n">json</span><span class="o">.</span><span class="n">loads</span><span class="p">(</span><span class="s2">&quot;[&quot;</span> <span class="o">+</span> <span class="s2">&quot;,&quot;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">string</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s1">&#39; +&#39;</span><span class="p">,</span> <span class="s1">&#39; &#39;</span><span class="p">)</span><span class="o">.</span><span class="n">split</span><span class="p">())</span> <span class="o">+</span> <span class="s2">&quot;]&quot;</span><span class="p">)</span>
 </span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>
-</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a><span class="k">def</span> <span class="nf">_check</span><span class="p">(</span><span class="n">condition</span><span class="p">):</span>
-</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">condition</span><span class="p">:</span>
-</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;XML file format not supported&quot;</span><span class="p">)</span>
-</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>
+</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>
+</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a><span class="k">def</span> <span class="nf">_check</span><span class="p">(</span><span class="n">condition</span><span class="p">):</span>
+</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">condition</span><span class="p">:</span>
+</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;XML file format not supported&quot;</span><span class="p">)</span>
 </span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>
-</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a><span class="k">class</span> <span class="nc">_NoTagInDataError</span><span class="p">(</span><span class="ne">Exception</span><span class="p">):</span>
-</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>    <span class="sd">&quot;&quot;&quot;Raised when tag is not in data&quot;&quot;&quot;</span>
-</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">tag</span><span class="p">):</span>
-</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">tag</span>
-</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>        <span class="nb">super</span><span class="p">()</span><span class="o">.</span><span class="fm">__init__</span><span class="p">(</span><span class="s1">&#39;Tag </span><span class="si">%s</span><span class="s1"> not in data!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">))</span>
-</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>
+</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>
+</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a><span class="k">class</span> <span class="nc">_NoTagInDataError</span><span class="p">(</span><span class="ne">Exception</span><span class="p">):</span>
+</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>    <span class="sd">&quot;&quot;&quot;Raised when tag is not in data&quot;&quot;&quot;</span>
+</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">tag</span><span class="p">):</span>
+</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">tag</span>
+</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>        <span class="nb">super</span><span class="p">()</span><span class="o">.</span><span class="fm">__init__</span><span class="p">(</span><span class="s1">&#39;Tag </span><span class="si">%s</span><span class="s1"> not in data!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">))</span>
 </span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>
-</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a><span class="k">def</span> <span class="nf">_find_tag</span><span class="p">(</span><span class="n">dat</span><span class="p">,</span> <span class="n">tag</span><span class="p">):</span>
-</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">dat</span><span class="p">)):</span>
-</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a>        <span class="k">if</span> <span class="n">dat</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="n">tag</span><span class="p">:</span>
-</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a>            <span class="k">return</span> <span class="n">i</span>
-</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a>    <span class="k">raise</span> <span class="n">_NoTagInDataError</span><span class="p">(</span><span class="n">tag</span><span class="p">)</span>
-</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a>
+</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>
+</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a><span class="k">def</span> <span class="nf">_find_tag</span><span class="p">(</span><span class="n">dat</span><span class="p">,</span> <span class="n">tag</span><span class="p">):</span>
+</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">dat</span><span class="p">)):</span>
+</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a>        <span class="k">if</span> <span class="n">dat</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="n">tag</span><span class="p">:</span>
+</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a>            <span class="k">return</span> <span class="n">i</span>
+</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a>    <span class="k">raise</span> <span class="n">_NoTagInDataError</span><span class="p">(</span><span class="n">tag</span><span class="p">)</span>
 </span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a>
-</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a><span class="k">def</span> <span class="nf">_import_array</span><span class="p">(</span><span class="n">arr</span><span class="p">):</span>
-</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a>    <span class="n">name</span> <span class="o">=</span> <span class="n">arr</span><span class="p">[</span><span class="n">_find_tag</span><span class="p">(</span><span class="n">arr</span><span class="p">,</span> <span class="s1">&#39;id&#39;</span><span class="p">)]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a>    <span class="n">index</span> <span class="o">=</span> <span class="n">_find_tag</span><span class="p">(</span><span class="n">arr</span><span class="p">,</span> <span class="s1">&#39;layout&#39;</span><span class="p">)</span>
-</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a>    <span class="k">try</span><span class="p">:</span>
-</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a>        <span class="n">sindex</span> <span class="o">=</span> <span class="n">_find_tag</span><span class="p">(</span><span class="n">arr</span><span class="p">,</span> <span class="s1">&#39;symbol&#39;</span><span class="p">)</span>
-</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a>    <span class="k">except</span> <span class="n">_NoTagInDataError</span><span class="p">:</span>
-</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a>        <span class="n">sindex</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a>    <span class="k">if</span> <span class="n">sindex</span> <span class="o">&gt;</span> <span class="n">index</span><span class="p">:</span>
-</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>        <span class="n">tmp</span> <span class="o">=</span> <span class="n">_import_data</span><span class="p">(</span><span class="n">arr</span><span class="p">[</span><span class="n">sindex</span><span class="p">]</span><span class="o">.</span><span class="n">tail</span><span class="p">)</span>
-</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>        <span class="n">tmp</span> <span class="o">=</span> <span class="n">_import_data</span><span class="p">(</span><span class="n">arr</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">tail</span><span class="p">)</span>
-</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>
-</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>    <span class="n">li</span> <span class="o">=</span> <span class="n">arr</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>    <span class="n">m</span> <span class="o">=</span> <span class="n">li</span><span class="o">.</span><span class="n">split</span><span class="p">()</span>
-</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>    <span class="k">if</span> <span class="n">m</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;i&quot;</span> <span class="ow">and</span> <span class="n">m</span><span class="p">[</span><span class="mi">2</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;f&quot;</span><span class="p">:</span>
-</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>        <span class="n">nc</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">m</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>        <span class="n">na</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">m</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39;f&#39;</span><span class="p">))</span>
-</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>        <span class="n">_dat</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>        <span class="n">mask</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>        <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">na</span><span class="p">):</span>
-</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>            <span class="n">mask</span> <span class="o">+=</span> <span class="p">[</span><span class="n">a</span><span class="p">]</span>
-</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>            <span class="n">_dat</span> <span class="o">+=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="mi">1</span> <span class="o">+</span> <span class="n">a</span><span class="p">::</span> <span class="n">na</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])]</span>
-</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>        <span class="n">_check</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="mi">0</span><span class="p">::</span> <span class="n">na</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span> <span class="o">==</span> <span class="n">nc</span><span class="p">)</span>
-</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>        <span class="k">return</span> <span class="p">[</span><span class="n">name</span><span class="p">,</span> <span class="n">tmp</span><span class="p">[</span><span class="mi">0</span><span class="p">::</span> <span class="n">na</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">mask</span><span class="p">,</span> <span class="n">_dat</span><span class="p">]</span>
-</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>    <span class="k">elif</span> <span class="n">m</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;f&#39;</span> <span class="ow">and</span> <span class="nb">len</span><span class="p">(</span><span class="n">m</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">3</span><span class="p">:</span>
-</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>        <span class="n">sh</span> <span class="o">=</span> <span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">m</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="nb">int</span><span class="p">(</span><span class="n">m</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39;f&#39;</span><span class="p">)))</span>
-</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="n">sh</span><span class="p">)</span>
-</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>    <span class="k">elif</span> <span class="nb">any</span><span class="p">([</span><span class="s1">&#39;f&#39;</span> <span class="ow">in</span> <span class="n">s</span> <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">m</span><span class="p">]):</span>
-</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>        <span class="k">for</span> <span class="n">si</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">m</span><span class="p">)):</span>
-</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>            <span class="k">if</span> <span class="n">m</span><span class="p">[</span><span class="n">si</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;f&#39;</span><span class="p">:</span>
-</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>                <span class="k">break</span>
-</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>        <span class="n">sh</span> <span class="o">=</span> <span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">m</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">si</span><span class="p">)]</span>
-</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="n">sh</span><span class="p">)</span>
-</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>        <span class="nb">print</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">m</span><span class="p">)</span>
-</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>        <span class="n">_check</span><span class="p">(</span><span class="kc">False</span><span class="p">)</span>
-</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>
+</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a>
+</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a><span class="k">def</span> <span class="nf">_import_array</span><span class="p">(</span><span class="n">arr</span><span class="p">):</span>
+</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a>    <span class="n">name</span> <span class="o">=</span> <span class="n">arr</span><span class="p">[</span><span class="n">_find_tag</span><span class="p">(</span><span class="n">arr</span><span class="p">,</span> <span class="s1">&#39;id&#39;</span><span class="p">)]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a>    <span class="n">index</span> <span class="o">=</span> <span class="n">_find_tag</span><span class="p">(</span><span class="n">arr</span><span class="p">,</span> <span class="s1">&#39;layout&#39;</span><span class="p">)</span>
+</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a>    <span class="k">try</span><span class="p">:</span>
+</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a>        <span class="n">sindex</span> <span class="o">=</span> <span class="n">_find_tag</span><span class="p">(</span><span class="n">arr</span><span class="p">,</span> <span class="s1">&#39;symbol&#39;</span><span class="p">)</span>
+</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a>    <span class="k">except</span> <span class="n">_NoTagInDataError</span><span class="p">:</span>
+</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a>        <span class="n">sindex</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>    <span class="k">if</span> <span class="n">sindex</span> <span class="o">&gt;</span> <span class="n">index</span><span class="p">:</span>
+</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>        <span class="n">tmp</span> <span class="o">=</span> <span class="n">_import_data</span><span class="p">(</span><span class="n">arr</span><span class="p">[</span><span class="n">sindex</span><span class="p">]</span><span class="o">.</span><span class="n">tail</span><span class="p">)</span>
+</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>        <span class="n">tmp</span> <span class="o">=</span> <span class="n">_import_data</span><span class="p">(</span><span class="n">arr</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">tail</span><span class="p">)</span>
+</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>
+</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>    <span class="n">li</span> <span class="o">=</span> <span class="n">arr</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>    <span class="n">m</span> <span class="o">=</span> <span class="n">li</span><span class="o">.</span><span class="n">split</span><span class="p">()</span>
+</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>    <span class="k">if</span> <span class="n">m</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;i&quot;</span> <span class="ow">and</span> <span class="n">m</span><span class="p">[</span><span class="mi">2</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;f&quot;</span><span class="p">:</span>
+</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>        <span class="n">nc</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">m</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>        <span class="n">na</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">m</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39;f&#39;</span><span class="p">))</span>
+</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>        <span class="n">_dat</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>        <span class="n">mask</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>        <span class="k">for</span> <span class="n">a</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">na</span><span class="p">):</span>
+</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>            <span class="n">mask</span> <span class="o">+=</span> <span class="p">[</span><span class="n">a</span><span class="p">]</span>
+</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>            <span class="n">_dat</span> <span class="o">+=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="mi">1</span> <span class="o">+</span> <span class="n">a</span><span class="p">::</span> <span class="n">na</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])]</span>
+</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>        <span class="n">_check</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="mi">0</span><span class="p">::</span> <span class="n">na</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span> <span class="o">==</span> <span class="n">nc</span><span class="p">)</span>
+</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>        <span class="k">return</span> <span class="p">[</span><span class="n">name</span><span class="p">,</span> <span class="n">tmp</span><span class="p">[</span><span class="mi">0</span><span class="p">::</span> <span class="n">na</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">mask</span><span class="p">,</span> <span class="n">_dat</span><span class="p">]</span>
+</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>    <span class="k">elif</span> <span class="n">m</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;f&#39;</span> <span class="ow">and</span> <span class="nb">len</span><span class="p">(</span><span class="n">m</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">3</span><span class="p">:</span>
+</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>        <span class="n">sh</span> <span class="o">=</span> <span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">m</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="nb">int</span><span class="p">(</span><span class="n">m</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39;f&#39;</span><span class="p">)))</span>
+</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="n">sh</span><span class="p">)</span>
+</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>    <span class="k">elif</span> <span class="nb">any</span><span class="p">([</span><span class="s1">&#39;f&#39;</span> <span class="ow">in</span> <span class="n">s</span> <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">m</span><span class="p">]):</span>
+</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>        <span class="k">for</span> <span class="n">si</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">m</span><span class="p">)):</span>
+</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>            <span class="k">if</span> <span class="n">m</span><span class="p">[</span><span class="n">si</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;f&#39;</span><span class="p">:</span>
+</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>                <span class="k">break</span>
+</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>        <span class="n">sh</span> <span class="o">=</span> <span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">m</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">si</span><span class="p">)]</span>
+</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="n">sh</span><span class="p">)</span>
+</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>        <span class="nb">print</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">m</span><span class="p">)</span>
+</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>        <span class="n">_check</span><span class="p">(</span><span class="kc">False</span><span class="p">)</span>
 </span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>
-</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a><span class="k">def</span> <span class="nf">_import_rdata</span><span class="p">(</span><span class="n">rd</span><span class="p">):</span>
-</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a>    <span class="n">name</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">mask</span><span class="p">,</span> <span class="n">deltas</span> <span class="o">=</span> <span class="n">_import_array</span><span class="p">(</span><span class="n">rd</span><span class="p">)</span>
-</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>    <span class="k">return</span> <span class="n">deltas</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idx</span>
-</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>
+</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>
+</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a><span class="k">def</span> <span class="nf">_import_rdata</span><span class="p">(</span><span class="n">rd</span><span class="p">):</span>
+</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>    <span class="n">name</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">mask</span><span class="p">,</span> <span class="n">deltas</span> <span class="o">=</span> <span class="n">_import_array</span><span class="p">(</span><span class="n">rd</span><span class="p">)</span>
+</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>    <span class="k">return</span> <span class="n">deltas</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idx</span>
 </span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>
-</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a><span class="k">def</span> <span class="nf">_import_cdata</span><span class="p">(</span><span class="n">cd</span><span class="p">):</span>
-</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">cd</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;id&quot;</span><span class="p">)</span>
-</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">cd</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span> <span class="o">==</span> <span class="s2">&quot;cov&quot;</span><span class="p">)</span>
-</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">_import_array</span><span class="p">(</span><span class="n">cd</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>    <span class="n">grad</span> <span class="o">=</span> <span class="n">_import_array</span><span class="p">(</span><span class="n">cd</span><span class="p">[</span><span class="mi">2</span><span class="p">])</span>
-</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>    <span class="k">return</span> <span class="n">cd</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">(),</span> <span class="n">cov</span><span class="p">,</span> <span class="n">grad</span>
-</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>
+</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>
+</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a><span class="k">def</span> <span class="nf">_import_cdata</span><span class="p">(</span><span class="n">cd</span><span class="p">):</span>
+</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">cd</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;id&quot;</span><span class="p">)</span>
+</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">cd</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span> <span class="o">==</span> <span class="s2">&quot;cov&quot;</span><span class="p">)</span>
+</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">_import_array</span><span class="p">(</span><span class="n">cd</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>    <span class="n">grad</span> <span class="o">=</span> <span class="n">_import_array</span><span class="p">(</span><span class="n">cd</span><span class="p">[</span><span class="mi">2</span><span class="p">])</span>
+</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>    <span class="k">return</span> <span class="n">cd</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">(),</span> <span class="n">cov</span><span class="p">,</span> <span class="n">grad</span>
 </span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a>
-</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a><span class="k">def</span> <span class="nf">read_pobs</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs from an xml.gz file in the Zeuthen pobs format.</span>
-</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>
-</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a><span class="sd">    Tags are not written or recovered automatically.</span>
-</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a>
-</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a><span class="sd">    Parameters</span>
-</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a><span class="sd">    ----------</span>
-</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a><span class="sd">    fname : str</span>
-</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a><span class="sd">        Filename of the input file.</span>
-</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a><span class="sd">    full_output : bool</span>
-</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a><span class="sd">        If False, only the data is returned as list.</span>
-</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a><span class="sd">    separatior_insertion: str or int</span>
-</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a><span class="sd">        str: replace all occurences of &quot;separator_insertion&quot; within the replica names</span>
-</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a><span class="sd">        by &quot;|%s&quot; % (separator_insertion) when constructing the names of the replica.</span>
-</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a><span class="sd">        int: Insert the separator &quot;|&quot; at the position given by separator_insertion.</span>
-</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a><span class="sd">        None (default): Replica names remain unchanged.</span>
-</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a>
-</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
-</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
-</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
-</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a>        <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
-</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
-</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>        <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!&quot;</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
-</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
-</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
-</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>
-</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>    <span class="c1"># parse xml file content</span>
-</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>    <span class="n">root</span> <span class="o">=</span> <span class="n">et</span><span class="o">.</span><span class="n">fromstring</span><span class="p">(</span><span class="n">content</span><span class="p">)</span>
-</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>
-</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;pobs&#39;</span><span class="p">)</span>
-</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>    <span class="n">pobs</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>
-</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>    <span class="n">version</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>
-</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;origin&#39;</span><span class="p">)</span>
-</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>    <span class="n">file_origin</span> <span class="o">=</span> <span class="n">_etree_to_dict</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">])[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span>
-</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>
-</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">5</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">pobs</span><span class="p">)):</span>
-</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>        <span class="n">delta</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_import_rdata</span><span class="p">(</span><span class="n">pobs</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
-</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>        <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">delta</span><span class="p">)</span>
-</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>        <span class="k">if</span> <span class="n">separator_insertion</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>            <span class="k">pass</span>
-</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
-</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">name</span><span class="p">[:</span><span class="n">separator_insertion</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">[</span><span class="n">separator_insertion</span><span class="p">:]</span>
-</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">name</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="s2">&quot;|</span><span class="si">%s</span><span class="s2">&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
-</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;separator_insertion has to be string or int, is &quot;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
-</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>        <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>        <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
-</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="p">[</span><span class="n">Obs</span><span class="p">([</span><span class="n">d</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="k">for</span> <span class="n">d</span> <span class="ow">in</span> <span class="n">deltas</span><span class="p">],</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="mi">0</span><span class="p">]))]</span>
-</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>
-</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>    <span class="n">descriptiond</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">4</span><span class="p">):</span>
-</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="n">pobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span> <span class="o">=</span> <span class="n">pobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>
-</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">pobs</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;nr&quot;</span><span class="p">)</span>
-</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>
-</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">pobs</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;array&#39;</span><span class="p">)</span>
-</span><span id="L-358"><a href="#L-358"><span class="linenos">358</span></a>    <span class="k">if</span> <span class="n">pobs</span><span class="p">[</span><span class="mi">5</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;symbol&#39;</span><span class="p">:</span>
-</span><span id="L-359"><a href="#L-359"><span class="linenos">359</span></a>        <span class="n">symbol</span> <span class="o">=</span> <span class="n">pobs</span><span class="p">[</span><span class="mi">5</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-360"><a href="#L-360"><span class="linenos">360</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">symbol</span>
-</span><span id="L-361"><a href="#L-361"><span class="linenos">361</span></a>
-</span><span id="L-362"><a href="#L-362"><span class="linenos">362</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
-</span><span id="L-363"><a href="#L-363"><span class="linenos">363</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-364"><a href="#L-364"><span class="linenos">364</span></a>        <span class="n">tool</span> <span class="o">=</span> <span class="n">file_origin</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tool&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="L-365"><a href="#L-365"><span class="linenos">365</span></a>        <span class="k">if</span> <span class="n">tool</span><span class="p">:</span>
-</span><span id="L-366"><a href="#L-366"><span class="linenos">366</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">+</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span>
-</span><span id="L-367"><a href="#L-367"><span class="linenos">367</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-368"><a href="#L-368"><span class="linenos">368</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-369"><a href="#L-369"><span class="linenos">369</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">program</span>
-</span><span id="L-370"><a href="#L-370"><span class="linenos">370</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">version</span>
-</span><span id="L-371"><a href="#L-371"><span class="linenos">371</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span>
-</span><span id="L-372"><a href="#L-372"><span class="linenos">372</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span>
-</span><span id="L-373"><a href="#L-373"><span class="linenos">373</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span>
-</span><span id="L-374"><a href="#L-374"><span class="linenos">374</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">descriptiond</span>
-</span><span id="L-375"><a href="#L-375"><span class="linenos">375</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">res</span>
-</span><span id="L-376"><a href="#L-376"><span class="linenos">376</span></a>        <span class="k">return</span> <span class="n">retd</span>
-</span><span id="L-377"><a href="#L-377"><span class="linenos">377</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-378"><a href="#L-378"><span class="linenos">378</span></a>        <span class="k">return</span> <span class="n">res</span>
-</span><span id="L-379"><a href="#L-379"><span class="linenos">379</span></a>
+</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a>
+</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a><span class="k">def</span> <span class="nf">read_pobs</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs from an xml.gz file in the Zeuthen pobs format.</span>
+</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a>
+</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a><span class="sd">    Tags are not written or recovered automatically.</span>
+</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a>
+</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a><span class="sd">    Parameters</span>
+</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a><span class="sd">    ----------</span>
+</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a><span class="sd">    fname : str</span>
+</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a><span class="sd">        Filename of the input file.</span>
+</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a><span class="sd">    full_output : bool</span>
+</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a><span class="sd">        If False, only the data is returned as list.</span>
+</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a><span class="sd">    separatior_insertion: str or int</span>
+</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a><span class="sd">        str: replace all occurences of &quot;separator_insertion&quot; within the replica names</span>
+</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a><span class="sd">        by &quot;|%s&quot; % (separator_insertion) when constructing the names of the replica.</span>
+</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a><span class="sd">        int: Insert the separator &quot;|&quot; at the position given by separator_insertion.</span>
+</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a><span class="sd">        None (default): Replica names remain unchanged.</span>
+</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>
+</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
+</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
+</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
+</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a>        <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
+</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>        <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!&quot;</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
+</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
+</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>
+</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>    <span class="c1"># parse xml file content</span>
+</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>    <span class="n">root</span> <span class="o">=</span> <span class="n">et</span><span class="o">.</span><span class="n">fromstring</span><span class="p">(</span><span class="n">content</span><span class="p">)</span>
+</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>
+</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;pobs&#39;</span><span class="p">)</span>
+</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>    <span class="n">pobs</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>
+</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>    <span class="n">version</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>
+</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;origin&#39;</span><span class="p">)</span>
+</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>    <span class="n">file_origin</span> <span class="o">=</span> <span class="n">_etree_to_dict</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">])[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span>
+</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>
+</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">5</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">pobs</span><span class="p">)):</span>
+</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>        <span class="n">delta</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_import_rdata</span><span class="p">(</span><span class="n">pobs</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>        <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">delta</span><span class="p">)</span>
+</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>        <span class="k">if</span> <span class="n">separator_insertion</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>            <span class="k">pass</span>
+</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
+</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">name</span><span class="p">[:</span><span class="n">separator_insertion</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">[</span><span class="n">separator_insertion</span><span class="p">:]</span>
+</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">name</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="s2">&quot;|</span><span class="si">%s</span><span class="s2">&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
+</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;separator_insertion has to be string or int, is &quot;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
+</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>        <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>        <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
+</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="p">[</span><span class="n">Obs</span><span class="p">([</span><span class="n">d</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="k">for</span> <span class="n">d</span> <span class="ow">in</span> <span class="n">deltas</span><span class="p">],</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="mi">0</span><span class="p">]))]</span>
+</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>
+</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>    <span class="n">descriptiond</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">4</span><span class="p">):</span>
+</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="n">pobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span> <span class="o">=</span> <span class="n">pobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>
+</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">pobs</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;nr&quot;</span><span class="p">)</span>
+</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>
+</span><span id="L-358"><a href="#L-358"><span class="linenos">358</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">pobs</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;array&#39;</span><span class="p">)</span>
+</span><span id="L-359"><a href="#L-359"><span class="linenos">359</span></a>    <span class="k">if</span> <span class="n">pobs</span><span class="p">[</span><span class="mi">5</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;symbol&#39;</span><span class="p">:</span>
+</span><span id="L-360"><a href="#L-360"><span class="linenos">360</span></a>        <span class="n">symbol</span> <span class="o">=</span> <span class="n">pobs</span><span class="p">[</span><span class="mi">5</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-361"><a href="#L-361"><span class="linenos">361</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">symbol</span>
+</span><span id="L-362"><a href="#L-362"><span class="linenos">362</span></a>
+</span><span id="L-363"><a href="#L-363"><span class="linenos">363</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
+</span><span id="L-364"><a href="#L-364"><span class="linenos">364</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-365"><a href="#L-365"><span class="linenos">365</span></a>        <span class="n">tool</span> <span class="o">=</span> <span class="n">file_origin</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tool&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="L-366"><a href="#L-366"><span class="linenos">366</span></a>        <span class="k">if</span> <span class="n">tool</span><span class="p">:</span>
+</span><span id="L-367"><a href="#L-367"><span class="linenos">367</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">+</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span>
+</span><span id="L-368"><a href="#L-368"><span class="linenos">368</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-369"><a href="#L-369"><span class="linenos">369</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-370"><a href="#L-370"><span class="linenos">370</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">program</span>
+</span><span id="L-371"><a href="#L-371"><span class="linenos">371</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">version</span>
+</span><span id="L-372"><a href="#L-372"><span class="linenos">372</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span>
+</span><span id="L-373"><a href="#L-373"><span class="linenos">373</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span>
+</span><span id="L-374"><a href="#L-374"><span class="linenos">374</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span>
+</span><span id="L-375"><a href="#L-375"><span class="linenos">375</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">descriptiond</span>
+</span><span id="L-376"><a href="#L-376"><span class="linenos">376</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">res</span>
+</span><span id="L-377"><a href="#L-377"><span class="linenos">377</span></a>        <span class="k">return</span> <span class="n">retd</span>
+</span><span id="L-378"><a href="#L-378"><span class="linenos">378</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-379"><a href="#L-379"><span class="linenos">379</span></a>        <span class="k">return</span> <span class="n">res</span>
 </span><span id="L-380"><a href="#L-380"><span class="linenos">380</span></a>
-</span><span id="L-381"><a href="#L-381"><span class="linenos">381</span></a><span class="c1"># Reading (and writing) dobs is not yet working properly:</span>
-</span><span id="L-382"><a href="#L-382"><span class="linenos">382</span></a><span class="c1"># we have to loop over root[2:] because each entry is a dobs</span>
-</span><span id="L-383"><a href="#L-383"><span class="linenos">383</span></a><span class="c1"># But maybe this is just a problem with Ben&#39;s implementation</span>
-</span><span id="L-384"><a href="#L-384"><span class="linenos">384</span></a>
-</span><span id="L-385"><a href="#L-385"><span class="linenos">385</span></a><span class="c1"># this is based on Mattia Bruno&#39;s implementation at https://github.com/mbruno46/pyobs/blob/master/pyobs/IO/xml.py</span>
-</span><span id="L-386"><a href="#L-386"><span class="linenos">386</span></a><span class="k">def</span> <span class="nf">import_dobs_string</span><span class="p">(</span><span class="n">content</span><span class="p">,</span> <span class="n">noempty</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="L-387"><a href="#L-387"><span class="linenos">387</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs from a string in the Zeuthen dobs format.</span>
-</span><span id="L-388"><a href="#L-388"><span class="linenos">388</span></a>
-</span><span id="L-389"><a href="#L-389"><span class="linenos">389</span></a><span class="sd">    Tags are not written or recovered automatically.</span>
-</span><span id="L-390"><a href="#L-390"><span class="linenos">390</span></a>
-</span><span id="L-391"><a href="#L-391"><span class="linenos">391</span></a><span class="sd">    Parameters</span>
-</span><span id="L-392"><a href="#L-392"><span class="linenos">392</span></a><span class="sd">    ----------</span>
-</span><span id="L-393"><a href="#L-393"><span class="linenos">393</span></a><span class="sd">    content : str</span>
-</span><span id="L-394"><a href="#L-394"><span class="linenos">394</span></a><span class="sd">        XML string containing the data</span>
-</span><span id="L-395"><a href="#L-395"><span class="linenos">395</span></a><span class="sd">    noemtpy : bool</span>
-</span><span id="L-396"><a href="#L-396"><span class="linenos">396</span></a><span class="sd">        If True, ensembles with no contribution to the Obs are not included.</span>
-</span><span id="L-397"><a href="#L-397"><span class="linenos">397</span></a><span class="sd">        If False, ensembles are included as written in the file, possibly with vanishing entries.</span>
-</span><span id="L-398"><a href="#L-398"><span class="linenos">398</span></a><span class="sd">    full_output : bool</span>
-</span><span id="L-399"><a href="#L-399"><span class="linenos">399</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="L-400"><a href="#L-400"><span class="linenos">400</span></a><span class="sd">        If False, only the data is returned as list.</span>
-</span><span id="L-401"><a href="#L-401"><span class="linenos">401</span></a><span class="sd">    separatior_insertion: str, int or bool</span>
-</span><span id="L-402"><a href="#L-402"><span class="linenos">402</span></a><span class="sd">        str: replace all occurences of &quot;separator_insertion&quot; within the replica names</span>
-</span><span id="L-403"><a href="#L-403"><span class="linenos">403</span></a><span class="sd">        by &quot;|%s&quot; % (separator_insertion) when constructing the names of the replica.</span>
-</span><span id="L-404"><a href="#L-404"><span class="linenos">404</span></a><span class="sd">        int: Insert the separator &quot;|&quot; at the position given by separator_insertion.</span>
-</span><span id="L-405"><a href="#L-405"><span class="linenos">405</span></a><span class="sd">        True (default): separator &quot;|&quot; is inserted after len(ensname), assuming that the</span>
-</span><span id="L-406"><a href="#L-406"><span class="linenos">406</span></a><span class="sd">        ensemble name is a prefix to the replica name.</span>
-</span><span id="L-407"><a href="#L-407"><span class="linenos">407</span></a><span class="sd">        None or False: No separator is inserted.</span>
-</span><span id="L-408"><a href="#L-408"><span class="linenos">408</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-409"><a href="#L-409"><span class="linenos">409</span></a>
-</span><span id="L-410"><a href="#L-410"><span class="linenos">410</span></a>    <span class="n">root</span> <span class="o">=</span> <span class="n">et</span><span class="o">.</span><span class="n">fromstring</span><span class="p">(</span><span class="n">content</span><span class="p">)</span>
-</span><span id="L-411"><a href="#L-411"><span class="linenos">411</span></a>
-</span><span id="L-412"><a href="#L-412"><span class="linenos">412</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">)</span>
-</span><span id="L-413"><a href="#L-413"><span class="linenos">413</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;SCHEMA&#39;</span><span class="p">)</span>
-</span><span id="L-414"><a href="#L-414"><span class="linenos">414</span></a>    <span class="n">version</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-415"><a href="#L-415"><span class="linenos">415</span></a>
-</span><span id="L-416"><a href="#L-416"><span class="linenos">416</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;origin&#39;</span><span class="p">)</span>
-</span><span id="L-417"><a href="#L-417"><span class="linenos">417</span></a>    <span class="n">file_origin</span> <span class="o">=</span> <span class="n">_etree_to_dict</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">])[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span>
-</span><span id="L-418"><a href="#L-418"><span class="linenos">418</span></a>
-</span><span id="L-419"><a href="#L-419"><span class="linenos">419</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;dobs&#39;</span><span class="p">)</span>
-</span><span id="L-420"><a href="#L-420"><span class="linenos">420</span></a>
-</span><span id="L-421"><a href="#L-421"><span class="linenos">421</span></a>    <span class="n">dobs</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="L-422"><a href="#L-422"><span class="linenos">422</span></a>
-</span><span id="L-423"><a href="#L-423"><span class="linenos">423</span></a>    <span class="n">descriptiond</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-424"><a href="#L-424"><span class="linenos">424</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">3</span><span class="p">):</span>
-</span><span id="L-425"><a href="#L-425"><span class="linenos">425</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="n">dobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span> <span class="o">=</span> <span class="n">dobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-426"><a href="#L-426"><span class="linenos">426</span></a>
-</span><span id="L-427"><a href="#L-427"><span class="linenos">427</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;array&#39;</span><span class="p">)</span>
-</span><span id="L-428"><a href="#L-428"><span class="linenos">428</span></a>
-</span><span id="L-429"><a href="#L-429"><span class="linenos">429</span></a>    <span class="n">symbol</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-430"><a href="#L-430"><span class="linenos">430</span></a>    <span class="k">if</span> <span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;symbol&#39;</span><span class="p">:</span>
-</span><span id="L-431"><a href="#L-431"><span class="linenos">431</span></a>        <span class="n">symbol</span> <span class="o">=</span> <span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-432"><a href="#L-432"><span class="linenos">432</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">symbol</span>
-</span><span id="L-433"><a href="#L-433"><span class="linenos">433</span></a>    <span class="n">mean</span> <span class="o">=</span> <span class="n">_import_array</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">])[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-434"><a href="#L-434"><span class="linenos">434</span></a>
-</span><span id="L-435"><a href="#L-435"><span class="linenos">435</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;ne&quot;</span><span class="p">)</span>
-</span><span id="L-436"><a href="#L-436"><span class="linenos">436</span></a>    <span class="n">ne</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
-</span><span id="L-437"><a href="#L-437"><span class="linenos">437</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;nc&quot;</span><span class="p">)</span>
-</span><span id="L-438"><a href="#L-438"><span class="linenos">438</span></a>    <span class="n">nc</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
-</span><span id="L-439"><a href="#L-439"><span class="linenos">439</span></a>
-</span><span id="L-440"><a href="#L-440"><span class="linenos">440</span></a>    <span class="n">idld</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-441"><a href="#L-441"><span class="linenos">441</span></a>    <span class="n">deltad</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-442"><a href="#L-442"><span class="linenos">442</span></a>    <span class="n">covd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-443"><a href="#L-443"><span class="linenos">443</span></a>    <span class="n">gradd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-444"><a href="#L-444"><span class="linenos">444</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-445"><a href="#L-445"><span class="linenos">445</span></a>    <span class="n">e_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-446"><a href="#L-446"><span class="linenos">446</span></a>    <span class="n">enstags</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-447"><a href="#L-447"><span class="linenos">447</span></a>    <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">6</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">dobs</span><span class="p">))):</span>
-</span><span id="L-448"><a href="#L-448"><span class="linenos">448</span></a>        <span class="k">if</span> <span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;edata&quot;</span><span class="p">:</span>
-</span><span id="L-449"><a href="#L-449"><span class="linenos">449</span></a>            <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;enstag&quot;</span><span class="p">)</span>
-</span><span id="L-450"><a href="#L-450"><span class="linenos">450</span></a>            <span class="n">ename</span> <span class="o">=</span> <span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-451"><a href="#L-451"><span class="linenos">451</span></a>            <span class="n">e_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ename</span><span class="p">)</span>
-</span><span id="L-452"><a href="#L-452"><span class="linenos">452</span></a>            <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;nr&quot;</span><span class="p">)</span>
-</span><span id="L-453"><a href="#L-453"><span class="linenos">453</span></a>            <span class="n">R</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
-</span><span id="L-454"><a href="#L-454"><span class="linenos">454</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">R</span><span class="p">):</span>
-</span><span id="L-455"><a href="#L-455"><span class="linenos">455</span></a>                <span class="n">deltas</span><span class="p">,</span> <span class="n">rname</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_import_rdata</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
-</span><span id="L-456"><a href="#L-456"><span class="linenos">456</span></a>                <span class="k">if</span> <span class="n">separator_insertion</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="kc">False</span><span class="p">:</span>
-</span><span id="L-457"><a href="#L-457"><span class="linenos">457</span></a>                    <span class="k">pass</span>
-</span><span id="L-458"><a href="#L-458"><span class="linenos">458</span></a>                <span class="k">elif</span> <span class="n">separator_insertion</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-459"><a href="#L-459"><span class="linenos">459</span></a>                    <span class="k">if</span> <span class="n">rname</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">ename</span><span class="p">):</span>
-</span><span id="L-460"><a href="#L-460"><span class="linenos">460</span></a>                        <span class="n">rname</span> <span class="o">=</span> <span class="n">rname</span><span class="p">[:</span><span class="nb">len</span><span class="p">(</span><span class="n">ename</span><span class="p">)]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">rname</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">ename</span><span class="p">):]</span>
-</span><span id="L-461"><a href="#L-461"><span class="linenos">461</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
-</span><span id="L-462"><a href="#L-462"><span class="linenos">462</span></a>                    <span class="n">rname</span> <span class="o">=</span> <span class="n">rname</span><span class="p">[:</span><span class="n">separator_insertion</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">rname</span><span class="p">[</span><span class="n">separator_insertion</span><span class="p">:]</span>
-</span><span id="L-463"><a href="#L-463"><span class="linenos">463</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="L-464"><a href="#L-464"><span class="linenos">464</span></a>                    <span class="n">rname</span> <span class="o">=</span> <span class="n">rname</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="s2">&quot;|</span><span class="si">%s</span><span class="s2">&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
-</span><span id="L-465"><a href="#L-465"><span class="linenos">465</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-466"><a href="#L-466"><span class="linenos">466</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;separator_insertion has to be string or int, is &quot;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
-</span><span id="L-467"><a href="#L-467"><span class="linenos">467</span></a>                <span class="k">if</span> <span class="s1">&#39;|&#39;</span> <span class="ow">in</span> <span class="n">rname</span><span class="p">:</span>
-</span><span id="L-468"><a href="#L-468"><span class="linenos">468</span></a>                    <span class="n">new_ename</span> <span class="o">=</span> <span class="n">rname</span><span class="p">[:</span><span class="n">rname</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)]</span>
-</span><span id="L-469"><a href="#L-469"><span class="linenos">469</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-470"><a href="#L-470"><span class="linenos">470</span></a>                    <span class="n">new_ename</span> <span class="o">=</span> <span class="n">ename</span>
-</span><span id="L-471"><a href="#L-471"><span class="linenos">471</span></a>                <span class="n">enstags</span><span class="p">[</span><span class="n">new_ename</span><span class="p">]</span> <span class="o">=</span> <span class="n">ename</span>
-</span><span id="L-472"><a href="#L-472"><span class="linenos">472</span></a>                <span class="n">idld</span><span class="p">[</span><span class="n">rname</span><span class="p">]</span> <span class="o">=</span> <span class="n">idx</span>
-</span><span id="L-473"><a href="#L-473"><span class="linenos">473</span></a>                <span class="n">deltad</span><span class="p">[</span><span class="n">rname</span><span class="p">]</span> <span class="o">=</span> <span class="n">deltas</span>
-</span><span id="L-474"><a href="#L-474"><span class="linenos">474</span></a>                <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rname</span><span class="p">)</span>
-</span><span id="L-475"><a href="#L-475"><span class="linenos">475</span></a>        <span class="k">elif</span> <span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;cdata&quot;</span><span class="p">:</span>
-</span><span id="L-476"><a href="#L-476"><span class="linenos">476</span></a>            <span class="n">cname</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">grad</span> <span class="o">=</span> <span class="n">_import_cdata</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">])</span>
-</span><span id="L-477"><a href="#L-477"><span class="linenos">477</span></a>            <span class="n">covd</span><span class="p">[</span><span class="n">cname</span><span class="p">]</span> <span class="o">=</span> <span class="n">cov</span>
-</span><span id="L-478"><a href="#L-478"><span class="linenos">478</span></a>            <span class="k">if</span> <span class="n">grad</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-479"><a href="#L-479"><span class="linenos">479</span></a>                <span class="n">gradd</span><span class="p">[</span><span class="n">cname</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">grad</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">mean</span><span class="p">))]</span>
-</span><span id="L-480"><a href="#L-480"><span class="linenos">480</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-481"><a href="#L-481"><span class="linenos">481</span></a>                <span class="n">gradd</span><span class="p">[</span><span class="n">cname</span><span class="p">]</span> <span class="o">=</span> <span class="n">grad</span><span class="o">.</span><span class="n">T</span>
-</span><span id="L-482"><a href="#L-482"><span class="linenos">482</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-483"><a href="#L-483"><span class="linenos">483</span></a>            <span class="n">_check</span><span class="p">(</span><span class="kc">False</span><span class="p">)</span>
-</span><span id="L-484"><a href="#L-484"><span class="linenos">484</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">names</span><span class="p">))</span>
-</span><span id="L-485"><a href="#L-485"><span class="linenos">485</span></a>
-</span><span id="L-486"><a href="#L-486"><span class="linenos">486</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">:</span>
-</span><span id="L-487"><a href="#L-487"><span class="linenos">487</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">])):</span>
-</span><span id="L-488"><a href="#L-488"><span class="linenos">488</span></a>            <span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span> <span class="o">+</span> <span class="n">mean</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="L-489"><a href="#L-489"><span class="linenos">489</span></a>
-</span><span id="L-490"><a href="#L-490"><span class="linenos">490</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-491"><a href="#L-491"><span class="linenos">491</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">mean</span><span class="p">)):</span>
-</span><span id="L-492"><a href="#L-492"><span class="linenos">492</span></a>        <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-493"><a href="#L-493"><span class="linenos">493</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-494"><a href="#L-494"><span class="linenos">494</span></a>        <span class="n">obs_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-495"><a href="#L-495"><span class="linenos">495</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">:</span>
-</span><span id="L-496"><a href="#L-496"><span class="linenos">496</span></a>            <span class="n">h</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
-</span><span id="L-497"><a href="#L-497"><span class="linenos">497</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">h</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">h</span> <span class="o">==</span> <span class="n">mean</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="ow">and</span> <span class="n">noempty</span><span class="p">:</span>
-</span><span id="L-498"><a href="#L-498"><span class="linenos">498</span></a>                <span class="k">continue</span>
-</span><span id="L-499"><a href="#L-499"><span class="linenos">499</span></a>            <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
-</span><span id="L-500"><a href="#L-500"><span class="linenos">500</span></a>            <span class="n">obs_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="L-501"><a href="#L-501"><span class="linenos">501</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">idld</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="L-502"><a href="#L-502"><span class="linenos">502</span></a>        <span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">obs_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
-</span><span id="L-503"><a href="#L-503"><span class="linenos">503</span></a>    <span class="nb">print</span><span class="p">(</span><span class="n">mean</span><span class="p">,</span> <span class="s1">&#39;vs&#39;</span><span class="p">,</span> <span class="n">res</span><span class="p">)</span>
-</span><span id="L-504"><a href="#L-504"><span class="linenos">504</span></a>    <span class="n">_check</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">e_names</span><span class="p">)</span> <span class="o">==</span> <span class="n">ne</span><span class="p">)</span>
-</span><span id="L-505"><a href="#L-505"><span class="linenos">505</span></a>
-</span><span id="L-506"><a href="#L-506"><span class="linenos">506</span></a>    <span class="n">cnames</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">covd</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
-</span><span id="L-507"><a href="#L-507"><span class="linenos">507</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">)):</span>
-</span><span id="L-508"><a href="#L-508"><span class="linenos">508</span></a>        <span class="n">new_covobs</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">Covobs</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="n">covd</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">name</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="n">gradd</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cnames</span><span class="p">}</span>
-</span><span id="L-509"><a href="#L-509"><span class="linenos">509</span></a>        <span class="k">if</span> <span class="n">noempty</span><span class="p">:</span>
-</span><span id="L-510"><a href="#L-510"><span class="linenos">510</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cnames</span><span class="p">:</span>
-</span><span id="L-511"><a href="#L-511"><span class="linenos">511</span></a>                <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">new_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span> <span class="o">==</span> <span class="mi">0</span><span class="p">):</span>
-</span><span id="L-512"><a href="#L-512"><span class="linenos">512</span></a>                    <span class="k">del</span> <span class="n">new_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-513"><a href="#L-513"><span class="linenos">513</span></a>            <span class="n">cnames_loc</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">new_covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
-</span><span id="L-514"><a href="#L-514"><span class="linenos">514</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-515"><a href="#L-515"><span class="linenos">515</span></a>            <span class="n">cnames_loc</span> <span class="o">=</span> <span class="n">cnames</span>
-</span><span id="L-516"><a href="#L-516"><span class="linenos">516</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cnames_loc</span><span class="p">:</span>
-</span><span id="L-517"><a href="#L-517"><span class="linenos">517</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="L-518"><a href="#L-518"><span class="linenos">518</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-519"><a href="#L-519"><span class="linenos">519</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-520"><a href="#L-520"><span class="linenos">520</span></a>        <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="n">new_covobs</span>
-</span><span id="L-521"><a href="#L-521"><span class="linenos">521</span></a>
-</span><span id="L-522"><a href="#L-522"><span class="linenos">522</span></a>    <span class="k">if</span> <span class="n">symbol</span><span class="p">:</span>
-</span><span id="L-523"><a href="#L-523"><span class="linenos">523</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">)):</span>
-</span><span id="L-524"><a href="#L-524"><span class="linenos">524</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">symbol</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="L-525"><a href="#L-525"><span class="linenos">525</span></a>            <span class="k">if</span> <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;None&#39;</span><span class="p">:</span>
-</span><span id="L-526"><a href="#L-526"><span class="linenos">526</span></a>                <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-527"><a href="#L-527"><span class="linenos">527</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">noempty</span><span class="p">:</span>
-</span><span id="L-528"><a href="#L-528"><span class="linenos">528</span></a>        <span class="n">_check</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span> <span class="o">==</span> <span class="n">nc</span><span class="p">)</span>
-</span><span id="L-529"><a href="#L-529"><span class="linenos">529</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
-</span><span id="L-530"><a href="#L-530"><span class="linenos">530</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-531"><a href="#L-531"><span class="linenos">531</span></a>        <span class="n">tool</span> <span class="o">=</span> <span class="n">file_origin</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tool&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="L-532"><a href="#L-532"><span class="linenos">532</span></a>        <span class="k">if</span> <span class="n">tool</span><span class="p">:</span>
-</span><span id="L-533"><a href="#L-533"><span class="linenos">533</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">+</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span>
-</span><span id="L-534"><a href="#L-534"><span class="linenos">534</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-535"><a href="#L-535"><span class="linenos">535</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-536"><a href="#L-536"><span class="linenos">536</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">program</span>
-</span><span id="L-537"><a href="#L-537"><span class="linenos">537</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">version</span>
-</span><span id="L-538"><a href="#L-538"><span class="linenos">538</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span>
-</span><span id="L-539"><a href="#L-539"><span class="linenos">539</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span>
-</span><span id="L-540"><a href="#L-540"><span class="linenos">540</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span>
-</span><span id="L-541"><a href="#L-541"><span class="linenos">541</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">descriptiond</span>
-</span><span id="L-542"><a href="#L-542"><span class="linenos">542</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;enstags&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">enstags</span>
-</span><span id="L-543"><a href="#L-543"><span class="linenos">543</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">res</span>
-</span><span id="L-544"><a href="#L-544"><span class="linenos">544</span></a>        <span class="k">return</span> <span class="n">retd</span>
-</span><span id="L-545"><a href="#L-545"><span class="linenos">545</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-546"><a href="#L-546"><span class="linenos">546</span></a>        <span class="k">return</span> <span class="n">res</span>
-</span><span id="L-547"><a href="#L-547"><span class="linenos">547</span></a>
+</span><span id="L-381"><a href="#L-381"><span class="linenos">381</span></a>
+</span><span id="L-382"><a href="#L-382"><span class="linenos">382</span></a><span class="c1"># Reading (and writing) dobs is not yet working properly:</span>
+</span><span id="L-383"><a href="#L-383"><span class="linenos">383</span></a><span class="c1"># we have to loop over root[2:] because each entry is a dobs</span>
+</span><span id="L-384"><a href="#L-384"><span class="linenos">384</span></a><span class="c1"># But maybe this is just a problem with Ben&#39;s implementation</span>
+</span><span id="L-385"><a href="#L-385"><span class="linenos">385</span></a>
+</span><span id="L-386"><a href="#L-386"><span class="linenos">386</span></a><span class="c1"># this is based on Mattia Bruno&#39;s implementation at https://github.com/mbruno46/pyobs/blob/master/pyobs/IO/xml.py</span>
+</span><span id="L-387"><a href="#L-387"><span class="linenos">387</span></a><span class="k">def</span> <span class="nf">import_dobs_string</span><span class="p">(</span><span class="n">content</span><span class="p">,</span> <span class="n">noempty</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="L-388"><a href="#L-388"><span class="linenos">388</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs from a string in the Zeuthen dobs format.</span>
+</span><span id="L-389"><a href="#L-389"><span class="linenos">389</span></a>
+</span><span id="L-390"><a href="#L-390"><span class="linenos">390</span></a><span class="sd">    Tags are not written or recovered automatically.</span>
+</span><span id="L-391"><a href="#L-391"><span class="linenos">391</span></a>
+</span><span id="L-392"><a href="#L-392"><span class="linenos">392</span></a><span class="sd">    Parameters</span>
+</span><span id="L-393"><a href="#L-393"><span class="linenos">393</span></a><span class="sd">    ----------</span>
+</span><span id="L-394"><a href="#L-394"><span class="linenos">394</span></a><span class="sd">    content : str</span>
+</span><span id="L-395"><a href="#L-395"><span class="linenos">395</span></a><span class="sd">        XML string containing the data</span>
+</span><span id="L-396"><a href="#L-396"><span class="linenos">396</span></a><span class="sd">    noemtpy : bool</span>
+</span><span id="L-397"><a href="#L-397"><span class="linenos">397</span></a><span class="sd">        If True, ensembles with no contribution to the Obs are not included.</span>
+</span><span id="L-398"><a href="#L-398"><span class="linenos">398</span></a><span class="sd">        If False, ensembles are included as written in the file, possibly with vanishing entries.</span>
+</span><span id="L-399"><a href="#L-399"><span class="linenos">399</span></a><span class="sd">    full_output : bool</span>
+</span><span id="L-400"><a href="#L-400"><span class="linenos">400</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="L-401"><a href="#L-401"><span class="linenos">401</span></a><span class="sd">        If False, only the data is returned as list.</span>
+</span><span id="L-402"><a href="#L-402"><span class="linenos">402</span></a><span class="sd">    separatior_insertion: str, int or bool</span>
+</span><span id="L-403"><a href="#L-403"><span class="linenos">403</span></a><span class="sd">        str: replace all occurences of &quot;separator_insertion&quot; within the replica names</span>
+</span><span id="L-404"><a href="#L-404"><span class="linenos">404</span></a><span class="sd">        by &quot;|%s&quot; % (separator_insertion) when constructing the names of the replica.</span>
+</span><span id="L-405"><a href="#L-405"><span class="linenos">405</span></a><span class="sd">        int: Insert the separator &quot;|&quot; at the position given by separator_insertion.</span>
+</span><span id="L-406"><a href="#L-406"><span class="linenos">406</span></a><span class="sd">        True (default): separator &quot;|&quot; is inserted after len(ensname), assuming that the</span>
+</span><span id="L-407"><a href="#L-407"><span class="linenos">407</span></a><span class="sd">        ensemble name is a prefix to the replica name.</span>
+</span><span id="L-408"><a href="#L-408"><span class="linenos">408</span></a><span class="sd">        None or False: No separator is inserted.</span>
+</span><span id="L-409"><a href="#L-409"><span class="linenos">409</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-410"><a href="#L-410"><span class="linenos">410</span></a>
+</span><span id="L-411"><a href="#L-411"><span class="linenos">411</span></a>    <span class="n">root</span> <span class="o">=</span> <span class="n">et</span><span class="o">.</span><span class="n">fromstring</span><span class="p">(</span><span class="n">content</span><span class="p">)</span>
+</span><span id="L-412"><a href="#L-412"><span class="linenos">412</span></a>
+</span><span id="L-413"><a href="#L-413"><span class="linenos">413</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">)</span>
+</span><span id="L-414"><a href="#L-414"><span class="linenos">414</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;SCHEMA&#39;</span><span class="p">)</span>
+</span><span id="L-415"><a href="#L-415"><span class="linenos">415</span></a>    <span class="n">version</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-416"><a href="#L-416"><span class="linenos">416</span></a>
+</span><span id="L-417"><a href="#L-417"><span class="linenos">417</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;origin&#39;</span><span class="p">)</span>
+</span><span id="L-418"><a href="#L-418"><span class="linenos">418</span></a>    <span class="n">file_origin</span> <span class="o">=</span> <span class="n">_etree_to_dict</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">])[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span>
+</span><span id="L-419"><a href="#L-419"><span class="linenos">419</span></a>
+</span><span id="L-420"><a href="#L-420"><span class="linenos">420</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;dobs&#39;</span><span class="p">)</span>
+</span><span id="L-421"><a href="#L-421"><span class="linenos">421</span></a>
+</span><span id="L-422"><a href="#L-422"><span class="linenos">422</span></a>    <span class="n">dobs</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="L-423"><a href="#L-423"><span class="linenos">423</span></a>
+</span><span id="L-424"><a href="#L-424"><span class="linenos">424</span></a>    <span class="n">descriptiond</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-425"><a href="#L-425"><span class="linenos">425</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">3</span><span class="p">):</span>
+</span><span id="L-426"><a href="#L-426"><span class="linenos">426</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="n">dobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span> <span class="o">=</span> <span class="n">dobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-427"><a href="#L-427"><span class="linenos">427</span></a>
+</span><span id="L-428"><a href="#L-428"><span class="linenos">428</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;array&#39;</span><span class="p">)</span>
+</span><span id="L-429"><a href="#L-429"><span class="linenos">429</span></a>
+</span><span id="L-430"><a href="#L-430"><span class="linenos">430</span></a>    <span class="n">symbol</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-431"><a href="#L-431"><span class="linenos">431</span></a>    <span class="k">if</span> <span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;symbol&#39;</span><span class="p">:</span>
+</span><span id="L-432"><a href="#L-432"><span class="linenos">432</span></a>        <span class="n">symbol</span> <span class="o">=</span> <span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-433"><a href="#L-433"><span class="linenos">433</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">symbol</span>
+</span><span id="L-434"><a href="#L-434"><span class="linenos">434</span></a>    <span class="n">mean</span> <span class="o">=</span> <span class="n">_import_array</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">])[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-435"><a href="#L-435"><span class="linenos">435</span></a>
+</span><span id="L-436"><a href="#L-436"><span class="linenos">436</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;ne&quot;</span><span class="p">)</span>
+</span><span id="L-437"><a href="#L-437"><span class="linenos">437</span></a>    <span class="n">ne</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
+</span><span id="L-438"><a href="#L-438"><span class="linenos">438</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;nc&quot;</span><span class="p">)</span>
+</span><span id="L-439"><a href="#L-439"><span class="linenos">439</span></a>    <span class="n">nc</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
+</span><span id="L-440"><a href="#L-440"><span class="linenos">440</span></a>
+</span><span id="L-441"><a href="#L-441"><span class="linenos">441</span></a>    <span class="n">idld</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-442"><a href="#L-442"><span class="linenos">442</span></a>    <span class="n">deltad</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-443"><a href="#L-443"><span class="linenos">443</span></a>    <span class="n">covd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-444"><a href="#L-444"><span class="linenos">444</span></a>    <span class="n">gradd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-445"><a href="#L-445"><span class="linenos">445</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-446"><a href="#L-446"><span class="linenos">446</span></a>    <span class="n">e_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-447"><a href="#L-447"><span class="linenos">447</span></a>    <span class="n">enstags</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-448"><a href="#L-448"><span class="linenos">448</span></a>    <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">6</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">dobs</span><span class="p">))):</span>
+</span><span id="L-449"><a href="#L-449"><span class="linenos">449</span></a>        <span class="k">if</span> <span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;edata&quot;</span><span class="p">:</span>
+</span><span id="L-450"><a href="#L-450"><span class="linenos">450</span></a>            <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;enstag&quot;</span><span class="p">)</span>
+</span><span id="L-451"><a href="#L-451"><span class="linenos">451</span></a>            <span class="n">ename</span> <span class="o">=</span> <span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-452"><a href="#L-452"><span class="linenos">452</span></a>            <span class="n">e_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ename</span><span class="p">)</span>
+</span><span id="L-453"><a href="#L-453"><span class="linenos">453</span></a>            <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;nr&quot;</span><span class="p">)</span>
+</span><span id="L-454"><a href="#L-454"><span class="linenos">454</span></a>            <span class="n">R</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
+</span><span id="L-455"><a href="#L-455"><span class="linenos">455</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">R</span><span class="p">):</span>
+</span><span id="L-456"><a href="#L-456"><span class="linenos">456</span></a>                <span class="n">deltas</span><span class="p">,</span> <span class="n">rname</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_import_rdata</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-457"><a href="#L-457"><span class="linenos">457</span></a>                <span class="k">if</span> <span class="n">separator_insertion</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="kc">False</span><span class="p">:</span>
+</span><span id="L-458"><a href="#L-458"><span class="linenos">458</span></a>                    <span class="k">pass</span>
+</span><span id="L-459"><a href="#L-459"><span class="linenos">459</span></a>                <span class="k">elif</span> <span class="n">separator_insertion</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-460"><a href="#L-460"><span class="linenos">460</span></a>                    <span class="k">if</span> <span class="n">rname</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">ename</span><span class="p">):</span>
+</span><span id="L-461"><a href="#L-461"><span class="linenos">461</span></a>                        <span class="n">rname</span> <span class="o">=</span> <span class="n">rname</span><span class="p">[:</span><span class="nb">len</span><span class="p">(</span><span class="n">ename</span><span class="p">)]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">rname</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">ename</span><span class="p">):]</span>
+</span><span id="L-462"><a href="#L-462"><span class="linenos">462</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
+</span><span id="L-463"><a href="#L-463"><span class="linenos">463</span></a>                    <span class="n">rname</span> <span class="o">=</span> <span class="n">rname</span><span class="p">[:</span><span class="n">separator_insertion</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">rname</span><span class="p">[</span><span class="n">separator_insertion</span><span class="p">:]</span>
+</span><span id="L-464"><a href="#L-464"><span class="linenos">464</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="L-465"><a href="#L-465"><span class="linenos">465</span></a>                    <span class="n">rname</span> <span class="o">=</span> <span class="n">rname</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="s2">&quot;|</span><span class="si">%s</span><span class="s2">&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
+</span><span id="L-466"><a href="#L-466"><span class="linenos">466</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-467"><a href="#L-467"><span class="linenos">467</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;separator_insertion has to be string or int, is &quot;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
+</span><span id="L-468"><a href="#L-468"><span class="linenos">468</span></a>                <span class="k">if</span> <span class="s1">&#39;|&#39;</span> <span class="ow">in</span> <span class="n">rname</span><span class="p">:</span>
+</span><span id="L-469"><a href="#L-469"><span class="linenos">469</span></a>                    <span class="n">new_ename</span> <span class="o">=</span> <span class="n">rname</span><span class="p">[:</span><span class="n">rname</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)]</span>
+</span><span id="L-470"><a href="#L-470"><span class="linenos">470</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-471"><a href="#L-471"><span class="linenos">471</span></a>                    <span class="n">new_ename</span> <span class="o">=</span> <span class="n">ename</span>
+</span><span id="L-472"><a href="#L-472"><span class="linenos">472</span></a>                <span class="n">enstags</span><span class="p">[</span><span class="n">new_ename</span><span class="p">]</span> <span class="o">=</span> <span class="n">ename</span>
+</span><span id="L-473"><a href="#L-473"><span class="linenos">473</span></a>                <span class="n">idld</span><span class="p">[</span><span class="n">rname</span><span class="p">]</span> <span class="o">=</span> <span class="n">idx</span>
+</span><span id="L-474"><a href="#L-474"><span class="linenos">474</span></a>                <span class="n">deltad</span><span class="p">[</span><span class="n">rname</span><span class="p">]</span> <span class="o">=</span> <span class="n">deltas</span>
+</span><span id="L-475"><a href="#L-475"><span class="linenos">475</span></a>                <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rname</span><span class="p">)</span>
+</span><span id="L-476"><a href="#L-476"><span class="linenos">476</span></a>        <span class="k">elif</span> <span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;cdata&quot;</span><span class="p">:</span>
+</span><span id="L-477"><a href="#L-477"><span class="linenos">477</span></a>            <span class="n">cname</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">grad</span> <span class="o">=</span> <span class="n">_import_cdata</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">])</span>
+</span><span id="L-478"><a href="#L-478"><span class="linenos">478</span></a>            <span class="n">covd</span><span class="p">[</span><span class="n">cname</span><span class="p">]</span> <span class="o">=</span> <span class="n">cov</span>
+</span><span id="L-479"><a href="#L-479"><span class="linenos">479</span></a>            <span class="k">if</span> <span class="n">grad</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-480"><a href="#L-480"><span class="linenos">480</span></a>                <span class="n">gradd</span><span class="p">[</span><span class="n">cname</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">grad</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">mean</span><span class="p">))]</span>
+</span><span id="L-481"><a href="#L-481"><span class="linenos">481</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-482"><a href="#L-482"><span class="linenos">482</span></a>                <span class="n">gradd</span><span class="p">[</span><span class="n">cname</span><span class="p">]</span> <span class="o">=</span> <span class="n">grad</span><span class="o">.</span><span class="n">T</span>
+</span><span id="L-483"><a href="#L-483"><span class="linenos">483</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-484"><a href="#L-484"><span class="linenos">484</span></a>            <span class="n">_check</span><span class="p">(</span><span class="kc">False</span><span class="p">)</span>
+</span><span id="L-485"><a href="#L-485"><span class="linenos">485</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">names</span><span class="p">))</span>
+</span><span id="L-486"><a href="#L-486"><span class="linenos">486</span></a>
+</span><span id="L-487"><a href="#L-487"><span class="linenos">487</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">:</span>
+</span><span id="L-488"><a href="#L-488"><span class="linenos">488</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">])):</span>
+</span><span id="L-489"><a href="#L-489"><span class="linenos">489</span></a>            <span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span> <span class="o">+</span> <span class="n">mean</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="L-490"><a href="#L-490"><span class="linenos">490</span></a>
+</span><span id="L-491"><a href="#L-491"><span class="linenos">491</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-492"><a href="#L-492"><span class="linenos">492</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">mean</span><span class="p">)):</span>
+</span><span id="L-493"><a href="#L-493"><span class="linenos">493</span></a>        <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-494"><a href="#L-494"><span class="linenos">494</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-495"><a href="#L-495"><span class="linenos">495</span></a>        <span class="n">obs_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-496"><a href="#L-496"><span class="linenos">496</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">:</span>
+</span><span id="L-497"><a href="#L-497"><span class="linenos">497</span></a>            <span class="n">h</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-498"><a href="#L-498"><span class="linenos">498</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">h</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">h</span> <span class="o">==</span> <span class="n">mean</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="ow">and</span> <span class="n">noempty</span><span class="p">:</span>
+</span><span id="L-499"><a href="#L-499"><span class="linenos">499</span></a>                <span class="k">continue</span>
+</span><span id="L-500"><a href="#L-500"><span class="linenos">500</span></a>            <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-501"><a href="#L-501"><span class="linenos">501</span></a>            <span class="n">obs_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="L-502"><a href="#L-502"><span class="linenos">502</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">idld</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="L-503"><a href="#L-503"><span class="linenos">503</span></a>        <span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">obs_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
+</span><span id="L-504"><a href="#L-504"><span class="linenos">504</span></a>    <span class="nb">print</span><span class="p">(</span><span class="n">mean</span><span class="p">,</span> <span class="s1">&#39;vs&#39;</span><span class="p">,</span> <span class="n">res</span><span class="p">)</span>
+</span><span id="L-505"><a href="#L-505"><span class="linenos">505</span></a>    <span class="n">_check</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">e_names</span><span class="p">)</span> <span class="o">==</span> <span class="n">ne</span><span class="p">)</span>
+</span><span id="L-506"><a href="#L-506"><span class="linenos">506</span></a>
+</span><span id="L-507"><a href="#L-507"><span class="linenos">507</span></a>    <span class="n">cnames</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">covd</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
+</span><span id="L-508"><a href="#L-508"><span class="linenos">508</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">)):</span>
+</span><span id="L-509"><a href="#L-509"><span class="linenos">509</span></a>        <span class="n">new_covobs</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">Covobs</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="n">covd</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">name</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="n">gradd</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cnames</span><span class="p">}</span>
+</span><span id="L-510"><a href="#L-510"><span class="linenos">510</span></a>        <span class="k">if</span> <span class="n">noempty</span><span class="p">:</span>
+</span><span id="L-511"><a href="#L-511"><span class="linenos">511</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cnames</span><span class="p">:</span>
+</span><span id="L-512"><a href="#L-512"><span class="linenos">512</span></a>                <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">new_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span> <span class="o">==</span> <span class="mi">0</span><span class="p">):</span>
+</span><span id="L-513"><a href="#L-513"><span class="linenos">513</span></a>                    <span class="k">del</span> <span class="n">new_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-514"><a href="#L-514"><span class="linenos">514</span></a>            <span class="n">cnames_loc</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">new_covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
+</span><span id="L-515"><a href="#L-515"><span class="linenos">515</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-516"><a href="#L-516"><span class="linenos">516</span></a>            <span class="n">cnames_loc</span> <span class="o">=</span> <span class="n">cnames</span>
+</span><span id="L-517"><a href="#L-517"><span class="linenos">517</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cnames_loc</span><span class="p">:</span>
+</span><span id="L-518"><a href="#L-518"><span class="linenos">518</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="L-519"><a href="#L-519"><span class="linenos">519</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-520"><a href="#L-520"><span class="linenos">520</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-521"><a href="#L-521"><span class="linenos">521</span></a>        <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="n">new_covobs</span>
+</span><span id="L-522"><a href="#L-522"><span class="linenos">522</span></a>
+</span><span id="L-523"><a href="#L-523"><span class="linenos">523</span></a>    <span class="k">if</span> <span class="n">symbol</span><span class="p">:</span>
+</span><span id="L-524"><a href="#L-524"><span class="linenos">524</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">)):</span>
+</span><span id="L-525"><a href="#L-525"><span class="linenos">525</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">symbol</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="L-526"><a href="#L-526"><span class="linenos">526</span></a>            <span class="k">if</span> <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;None&#39;</span><span class="p">:</span>
+</span><span id="L-527"><a href="#L-527"><span class="linenos">527</span></a>                <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-528"><a href="#L-528"><span class="linenos">528</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">noempty</span><span class="p">:</span>
+</span><span id="L-529"><a href="#L-529"><span class="linenos">529</span></a>        <span class="n">_check</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span> <span class="o">==</span> <span class="n">nc</span><span class="p">)</span>
+</span><span id="L-530"><a href="#L-530"><span class="linenos">530</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
+</span><span id="L-531"><a href="#L-531"><span class="linenos">531</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-532"><a href="#L-532"><span class="linenos">532</span></a>        <span class="n">tool</span> <span class="o">=</span> <span class="n">file_origin</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tool&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="L-533"><a href="#L-533"><span class="linenos">533</span></a>        <span class="k">if</span> <span class="n">tool</span><span class="p">:</span>
+</span><span id="L-534"><a href="#L-534"><span class="linenos">534</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">+</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span>
+</span><span id="L-535"><a href="#L-535"><span class="linenos">535</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-536"><a href="#L-536"><span class="linenos">536</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-537"><a href="#L-537"><span class="linenos">537</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">program</span>
+</span><span id="L-538"><a href="#L-538"><span class="linenos">538</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">version</span>
+</span><span id="L-539"><a href="#L-539"><span class="linenos">539</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span>
+</span><span id="L-540"><a href="#L-540"><span class="linenos">540</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span>
+</span><span id="L-541"><a href="#L-541"><span class="linenos">541</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span>
+</span><span id="L-542"><a href="#L-542"><span class="linenos">542</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">descriptiond</span>
+</span><span id="L-543"><a href="#L-543"><span class="linenos">543</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;enstags&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">enstags</span>
+</span><span id="L-544"><a href="#L-544"><span class="linenos">544</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">res</span>
+</span><span id="L-545"><a href="#L-545"><span class="linenos">545</span></a>        <span class="k">return</span> <span class="n">retd</span>
+</span><span id="L-546"><a href="#L-546"><span class="linenos">546</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-547"><a href="#L-547"><span class="linenos">547</span></a>        <span class="k">return</span> <span class="n">res</span>
 </span><span id="L-548"><a href="#L-548"><span class="linenos">548</span></a>
-</span><span id="L-549"><a href="#L-549"><span class="linenos">549</span></a><span class="k">def</span> <span class="nf">read_dobs</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">noempty</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="L-550"><a href="#L-550"><span class="linenos">550</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs from an xml.gz file in the Zeuthen dobs format.</span>
-</span><span id="L-551"><a href="#L-551"><span class="linenos">551</span></a>
-</span><span id="L-552"><a href="#L-552"><span class="linenos">552</span></a><span class="sd">    Tags are not written or recovered automatically.</span>
-</span><span id="L-553"><a href="#L-553"><span class="linenos">553</span></a>
-</span><span id="L-554"><a href="#L-554"><span class="linenos">554</span></a><span class="sd">    Parameters</span>
-</span><span id="L-555"><a href="#L-555"><span class="linenos">555</span></a><span class="sd">    ----------</span>
-</span><span id="L-556"><a href="#L-556"><span class="linenos">556</span></a><span class="sd">    fname : str</span>
-</span><span id="L-557"><a href="#L-557"><span class="linenos">557</span></a><span class="sd">        Filename of the input file.</span>
-</span><span id="L-558"><a href="#L-558"><span class="linenos">558</span></a><span class="sd">    noemtpy : bool</span>
-</span><span id="L-559"><a href="#L-559"><span class="linenos">559</span></a><span class="sd">        If True, ensembles with no contribution to the Obs are not included.</span>
-</span><span id="L-560"><a href="#L-560"><span class="linenos">560</span></a><span class="sd">        If False, ensembles are included as written in the file.</span>
-</span><span id="L-561"><a href="#L-561"><span class="linenos">561</span></a><span class="sd">    full_output : bool</span>
-</span><span id="L-562"><a href="#L-562"><span class="linenos">562</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="L-563"><a href="#L-563"><span class="linenos">563</span></a><span class="sd">        If False, only the data is returned as list.</span>
-</span><span id="L-564"><a href="#L-564"><span class="linenos">564</span></a><span class="sd">    gz : bool</span>
-</span><span id="L-565"><a href="#L-565"><span class="linenos">565</span></a><span class="sd">        If True, assumes that data is gzipped. If False, assumes XML file.</span>
-</span><span id="L-566"><a href="#L-566"><span class="linenos">566</span></a><span class="sd">    separatior_insertion: str, int or bool</span>
-</span><span id="L-567"><a href="#L-567"><span class="linenos">567</span></a><span class="sd">        str: replace all occurences of &quot;separator_insertion&quot; within the replica names</span>
-</span><span id="L-568"><a href="#L-568"><span class="linenos">568</span></a><span class="sd">        by &quot;|%s&quot; % (separator_insertion) when constructing the names of the replica.</span>
-</span><span id="L-569"><a href="#L-569"><span class="linenos">569</span></a><span class="sd">        int: Insert the separator &quot;|&quot; at the position given by separator_insertion.</span>
-</span><span id="L-570"><a href="#L-570"><span class="linenos">570</span></a><span class="sd">        True (default): separator &quot;|&quot; is inserted after len(ensname), assuming that the</span>
-</span><span id="L-571"><a href="#L-571"><span class="linenos">571</span></a><span class="sd">        ensemble name is a prefix to the replica name.</span>
-</span><span id="L-572"><a href="#L-572"><span class="linenos">572</span></a><span class="sd">        None or False: No separator is inserted.</span>
-</span><span id="L-573"><a href="#L-573"><span class="linenos">573</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-574"><a href="#L-574"><span class="linenos">574</span></a>
-</span><span id="L-575"><a href="#L-575"><span class="linenos">575</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-576"><a href="#L-576"><span class="linenos">576</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
-</span><span id="L-577"><a href="#L-577"><span class="linenos">577</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
-</span><span id="L-578"><a href="#L-578"><span class="linenos">578</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-579"><a href="#L-579"><span class="linenos">579</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
-</span><span id="L-580"><a href="#L-580"><span class="linenos">580</span></a>        <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
-</span><span id="L-581"><a href="#L-581"><span class="linenos">581</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-582"><a href="#L-582"><span class="linenos">582</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-583"><a href="#L-583"><span class="linenos">583</span></a>        <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-584"><a href="#L-584"><span class="linenos">584</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!&quot;</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
-</span><span id="L-585"><a href="#L-585"><span class="linenos">585</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
-</span><span id="L-586"><a href="#L-586"><span class="linenos">586</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
-</span><span id="L-587"><a href="#L-587"><span class="linenos">587</span></a>
-</span><span id="L-588"><a href="#L-588"><span class="linenos">588</span></a>    <span class="c1"># open and read gzipped xml file</span>
-</span><span id="L-589"><a href="#L-589"><span class="linenos">589</span></a>    <span class="n">infile</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">)</span>
-</span><span id="L-590"><a href="#L-590"><span class="linenos">590</span></a>    <span class="n">content</span> <span class="o">=</span> <span class="n">infile</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
-</span><span id="L-591"><a href="#L-591"><span class="linenos">591</span></a>
-</span><span id="L-592"><a href="#L-592"><span class="linenos">592</span></a>    <span class="k">return</span> <span class="n">import_dobs_string</span><span class="p">(</span><span class="n">content</span><span class="p">,</span> <span class="n">noempty</span><span class="p">,</span> <span class="n">full_output</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="n">separator_insertion</span><span class="p">)</span>
-</span><span id="L-593"><a href="#L-593"><span class="linenos">593</span></a>
+</span><span id="L-549"><a href="#L-549"><span class="linenos">549</span></a>
+</span><span id="L-550"><a href="#L-550"><span class="linenos">550</span></a><span class="k">def</span> <span class="nf">read_dobs</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">noempty</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="L-551"><a href="#L-551"><span class="linenos">551</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs from an xml.gz file in the Zeuthen dobs format.</span>
+</span><span id="L-552"><a href="#L-552"><span class="linenos">552</span></a>
+</span><span id="L-553"><a href="#L-553"><span class="linenos">553</span></a><span class="sd">    Tags are not written or recovered automatically.</span>
+</span><span id="L-554"><a href="#L-554"><span class="linenos">554</span></a>
+</span><span id="L-555"><a href="#L-555"><span class="linenos">555</span></a><span class="sd">    Parameters</span>
+</span><span id="L-556"><a href="#L-556"><span class="linenos">556</span></a><span class="sd">    ----------</span>
+</span><span id="L-557"><a href="#L-557"><span class="linenos">557</span></a><span class="sd">    fname : str</span>
+</span><span id="L-558"><a href="#L-558"><span class="linenos">558</span></a><span class="sd">        Filename of the input file.</span>
+</span><span id="L-559"><a href="#L-559"><span class="linenos">559</span></a><span class="sd">    noemtpy : bool</span>
+</span><span id="L-560"><a href="#L-560"><span class="linenos">560</span></a><span class="sd">        If True, ensembles with no contribution to the Obs are not included.</span>
+</span><span id="L-561"><a href="#L-561"><span class="linenos">561</span></a><span class="sd">        If False, ensembles are included as written in the file.</span>
+</span><span id="L-562"><a href="#L-562"><span class="linenos">562</span></a><span class="sd">    full_output : bool</span>
+</span><span id="L-563"><a href="#L-563"><span class="linenos">563</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="L-564"><a href="#L-564"><span class="linenos">564</span></a><span class="sd">        If False, only the data is returned as list.</span>
+</span><span id="L-565"><a href="#L-565"><span class="linenos">565</span></a><span class="sd">    gz : bool</span>
+</span><span id="L-566"><a href="#L-566"><span class="linenos">566</span></a><span class="sd">        If True, assumes that data is gzipped. If False, assumes XML file.</span>
+</span><span id="L-567"><a href="#L-567"><span class="linenos">567</span></a><span class="sd">    separatior_insertion: str, int or bool</span>
+</span><span id="L-568"><a href="#L-568"><span class="linenos">568</span></a><span class="sd">        str: replace all occurences of &quot;separator_insertion&quot; within the replica names</span>
+</span><span id="L-569"><a href="#L-569"><span class="linenos">569</span></a><span class="sd">        by &quot;|%s&quot; % (separator_insertion) when constructing the names of the replica.</span>
+</span><span id="L-570"><a href="#L-570"><span class="linenos">570</span></a><span class="sd">        int: Insert the separator &quot;|&quot; at the position given by separator_insertion.</span>
+</span><span id="L-571"><a href="#L-571"><span class="linenos">571</span></a><span class="sd">        True (default): separator &quot;|&quot; is inserted after len(ensname), assuming that the</span>
+</span><span id="L-572"><a href="#L-572"><span class="linenos">572</span></a><span class="sd">        ensemble name is a prefix to the replica name.</span>
+</span><span id="L-573"><a href="#L-573"><span class="linenos">573</span></a><span class="sd">        None or False: No separator is inserted.</span>
+</span><span id="L-574"><a href="#L-574"><span class="linenos">574</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-575"><a href="#L-575"><span class="linenos">575</span></a>
+</span><span id="L-576"><a href="#L-576"><span class="linenos">576</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-577"><a href="#L-577"><span class="linenos">577</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
+</span><span id="L-578"><a href="#L-578"><span class="linenos">578</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
+</span><span id="L-579"><a href="#L-579"><span class="linenos">579</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-580"><a href="#L-580"><span class="linenos">580</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
+</span><span id="L-581"><a href="#L-581"><span class="linenos">581</span></a>        <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+</span><span id="L-582"><a href="#L-582"><span class="linenos">582</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-583"><a href="#L-583"><span class="linenos">583</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-584"><a href="#L-584"><span class="linenos">584</span></a>        <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-585"><a href="#L-585"><span class="linenos">585</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!&quot;</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
+</span><span id="L-586"><a href="#L-586"><span class="linenos">586</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+</span><span id="L-587"><a href="#L-587"><span class="linenos">587</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
+</span><span id="L-588"><a href="#L-588"><span class="linenos">588</span></a>
+</span><span id="L-589"><a href="#L-589"><span class="linenos">589</span></a>    <span class="c1"># open and read gzipped xml file</span>
+</span><span id="L-590"><a href="#L-590"><span class="linenos">590</span></a>    <span class="n">infile</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">)</span>
+</span><span id="L-591"><a href="#L-591"><span class="linenos">591</span></a>    <span class="n">content</span> <span class="o">=</span> <span class="n">infile</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
+</span><span id="L-592"><a href="#L-592"><span class="linenos">592</span></a>
+</span><span id="L-593"><a href="#L-593"><span class="linenos">593</span></a>    <span class="k">return</span> <span class="n">import_dobs_string</span><span class="p">(</span><span class="n">content</span><span class="p">,</span> <span class="n">noempty</span><span class="p">,</span> <span class="n">full_output</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="n">separator_insertion</span><span class="p">)</span>
 </span><span id="L-594"><a href="#L-594"><span class="linenos">594</span></a>
-</span><span id="L-595"><a href="#L-595"><span class="linenos">595</span></a><span class="k">def</span> <span class="nf">_dobsdict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="L-596"><a href="#L-596"><span class="linenos">596</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
-</span><span id="L-597"><a href="#L-597"><span class="linenos">597</span></a>        <span class="n">iters</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-598"><a href="#L-598"><span class="linenos">598</span></a>        <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="n">d</span><span class="p">:</span>
-</span><span id="L-599"><a href="#L-599"><span class="linenos">599</span></a>            <span class="k">if</span> <span class="n">k</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;#value&#39;</span><span class="p">):</span>
-</span><span id="L-600"><a href="#L-600"><span class="linenos">600</span></a>                <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]:</span>
-</span><span id="L-601"><a href="#L-601"><span class="linenos">601</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="n">li</span>
-</span><span id="L-602"><a href="#L-602"><span class="linenos">602</span></a>                <span class="k">return</span> <span class="n">iters</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-603"><a href="#L-603"><span class="linenos">603</span></a>            <span class="k">elif</span> <span class="n">k</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;#&#39;</span><span class="p">):</span>
-</span><span id="L-604"><a href="#L-604"><span class="linenos">604</span></a>                <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]:</span>
-</span><span id="L-605"><a href="#L-605"><span class="linenos">605</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="n">li</span>
-</span><span id="L-606"><a href="#L-606"><span class="linenos">606</span></a>                <span class="n">iters</span> <span class="o">=</span> <span class="s1">&#39;&lt;array&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">iters</span> <span class="o">+</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">array&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">)</span>
-</span><span id="L-607"><a href="#L-607"><span class="linenos">607</span></a>                <span class="k">return</span> <span class="n">iters</span>
-</span><span id="L-608"><a href="#L-608"><span class="linenos">608</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="nb">dict</span><span class="p">):</span>
-</span><span id="L-609"><a href="#L-609"><span class="linenos">609</span></a>                <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">_dobsdict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])</span> <span class="o">+</span> <span class="s1">&#39;&lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
-</span><span id="L-610"><a href="#L-610"><span class="linenos">610</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="L-611"><a href="#L-611"><span class="linenos">611</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])</span> <span class="o">&gt;</span> <span class="mi">100</span><span class="p">:</span>
-</span><span id="L-612"><a href="#L-612"><span class="linenos">612</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; </span><span class="se">\n</span><span class="s1">&lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
-</span><span id="L-613"><a href="#L-613"><span class="linenos">613</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-614"><a href="#L-614"><span class="linenos">614</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt; &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; &lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
-</span><span id="L-615"><a href="#L-615"><span class="linenos">615</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-616"><a href="#L-616"><span class="linenos">616</span></a>                <span class="n">tmps</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-617"><a href="#L-617"><span class="linenos">617</span></a>                <span class="k">if</span> <span class="n">k</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;edata&#39;</span><span class="p">,</span> <span class="s1">&#39;cdata&#39;</span><span class="p">]:</span>
-</span><span id="L-618"><a href="#L-618"><span class="linenos">618</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])):</span>
-</span><span id="L-619"><a href="#L-619"><span class="linenos">619</span></a>                        <span class="n">tmps</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">_dobsdict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">i</span><span class="p">])</span> <span class="o">+</span> <span class="s1">&#39;&lt;/</span><span class="si">%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span>
-</span><span id="L-620"><a href="#L-620"><span class="linenos">620</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-621"><a href="#L-621"><span class="linenos">621</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])):</span>
-</span><span id="L-622"><a href="#L-622"><span class="linenos">622</span></a>                        <span class="n">tmps</span> <span class="o">+=</span> <span class="n">_dobsdict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
-</span><span id="L-623"><a href="#L-623"><span class="linenos">623</span></a>                <span class="n">iters</span> <span class="o">+=</span> <span class="n">tmps</span>
-</span><span id="L-624"><a href="#L-624"><span class="linenos">624</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
-</span><span id="L-625"><a href="#L-625"><span class="linenos">625</span></a>                <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt; &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])</span> <span class="o">+</span> <span class="s1">&#39; &lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
-</span><span id="L-626"><a href="#L-626"><span class="linenos">626</span></a>            <span class="k">elif</span> <span class="ow">not</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]:</span>
-</span><span id="L-627"><a href="#L-627"><span class="linenos">627</span></a>                <span class="k">return</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-628"><a href="#L-628"><span class="linenos">628</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-629"><a href="#L-629"><span class="linenos">629</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Type&#39;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]),</span> <span class="s1">&#39;not supported in export!&#39;</span><span class="p">)</span>
-</span><span id="L-630"><a href="#L-630"><span class="linenos">630</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-631"><a href="#L-631"><span class="linenos">631</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Type&#39;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">d</span><span class="p">),</span> <span class="s1">&#39;not supported in export!&#39;</span><span class="p">)</span>
-</span><span id="L-632"><a href="#L-632"><span class="linenos">632</span></a>    <span class="k">return</span> <span class="n">iters</span>
-</span><span id="L-633"><a href="#L-633"><span class="linenos">633</span></a>
+</span><span id="L-595"><a href="#L-595"><span class="linenos">595</span></a>
+</span><span id="L-596"><a href="#L-596"><span class="linenos">596</span></a><span class="k">def</span> <span class="nf">_dobsdict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="L-597"><a href="#L-597"><span class="linenos">597</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
+</span><span id="L-598"><a href="#L-598"><span class="linenos">598</span></a>        <span class="n">iters</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-599"><a href="#L-599"><span class="linenos">599</span></a>        <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="n">d</span><span class="p">:</span>
+</span><span id="L-600"><a href="#L-600"><span class="linenos">600</span></a>            <span class="k">if</span> <span class="n">k</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;#value&#39;</span><span class="p">):</span>
+</span><span id="L-601"><a href="#L-601"><span class="linenos">601</span></a>                <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]:</span>
+</span><span id="L-602"><a href="#L-602"><span class="linenos">602</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="n">li</span>
+</span><span id="L-603"><a href="#L-603"><span class="linenos">603</span></a>                <span class="k">return</span> <span class="n">iters</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-604"><a href="#L-604"><span class="linenos">604</span></a>            <span class="k">elif</span> <span class="n">k</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;#&#39;</span><span class="p">):</span>
+</span><span id="L-605"><a href="#L-605"><span class="linenos">605</span></a>                <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]:</span>
+</span><span id="L-606"><a href="#L-606"><span class="linenos">606</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="n">li</span>
+</span><span id="L-607"><a href="#L-607"><span class="linenos">607</span></a>                <span class="n">iters</span> <span class="o">=</span> <span class="s1">&#39;&lt;array&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">iters</span> <span class="o">+</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">array&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">)</span>
+</span><span id="L-608"><a href="#L-608"><span class="linenos">608</span></a>                <span class="k">return</span> <span class="n">iters</span>
+</span><span id="L-609"><a href="#L-609"><span class="linenos">609</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="nb">dict</span><span class="p">):</span>
+</span><span id="L-610"><a href="#L-610"><span class="linenos">610</span></a>                <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">_dobsdict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])</span> <span class="o">+</span> <span class="s1">&#39;&lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
+</span><span id="L-611"><a href="#L-611"><span class="linenos">611</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="L-612"><a href="#L-612"><span class="linenos">612</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])</span> <span class="o">&gt;</span> <span class="mi">100</span><span class="p">:</span>
+</span><span id="L-613"><a href="#L-613"><span class="linenos">613</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; </span><span class="se">\n</span><span class="s1">&lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
+</span><span id="L-614"><a href="#L-614"><span class="linenos">614</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-615"><a href="#L-615"><span class="linenos">615</span></a>                    <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt; &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; &lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
+</span><span id="L-616"><a href="#L-616"><span class="linenos">616</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-617"><a href="#L-617"><span class="linenos">617</span></a>                <span class="n">tmps</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-618"><a href="#L-618"><span class="linenos">618</span></a>                <span class="k">if</span> <span class="n">k</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;edata&#39;</span><span class="p">,</span> <span class="s1">&#39;cdata&#39;</span><span class="p">]:</span>
+</span><span id="L-619"><a href="#L-619"><span class="linenos">619</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])):</span>
+</span><span id="L-620"><a href="#L-620"><span class="linenos">620</span></a>                        <span class="n">tmps</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="n">_dobsdict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">i</span><span class="p">])</span> <span class="o">+</span> <span class="s1">&#39;&lt;/</span><span class="si">%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span>
+</span><span id="L-621"><a href="#L-621"><span class="linenos">621</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-622"><a href="#L-622"><span class="linenos">622</span></a>                    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])):</span>
+</span><span id="L-623"><a href="#L-623"><span class="linenos">623</span></a>                        <span class="n">tmps</span> <span class="o">+=</span> <span class="n">_dobsdict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-624"><a href="#L-624"><span class="linenos">624</span></a>                <span class="n">iters</span> <span class="o">+=</span> <span class="n">tmps</span>
+</span><span id="L-625"><a href="#L-625"><span class="linenos">625</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">],</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
+</span><span id="L-626"><a href="#L-626"><span class="linenos">626</span></a>                <span class="n">iters</span> <span class="o">+=</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&gt; &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">k</span><span class="p">)</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">])</span> <span class="o">+</span> <span class="s1">&#39; &lt;</span><span class="si">%s%s</span><span class="s1">&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
+</span><span id="L-627"><a href="#L-627"><span class="linenos">627</span></a>            <span class="k">elif</span> <span class="ow">not</span> <span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]:</span>
+</span><span id="L-628"><a href="#L-628"><span class="linenos">628</span></a>                <span class="k">return</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-629"><a href="#L-629"><span class="linenos">629</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-630"><a href="#L-630"><span class="linenos">630</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Type&#39;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">d</span><span class="p">[</span><span class="n">k</span><span class="p">]),</span> <span class="s1">&#39;not supported in export!&#39;</span><span class="p">)</span>
+</span><span id="L-631"><a href="#L-631"><span class="linenos">631</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-632"><a href="#L-632"><span class="linenos">632</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Type&#39;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">d</span><span class="p">),</span> <span class="s1">&#39;not supported in export!&#39;</span><span class="p">)</span>
+</span><span id="L-633"><a href="#L-633"><span class="linenos">633</span></a>    <span class="k">return</span> <span class="n">iters</span>
 </span><span id="L-634"><a href="#L-634"><span class="linenos">634</span></a>
-</span><span id="L-635"><a href="#L-635"><span class="linenos">635</span></a><span class="k">def</span> <span class="nf">_dobsdict_to_xmlstring_spaces</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">space</span><span class="o">=</span><span class="s1">&#39;  &#39;</span><span class="p">):</span>
-</span><span id="L-636"><a href="#L-636"><span class="linenos">636</span></a>    <span class="n">s</span> <span class="o">=</span> <span class="n">_dobsdict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">)</span>
-</span><span id="L-637"><a href="#L-637"><span class="linenos">637</span></a>    <span class="n">o</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-638"><a href="#L-638"><span class="linenos">638</span></a>    <span class="n">c</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-639"><a href="#L-639"><span class="linenos">639</span></a>    <span class="n">cm</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-640"><a href="#L-640"><span class="linenos">640</span></a>    <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">s</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">):</span>
-</span><span id="L-641"><a href="#L-641"><span class="linenos">641</span></a>        <span class="k">if</span> <span class="n">li</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">)):</span>
-</span><span id="L-642"><a href="#L-642"><span class="linenos">642</span></a>            <span class="n">c</span> <span class="o">-=</span> <span class="mi">1</span>
-</span><span id="L-643"><a href="#L-643"><span class="linenos">643</span></a>            <span class="n">cm</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="L-644"><a href="#L-644"><span class="linenos">644</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">c</span><span class="p">):</span>
-</span><span id="L-645"><a href="#L-645"><span class="linenos">645</span></a>            <span class="n">o</span> <span class="o">+=</span> <span class="n">space</span>
-</span><span id="L-646"><a href="#L-646"><span class="linenos">646</span></a>        <span class="n">o</span> <span class="o">+=</span> <span class="n">li</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-647"><a href="#L-647"><span class="linenos">647</span></a>        <span class="k">if</span> <span class="n">li</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;&lt;&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">cm</span><span class="p">:</span>
-</span><span id="L-648"><a href="#L-648"><span class="linenos">648</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">)</span> <span class="ow">in</span> <span class="n">li</span><span class="p">:</span>
-</span><span id="L-649"><a href="#L-649"><span class="linenos">649</span></a>                <span class="n">c</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-650"><a href="#L-650"><span class="linenos">650</span></a>        <span class="n">cm</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-651"><a href="#L-651"><span class="linenos">651</span></a>    <span class="k">return</span> <span class="n">o</span>
-</span><span id="L-652"><a href="#L-652"><span class="linenos">652</span></a>
+</span><span id="L-635"><a href="#L-635"><span class="linenos">635</span></a>
+</span><span id="L-636"><a href="#L-636"><span class="linenos">636</span></a><span class="k">def</span> <span class="nf">_dobsdict_to_xmlstring_spaces</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">space</span><span class="o">=</span><span class="s1">&#39;  &#39;</span><span class="p">):</span>
+</span><span id="L-637"><a href="#L-637"><span class="linenos">637</span></a>    <span class="n">s</span> <span class="o">=</span> <span class="n">_dobsdict_to_xmlstring</span><span class="p">(</span><span class="n">d</span><span class="p">)</span>
+</span><span id="L-638"><a href="#L-638"><span class="linenos">638</span></a>    <span class="n">o</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-639"><a href="#L-639"><span class="linenos">639</span></a>    <span class="n">c</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-640"><a href="#L-640"><span class="linenos">640</span></a>    <span class="n">cm</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-641"><a href="#L-641"><span class="linenos">641</span></a>    <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">s</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">):</span>
+</span><span id="L-642"><a href="#L-642"><span class="linenos">642</span></a>        <span class="k">if</span> <span class="n">li</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">)):</span>
+</span><span id="L-643"><a href="#L-643"><span class="linenos">643</span></a>            <span class="n">c</span> <span class="o">-=</span> <span class="mi">1</span>
+</span><span id="L-644"><a href="#L-644"><span class="linenos">644</span></a>            <span class="n">cm</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="L-645"><a href="#L-645"><span class="linenos">645</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">c</span><span class="p">):</span>
+</span><span id="L-646"><a href="#L-646"><span class="linenos">646</span></a>            <span class="n">o</span> <span class="o">+=</span> <span class="n">space</span>
+</span><span id="L-647"><a href="#L-647"><span class="linenos">647</span></a>        <span class="n">o</span> <span class="o">+=</span> <span class="n">li</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-648"><a href="#L-648"><span class="linenos">648</span></a>        <span class="k">if</span> <span class="n">li</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s1">&#39;&lt;&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">cm</span><span class="p">:</span>
+</span><span id="L-649"><a href="#L-649"><span class="linenos">649</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="s1">&#39;&lt;</span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="s1">&#39;/&#39;</span><span class="p">)</span> <span class="ow">in</span> <span class="n">li</span><span class="p">:</span>
+</span><span id="L-650"><a href="#L-650"><span class="linenos">650</span></a>                <span class="n">c</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-651"><a href="#L-651"><span class="linenos">651</span></a>        <span class="n">cm</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-652"><a href="#L-652"><span class="linenos">652</span></a>    <span class="k">return</span> <span class="n">o</span>
 </span><span id="L-653"><a href="#L-653"><span class="linenos">653</span></a>
-</span><span id="L-654"><a href="#L-654"><span class="linenos">654</span></a><span class="k">def</span> <span class="nf">create_dobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;dobs v1.0&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">who</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">enstags</span><span class="o">=</span><span class="p">{}):</span>
-</span><span id="L-655"><a href="#L-655"><span class="linenos">655</span></a>    <span class="sd">&quot;&quot;&quot;Generate the string for the export of a list of Obs or structures containing Obs</span>
-</span><span id="L-656"><a href="#L-656"><span class="linenos">656</span></a><span class="sd">    to a .xml.gz file according to the Zeuthen dobs format.</span>
-</span><span id="L-657"><a href="#L-657"><span class="linenos">657</span></a>
-</span><span id="L-658"><a href="#L-658"><span class="linenos">658</span></a><span class="sd">    Tags are not written or recovered automatically. The separator |is removed from the replica names.</span>
-</span><span id="L-659"><a href="#L-659"><span class="linenos">659</span></a>
-</span><span id="L-660"><a href="#L-660"><span class="linenos">660</span></a><span class="sd">    Parameters</span>
-</span><span id="L-661"><a href="#L-661"><span class="linenos">661</span></a><span class="sd">    ----------</span>
-</span><span id="L-662"><a href="#L-662"><span class="linenos">662</span></a><span class="sd">    obsl : list</span>
-</span><span id="L-663"><a href="#L-663"><span class="linenos">663</span></a><span class="sd">        List of Obs that will be exported.</span>
-</span><span id="L-664"><a href="#L-664"><span class="linenos">664</span></a><span class="sd">        The Obs inside a structure do not have to be defined on the same set of configurations,</span>
-</span><span id="L-665"><a href="#L-665"><span class="linenos">665</span></a><span class="sd">        but the storage requirement is increased, if this is not the case.</span>
-</span><span id="L-666"><a href="#L-666"><span class="linenos">666</span></a><span class="sd">    name : str</span>
-</span><span id="L-667"><a href="#L-667"><span class="linenos">667</span></a><span class="sd">        The name of the observable.</span>
-</span><span id="L-668"><a href="#L-668"><span class="linenos">668</span></a><span class="sd">    spec : str</span>
-</span><span id="L-669"><a href="#L-669"><span class="linenos">669</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
-</span><span id="L-670"><a href="#L-670"><span class="linenos">670</span></a><span class="sd">    origin : str</span>
-</span><span id="L-671"><a href="#L-671"><span class="linenos">671</span></a><span class="sd">        Specify where the data has its origin.</span>
-</span><span id="L-672"><a href="#L-672"><span class="linenos">672</span></a><span class="sd">    symbol : list</span>
-</span><span id="L-673"><a href="#L-673"><span class="linenos">673</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
-</span><span id="L-674"><a href="#L-674"><span class="linenos">674</span></a><span class="sd">    who : str</span>
-</span><span id="L-675"><a href="#L-675"><span class="linenos">675</span></a><span class="sd">        Provide the name of the person that exports the data.</span>
-</span><span id="L-676"><a href="#L-676"><span class="linenos">676</span></a><span class="sd">    enstags : dict</span>
-</span><span id="L-677"><a href="#L-677"><span class="linenos">677</span></a><span class="sd">        Provide alternative enstag for ensembles in the form enstags = {ename: enstag}</span>
-</span><span id="L-678"><a href="#L-678"><span class="linenos">678</span></a><span class="sd">        Otherwise, the ensemble name is used.</span>
-</span><span id="L-679"><a href="#L-679"><span class="linenos">679</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-680"><a href="#L-680"><span class="linenos">680</span></a>    <span class="n">od</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-681"><a href="#L-681"><span class="linenos">681</span></a>    <span class="n">r_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-682"><a href="#L-682"><span class="linenos">682</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
-</span><span id="L-683"><a href="#L-683"><span class="linenos">683</span></a>        <span class="n">r_names</span> <span class="o">+=</span> <span class="p">[</span><span class="n">name</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">names</span> <span class="k">if</span> <span class="n">name</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">mc_names</span><span class="p">]</span>
-</span><span id="L-684"><a href="#L-684"><span class="linenos">684</span></a>    <span class="n">r_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">r_names</span><span class="p">))</span>
-</span><span id="L-685"><a href="#L-685"><span class="linenos">685</span></a>    <span class="n">mc_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">n</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">r_names</span><span class="p">]))</span>
-</span><span id="L-686"><a href="#L-686"><span class="linenos">686</span></a>    <span class="k">for</span> <span class="n">tmpname</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
-</span><span id="L-687"><a href="#L-687"><span class="linenos">687</span></a>        <span class="k">if</span> <span class="n">tmpname</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">enstags</span><span class="p">:</span>
-</span><span id="L-688"><a href="#L-688"><span class="linenos">688</span></a>            <span class="n">enstags</span><span class="p">[</span><span class="n">tmpname</span><span class="p">]</span> <span class="o">=</span> <span class="n">tmpname</span>
-</span><span id="L-689"><a href="#L-689"><span class="linenos">689</span></a>    <span class="n">ne</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">mc_names</span><span class="p">))</span>
-</span><span id="L-690"><a href="#L-690"><span class="linenos">690</span></a>    <span class="n">cov_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-691"><a href="#L-691"><span class="linenos">691</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
-</span><span id="L-692"><a href="#L-692"><span class="linenos">692</span></a>        <span class="n">cov_names</span> <span class="o">+=</span> <span class="nb">list</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">)</span>
-</span><span id="L-693"><a href="#L-693"><span class="linenos">693</span></a>    <span class="n">cov_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">cov_names</span><span class="p">))</span>
-</span><span id="L-694"><a href="#L-694"><span class="linenos">694</span></a>    <span class="n">nc</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">cov_names</span><span class="p">))</span>
-</span><span id="L-695"><a href="#L-695"><span class="linenos">695</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-696"><a href="#L-696"><span class="linenos">696</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;SCHEMA&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;NAME&#39;</span><span class="p">:</span> <span class="s1">&#39;lattobs&#39;</span><span class="p">,</span> <span class="s1">&#39;VERSION&#39;</span><span class="p">:</span> <span class="s1">&#39;1.0&#39;</span><span class="p">}</span>
-</span><span id="L-697"><a href="#L-697"><span class="linenos">697</span></a>    <span class="k">if</span> <span class="n">who</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-698"><a href="#L-698"><span class="linenos">698</span></a>        <span class="n">who</span> <span class="o">=</span> <span class="n">getpass</span><span class="o">.</span><span class="n">getuser</span><span class="p">()</span>
-</span><span id="L-699"><a href="#L-699"><span class="linenos">699</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span>
-</span><span id="L-700"><a href="#L-700"><span class="linenos">700</span></a>        <span class="s1">&#39;who&#39;</span><span class="p">:</span> <span class="n">who</span><span class="p">,</span>
-</span><span id="L-701"><a href="#L-701"><span class="linenos">701</span></a>        <span class="s1">&#39;date&#39;</span><span class="p">:</span> <span class="nb">str</span><span class="p">(</span><span class="n">datetime</span><span class="o">.</span><span class="n">datetime</span><span class="o">.</span><span class="n">now</span><span class="p">())[:</span><span class="o">-</span><span class="mi">7</span><span class="p">],</span>
-</span><span id="L-702"><a href="#L-702"><span class="linenos">702</span></a>        <span class="s1">&#39;host&#39;</span><span class="p">:</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">(),</span>
-</span><span id="L-703"><a href="#L-703"><span class="linenos">703</span></a>        <span class="s1">&#39;tool&#39;</span><span class="p">:</span> <span class="p">{</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="s1">&#39;pyerrors&#39;</span><span class="p">,</span> <span class="s1">&#39;version&#39;</span><span class="p">:</span> <span class="n">pyerrorsversion</span><span class="o">.</span><span class="n">__version__</span><span class="p">}}</span>
-</span><span id="L-704"><a href="#L-704"><span class="linenos">704</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;dobs&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-705"><a href="#L-705"><span class="linenos">705</span></a>    <span class="n">pd</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;dobs&#39;</span><span class="p">]</span>
-</span><span id="L-706"><a href="#L-706"><span class="linenos">706</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;spec&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">spec</span>
-</span><span id="L-707"><a href="#L-707"><span class="linenos">707</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">origin</span>
-</span><span id="L-708"><a href="#L-708"><span class="linenos">708</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="L-709"><a href="#L-709"><span class="linenos">709</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-710"><a href="#L-710"><span class="linenos">710</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;val&#39;</span>
-</span><span id="L-711"><a href="#L-711"><span class="linenos">711</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1 f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
-</span><span id="L-712"><a href="#L-712"><span class="linenos">712</span></a>    <span class="n">osymbol</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-713"><a href="#L-713"><span class="linenos">713</span></a>    <span class="k">if</span> <span class="n">symbol</span><span class="p">:</span>
-</span><span id="L-714"><a href="#L-714"><span class="linenos">714</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">symbol</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-715"><a href="#L-715"><span class="linenos">715</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list!&#39;</span><span class="p">)</span>
-</span><span id="L-716"><a href="#L-716"><span class="linenos">716</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)):</span>
-</span><span id="L-717"><a href="#L-717"><span class="linenos">717</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list of lenght 0 or </span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)))</span>
-</span><span id="L-718"><a href="#L-718"><span class="linenos">718</span></a>        <span class="n">osymbol</span> <span class="o">=</span> <span class="n">symbol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-719"><a href="#L-719"><span class="linenos">719</span></a>        <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">symbol</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
-</span><span id="L-720"><a href="#L-720"><span class="linenos">720</span></a>            <span class="n">osymbol</span> <span class="o">+=</span> <span class="s1">&#39; </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="n">s</span>
-</span><span id="L-721"><a href="#L-721"><span class="linenos">721</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">osymbol</span>
-</span><span id="L-722"><a href="#L-722"><span class="linenos">722</span></a>
-</span><span id="L-723"><a href="#L-723"><span class="linenos">723</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;#values&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;  &#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="s1">&#39;</span><span class="si">%1.16e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">])]</span>
-</span><span id="L-724"><a href="#L-724"><span class="linenos">724</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;ne&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ne</span><span class="p">)</span>
-</span><span id="L-725"><a href="#L-725"><span class="linenos">725</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;nc&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">nc</span><span class="p">)</span>
-</span><span id="L-726"><a href="#L-726"><span class="linenos">726</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;edata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-727"><a href="#L-727"><span class="linenos">727</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
-</span><span id="L-728"><a href="#L-728"><span class="linenos">728</span></a>        <span class="n">ed</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-729"><a href="#L-729"><span class="linenos">729</span></a>        <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;enstag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">enstags</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-730"><a href="#L-730"><span class="linenos">730</span></a>        <span class="n">onames</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">([</span><span class="n">n</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">r_names</span> <span class="k">if</span> <span class="p">(</span><span class="n">n</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span><span class="p">)</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">==</span> <span class="n">name</span><span class="p">)])</span>
-</span><span id="L-731"><a href="#L-731"><span class="linenos">731</span></a>        <span class="n">nr</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">onames</span><span class="p">)</span>
-</span><span id="L-732"><a href="#L-732"><span class="linenos">732</span></a>        <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;nr&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">nr</span>
-</span><span id="L-733"><a href="#L-733"><span class="linenos">733</span></a>        <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-734"><a href="#L-734"><span class="linenos">734</span></a>
-</span><span id="L-735"><a href="#L-735"><span class="linenos">735</span></a>        <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nr</span><span class="p">):</span>
-</span><span id="L-736"><a href="#L-736"><span class="linenos">736</span></a>            <span class="n">ad</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-737"><a href="#L-737"><span class="linenos">737</span></a>            <span class="n">repname</span> <span class="o">=</span> <span class="n">onames</span><span class="p">[</span><span class="n">r</span><span class="p">]</span>
-</span><span id="L-738"><a href="#L-738"><span class="linenos">738</span></a>            <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">repname</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="L-739"><a href="#L-739"><span class="linenos">739</span></a>            <span class="n">idx</span> <span class="o">=</span> <span class="n">_merge_idx</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">repname</span><span class="p">,</span> <span class="p">[])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">])</span>
-</span><span id="L-740"><a href="#L-740"><span class="linenos">740</span></a>            <span class="n">Nconf</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
-</span><span id="L-741"><a href="#L-741"><span class="linenos">741</span></a>            <span class="n">layout</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> i f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">Nconf</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
-</span><span id="L-742"><a href="#L-742"><span class="linenos">742</span></a>            <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">layout</span>
-</span><span id="L-743"><a href="#L-743"><span class="linenos">743</span></a>            <span class="n">data</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-744"><a href="#L-744"><span class="linenos">744</span></a>            <span class="n">counters</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">]</span>
-</span><span id="L-745"><a href="#L-745"><span class="linenos">745</span></a>            <span class="k">for</span> <span class="n">ci</span> <span class="ow">in</span> <span class="n">idx</span><span class="p">:</span>
-</span><span id="L-746"><a href="#L-746"><span class="linenos">746</span></a>                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="n">ci</span>
-</span><span id="L-747"><a href="#L-747"><span class="linenos">747</span></a>                <span class="k">for</span> <span class="n">oi</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)):</span>
-</span><span id="L-748"><a href="#L-748"><span class="linenos">748</span></a>                    <span class="n">o</span> <span class="o">=</span> <span class="n">obsl</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span>
-</span><span id="L-749"><a href="#L-749"><span class="linenos">749</span></a>                    <span class="k">if</span> <span class="n">repname</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">:</span>
-</span><span id="L-750"><a href="#L-750"><span class="linenos">750</span></a>                        <span class="k">if</span> <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-751"><a href="#L-751"><span class="linenos">751</span></a>                            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="L-752"><a href="#L-752"><span class="linenos">752</span></a>                            <span class="k">continue</span>
-</span><span id="L-753"><a href="#L-753"><span class="linenos">753</span></a>                        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">repname</span><span class="p">][</span><span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]]</span> <span class="o">==</span> <span class="n">ci</span><span class="p">:</span>
-</span><span id="L-754"><a href="#L-754"><span class="linenos">754</span></a>                            <span class="n">num</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">repname</span><span class="p">][</span><span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]]</span>
-</span><span id="L-755"><a href="#L-755"><span class="linenos">755</span></a>                            <span class="k">if</span> <span class="n">num</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-756"><a href="#L-756"><span class="linenos">756</span></a>                                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="L-757"><a href="#L-757"><span class="linenos">757</span></a>                            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-758"><a href="#L-758"><span class="linenos">758</span></a>                                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.16e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">num</span><span class="p">)</span>
-</span><span id="L-759"><a href="#L-759"><span class="linenos">759</span></a>                            <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-760"><a href="#L-760"><span class="linenos">760</span></a>                            <span class="k">if</span> <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">&gt;=</span> <span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">repname</span><span class="p">]):</span>
-</span><span id="L-761"><a href="#L-761"><span class="linenos">761</span></a>                                <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
-</span><span id="L-762"><a href="#L-762"><span class="linenos">762</span></a>                        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-763"><a href="#L-763"><span class="linenos">763</span></a>                            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="L-764"><a href="#L-764"><span class="linenos">764</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-765"><a href="#L-765"><span class="linenos">765</span></a>                        <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="L-766"><a href="#L-766"><span class="linenos">766</span></a>                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-767"><a href="#L-767"><span class="linenos">767</span></a>            <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
-</span><span id="L-768"><a href="#L-768"><span class="linenos">768</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ad</span><span class="p">)</span>
-</span><span id="L-769"><a href="#L-769"><span class="linenos">769</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;edata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ed</span><span class="p">)</span>
-</span><span id="L-770"><a href="#L-770"><span class="linenos">770</span></a>
-</span><span id="L-771"><a href="#L-771"><span class="linenos">771</span></a>        <span class="n">allcov</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-772"><a href="#L-772"><span class="linenos">772</span></a>        <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
-</span><span id="L-773"><a href="#L-773"><span class="linenos">773</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="L-774"><a href="#L-774"><span class="linenos">774</span></a>                <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">allcov</span><span class="p">:</span>
-</span><span id="L-775"><a href="#L-775"><span class="linenos">775</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">array_equal</span><span class="p">(</span><span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">):</span>
-</span><span id="L-776"><a href="#L-776"><span class="linenos">776</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Inconsistent covariance matrices for </span><span class="si">%s</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
-</span><span id="L-777"><a href="#L-777"><span class="linenos">777</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-778"><a href="#L-778"><span class="linenos">778</span></a>                    <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span>
-</span><span id="L-779"><a href="#L-779"><span class="linenos">779</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-780"><a href="#L-780"><span class="linenos">780</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cov_names</span><span class="p">:</span>
-</span><span id="L-781"><a href="#L-781"><span class="linenos">781</span></a>            <span class="n">cd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-782"><a href="#L-782"><span class="linenos">782</span></a>            <span class="n">cd</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="L-783"><a href="#L-783"><span class="linenos">783</span></a>
-</span><span id="L-784"><a href="#L-784"><span class="linenos">784</span></a>            <span class="n">covd</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;id&#39;</span><span class="p">:</span> <span class="s1">&#39;cov&#39;</span><span class="p">}</span>
-</span><span id="L-785"><a href="#L-785"><span class="linenos">785</span></a>            <span class="k">if</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">():</span>
-</span><span id="L-786"><a href="#L-786"><span class="linenos">786</span></a>                <span class="n">ncov</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-787"><a href="#L-787"><span class="linenos">787</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1 1 f&#39;</span>
-</span><span id="L-788"><a href="#L-788"><span class="linenos">788</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%1.14e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="L-789"><a href="#L-789"><span class="linenos">789</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-790"><a href="#L-790"><span class="linenos">790</span></a>                <span class="n">shape</span> <span class="o">=</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span>
-</span><span id="L-791"><a href="#L-791"><span class="linenos">791</span></a>                <span class="k">assert</span> <span class="p">(</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-792"><a href="#L-792"><span class="linenos">792</span></a>                <span class="n">ncov</span> <span class="o">=</span> <span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-793"><a href="#L-793"><span class="linenos">793</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> </span><span class="si">%d</span><span class="s1"> f&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ncov</span><span class="p">,</span> <span class="n">ncov</span><span class="p">)</span>
-</span><span id="L-794"><a href="#L-794"><span class="linenos">794</span></a>                <span class="n">ds</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-795"><a href="#L-795"><span class="linenos">795</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
-</span><span id="L-796"><a href="#L-796"><span class="linenos">796</span></a>                    <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
-</span><span id="L-797"><a href="#L-797"><span class="linenos">797</span></a>                        <span class="n">val</span> <span class="o">=</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span>
-</span><span id="L-798"><a href="#L-798"><span class="linenos">798</span></a>                        <span class="k">if</span> <span class="n">val</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-799"><a href="#L-799"><span class="linenos">799</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="L-800"><a href="#L-800"><span class="linenos">800</span></a>                        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-801"><a href="#L-801"><span class="linenos">801</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.14e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">val</span><span class="p">)</span>
-</span><span id="L-802"><a href="#L-802"><span class="linenos">802</span></a>                    <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="L-803"><a href="#L-803"><span class="linenos">803</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ds</span>
-</span><span id="L-804"><a href="#L-804"><span class="linenos">804</span></a>
-</span><span id="L-805"><a href="#L-805"><span class="linenos">805</span></a>            <span class="n">gradd</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;id&#39;</span><span class="p">:</span> <span class="s1">&#39;grad&#39;</span><span class="p">}</span>
-</span><span id="L-806"><a href="#L-806"><span class="linenos">806</span></a>            <span class="n">gradd</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ncov</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
-</span><span id="L-807"><a href="#L-807"><span class="linenos">807</span></a>            <span class="n">ds</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-808"><a href="#L-808"><span class="linenos">808</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
-</span><span id="L-809"><a href="#L-809"><span class="linenos">809</span></a>                <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
-</span><span id="L-810"><a href="#L-810"><span class="linenos">810</span></a>                    <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">:</span>
-</span><span id="L-811"><a href="#L-811"><span class="linenos">811</span></a>                        <span class="n">val</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="L-812"><a href="#L-812"><span class="linenos">812</span></a>                        <span class="k">if</span> <span class="n">val</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-813"><a href="#L-813"><span class="linenos">813</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.14e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">val</span><span class="p">)</span>
-</span><span id="L-814"><a href="#L-814"><span class="linenos">814</span></a>                        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-815"><a href="#L-815"><span class="linenos">815</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="L-816"><a href="#L-816"><span class="linenos">816</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-817"><a href="#L-817"><span class="linenos">817</span></a>                        <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="L-818"><a href="#L-818"><span class="linenos">818</span></a>            <span class="n">gradd</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ds</span>
-</span><span id="L-819"><a href="#L-819"><span class="linenos">819</span></a>            <span class="n">cd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">covd</span><span class="p">,</span> <span class="n">gradd</span><span class="p">]</span>
-</span><span id="L-820"><a href="#L-820"><span class="linenos">820</span></a>            <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cd</span><span class="p">)</span>
-</span><span id="L-821"><a href="#L-821"><span class="linenos">821</span></a>
-</span><span id="L-822"><a href="#L-822"><span class="linenos">822</span></a>    <span class="n">rs</span> <span class="o">=</span> <span class="s1">&#39;&lt;?xml version=&quot;1.0&quot; encoding=&quot;utf-8&quot;?&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">_dobsdict_to_xmlstring_spaces</span><span class="p">(</span><span class="n">od</span><span class="p">)</span>
-</span><span id="L-823"><a href="#L-823"><span class="linenos">823</span></a>
-</span><span id="L-824"><a href="#L-824"><span class="linenos">824</span></a>    <span class="k">return</span> <span class="n">rs</span>
-</span><span id="L-825"><a href="#L-825"><span class="linenos">825</span></a>
+</span><span id="L-654"><a href="#L-654"><span class="linenos">654</span></a>
+</span><span id="L-655"><a href="#L-655"><span class="linenos">655</span></a><span class="k">def</span> <span class="nf">create_dobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;dobs v1.0&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">who</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">enstags</span><span class="o">=</span><span class="p">{}):</span>
+</span><span id="L-656"><a href="#L-656"><span class="linenos">656</span></a>    <span class="sd">&quot;&quot;&quot;Generate the string for the export of a list of Obs or structures containing Obs</span>
+</span><span id="L-657"><a href="#L-657"><span class="linenos">657</span></a><span class="sd">    to a .xml.gz file according to the Zeuthen dobs format.</span>
+</span><span id="L-658"><a href="#L-658"><span class="linenos">658</span></a>
+</span><span id="L-659"><a href="#L-659"><span class="linenos">659</span></a><span class="sd">    Tags are not written or recovered automatically. The separator |is removed from the replica names.</span>
+</span><span id="L-660"><a href="#L-660"><span class="linenos">660</span></a>
+</span><span id="L-661"><a href="#L-661"><span class="linenos">661</span></a><span class="sd">    Parameters</span>
+</span><span id="L-662"><a href="#L-662"><span class="linenos">662</span></a><span class="sd">    ----------</span>
+</span><span id="L-663"><a href="#L-663"><span class="linenos">663</span></a><span class="sd">    obsl : list</span>
+</span><span id="L-664"><a href="#L-664"><span class="linenos">664</span></a><span class="sd">        List of Obs that will be exported.</span>
+</span><span id="L-665"><a href="#L-665"><span class="linenos">665</span></a><span class="sd">        The Obs inside a structure do not have to be defined on the same set of configurations,</span>
+</span><span id="L-666"><a href="#L-666"><span class="linenos">666</span></a><span class="sd">        but the storage requirement is increased, if this is not the case.</span>
+</span><span id="L-667"><a href="#L-667"><span class="linenos">667</span></a><span class="sd">    name : str</span>
+</span><span id="L-668"><a href="#L-668"><span class="linenos">668</span></a><span class="sd">        The name of the observable.</span>
+</span><span id="L-669"><a href="#L-669"><span class="linenos">669</span></a><span class="sd">    spec : str</span>
+</span><span id="L-670"><a href="#L-670"><span class="linenos">670</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
+</span><span id="L-671"><a href="#L-671"><span class="linenos">671</span></a><span class="sd">    origin : str</span>
+</span><span id="L-672"><a href="#L-672"><span class="linenos">672</span></a><span class="sd">        Specify where the data has its origin.</span>
+</span><span id="L-673"><a href="#L-673"><span class="linenos">673</span></a><span class="sd">    symbol : list</span>
+</span><span id="L-674"><a href="#L-674"><span class="linenos">674</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
+</span><span id="L-675"><a href="#L-675"><span class="linenos">675</span></a><span class="sd">    who : str</span>
+</span><span id="L-676"><a href="#L-676"><span class="linenos">676</span></a><span class="sd">        Provide the name of the person that exports the data.</span>
+</span><span id="L-677"><a href="#L-677"><span class="linenos">677</span></a><span class="sd">    enstags : dict</span>
+</span><span id="L-678"><a href="#L-678"><span class="linenos">678</span></a><span class="sd">        Provide alternative enstag for ensembles in the form enstags = {ename: enstag}</span>
+</span><span id="L-679"><a href="#L-679"><span class="linenos">679</span></a><span class="sd">        Otherwise, the ensemble name is used.</span>
+</span><span id="L-680"><a href="#L-680"><span class="linenos">680</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-681"><a href="#L-681"><span class="linenos">681</span></a>    <span class="n">od</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-682"><a href="#L-682"><span class="linenos">682</span></a>    <span class="n">r_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-683"><a href="#L-683"><span class="linenos">683</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
+</span><span id="L-684"><a href="#L-684"><span class="linenos">684</span></a>        <span class="n">r_names</span> <span class="o">+=</span> <span class="p">[</span><span class="n">name</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">names</span> <span class="k">if</span> <span class="n">name</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">mc_names</span><span class="p">]</span>
+</span><span id="L-685"><a href="#L-685"><span class="linenos">685</span></a>    <span class="n">r_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">r_names</span><span class="p">))</span>
+</span><span id="L-686"><a href="#L-686"><span class="linenos">686</span></a>    <span class="n">mc_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">n</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">r_names</span><span class="p">]))</span>
+</span><span id="L-687"><a href="#L-687"><span class="linenos">687</span></a>    <span class="k">for</span> <span class="n">tmpname</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
+</span><span id="L-688"><a href="#L-688"><span class="linenos">688</span></a>        <span class="k">if</span> <span class="n">tmpname</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">enstags</span><span class="p">:</span>
+</span><span id="L-689"><a href="#L-689"><span class="linenos">689</span></a>            <span class="n">enstags</span><span class="p">[</span><span class="n">tmpname</span><span class="p">]</span> <span class="o">=</span> <span class="n">tmpname</span>
+</span><span id="L-690"><a href="#L-690"><span class="linenos">690</span></a>    <span class="n">ne</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">mc_names</span><span class="p">))</span>
+</span><span id="L-691"><a href="#L-691"><span class="linenos">691</span></a>    <span class="n">cov_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-692"><a href="#L-692"><span class="linenos">692</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
+</span><span id="L-693"><a href="#L-693"><span class="linenos">693</span></a>        <span class="n">cov_names</span> <span class="o">+=</span> <span class="nb">list</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">)</span>
+</span><span id="L-694"><a href="#L-694"><span class="linenos">694</span></a>    <span class="n">cov_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">cov_names</span><span class="p">))</span>
+</span><span id="L-695"><a href="#L-695"><span class="linenos">695</span></a>    <span class="n">nc</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">cov_names</span><span class="p">))</span>
+</span><span id="L-696"><a href="#L-696"><span class="linenos">696</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-697"><a href="#L-697"><span class="linenos">697</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;SCHEMA&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;NAME&#39;</span><span class="p">:</span> <span class="s1">&#39;lattobs&#39;</span><span class="p">,</span> <span class="s1">&#39;VERSION&#39;</span><span class="p">:</span> <span class="s1">&#39;1.0&#39;</span><span class="p">}</span>
+</span><span id="L-698"><a href="#L-698"><span class="linenos">698</span></a>    <span class="k">if</span> <span class="n">who</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-699"><a href="#L-699"><span class="linenos">699</span></a>        <span class="n">who</span> <span class="o">=</span> <span class="n">getpass</span><span class="o">.</span><span class="n">getuser</span><span class="p">()</span>
+</span><span id="L-700"><a href="#L-700"><span class="linenos">700</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span>
+</span><span id="L-701"><a href="#L-701"><span class="linenos">701</span></a>        <span class="s1">&#39;who&#39;</span><span class="p">:</span> <span class="n">who</span><span class="p">,</span>
+</span><span id="L-702"><a href="#L-702"><span class="linenos">702</span></a>        <span class="s1">&#39;date&#39;</span><span class="p">:</span> <span class="nb">str</span><span class="p">(</span><span class="n">datetime</span><span class="o">.</span><span class="n">datetime</span><span class="o">.</span><span class="n">now</span><span class="p">())[:</span><span class="o">-</span><span class="mi">7</span><span class="p">],</span>
+</span><span id="L-703"><a href="#L-703"><span class="linenos">703</span></a>        <span class="s1">&#39;host&#39;</span><span class="p">:</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">(),</span>
+</span><span id="L-704"><a href="#L-704"><span class="linenos">704</span></a>        <span class="s1">&#39;tool&#39;</span><span class="p">:</span> <span class="p">{</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="s1">&#39;pyerrors&#39;</span><span class="p">,</span> <span class="s1">&#39;version&#39;</span><span class="p">:</span> <span class="n">pyerrorsversion</span><span class="o">.</span><span class="n">__version__</span><span class="p">}}</span>
+</span><span id="L-705"><a href="#L-705"><span class="linenos">705</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;dobs&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-706"><a href="#L-706"><span class="linenos">706</span></a>    <span class="n">pd</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;dobs&#39;</span><span class="p">]</span>
+</span><span id="L-707"><a href="#L-707"><span class="linenos">707</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;spec&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">spec</span>
+</span><span id="L-708"><a href="#L-708"><span class="linenos">708</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">origin</span>
+</span><span id="L-709"><a href="#L-709"><span class="linenos">709</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="L-710"><a href="#L-710"><span class="linenos">710</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-711"><a href="#L-711"><span class="linenos">711</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;val&#39;</span>
+</span><span id="L-712"><a href="#L-712"><span class="linenos">712</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1 f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
+</span><span id="L-713"><a href="#L-713"><span class="linenos">713</span></a>    <span class="n">osymbol</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-714"><a href="#L-714"><span class="linenos">714</span></a>    <span class="k">if</span> <span class="n">symbol</span><span class="p">:</span>
+</span><span id="L-715"><a href="#L-715"><span class="linenos">715</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">symbol</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-716"><a href="#L-716"><span class="linenos">716</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list!&#39;</span><span class="p">)</span>
+</span><span id="L-717"><a href="#L-717"><span class="linenos">717</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)):</span>
+</span><span id="L-718"><a href="#L-718"><span class="linenos">718</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list of lenght 0 or </span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)))</span>
+</span><span id="L-719"><a href="#L-719"><span class="linenos">719</span></a>        <span class="n">osymbol</span> <span class="o">=</span> <span class="n">symbol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-720"><a href="#L-720"><span class="linenos">720</span></a>        <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">symbol</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
+</span><span id="L-721"><a href="#L-721"><span class="linenos">721</span></a>            <span class="n">osymbol</span> <span class="o">+=</span> <span class="s1">&#39; </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="n">s</span>
+</span><span id="L-722"><a href="#L-722"><span class="linenos">722</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">osymbol</span>
+</span><span id="L-723"><a href="#L-723"><span class="linenos">723</span></a>
+</span><span id="L-724"><a href="#L-724"><span class="linenos">724</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;#values&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;  &#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="s1">&#39;</span><span class="si">%1.16e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">])]</span>
+</span><span id="L-725"><a href="#L-725"><span class="linenos">725</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;ne&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ne</span><span class="p">)</span>
+</span><span id="L-726"><a href="#L-726"><span class="linenos">726</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;nc&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">nc</span><span class="p">)</span>
+</span><span id="L-727"><a href="#L-727"><span class="linenos">727</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;edata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-728"><a href="#L-728"><span class="linenos">728</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
+</span><span id="L-729"><a href="#L-729"><span class="linenos">729</span></a>        <span class="n">ed</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-730"><a href="#L-730"><span class="linenos">730</span></a>        <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;enstag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">enstags</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-731"><a href="#L-731"><span class="linenos">731</span></a>        <span class="n">onames</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">([</span><span class="n">n</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">r_names</span> <span class="k">if</span> <span class="p">(</span><span class="n">n</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span><span class="p">)</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">==</span> <span class="n">name</span><span class="p">)])</span>
+</span><span id="L-732"><a href="#L-732"><span class="linenos">732</span></a>        <span class="n">nr</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">onames</span><span class="p">)</span>
+</span><span id="L-733"><a href="#L-733"><span class="linenos">733</span></a>        <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;nr&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">nr</span>
+</span><span id="L-734"><a href="#L-734"><span class="linenos">734</span></a>        <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-735"><a href="#L-735"><span class="linenos">735</span></a>
+</span><span id="L-736"><a href="#L-736"><span class="linenos">736</span></a>        <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nr</span><span class="p">):</span>
+</span><span id="L-737"><a href="#L-737"><span class="linenos">737</span></a>            <span class="n">ad</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-738"><a href="#L-738"><span class="linenos">738</span></a>            <span class="n">repname</span> <span class="o">=</span> <span class="n">onames</span><span class="p">[</span><span class="n">r</span><span class="p">]</span>
+</span><span id="L-739"><a href="#L-739"><span class="linenos">739</span></a>            <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">repname</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="L-740"><a href="#L-740"><span class="linenos">740</span></a>            <span class="n">idx</span> <span class="o">=</span> <span class="n">_merge_idx</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">repname</span><span class="p">,</span> <span class="p">[])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">])</span>
+</span><span id="L-741"><a href="#L-741"><span class="linenos">741</span></a>            <span class="n">Nconf</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
+</span><span id="L-742"><a href="#L-742"><span class="linenos">742</span></a>            <span class="n">layout</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> i f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">Nconf</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
+</span><span id="L-743"><a href="#L-743"><span class="linenos">743</span></a>            <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">layout</span>
+</span><span id="L-744"><a href="#L-744"><span class="linenos">744</span></a>            <span class="n">data</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-745"><a href="#L-745"><span class="linenos">745</span></a>            <span class="n">counters</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">]</span>
+</span><span id="L-746"><a href="#L-746"><span class="linenos">746</span></a>            <span class="k">for</span> <span class="n">ci</span> <span class="ow">in</span> <span class="n">idx</span><span class="p">:</span>
+</span><span id="L-747"><a href="#L-747"><span class="linenos">747</span></a>                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="n">ci</span>
+</span><span id="L-748"><a href="#L-748"><span class="linenos">748</span></a>                <span class="k">for</span> <span class="n">oi</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)):</span>
+</span><span id="L-749"><a href="#L-749"><span class="linenos">749</span></a>                    <span class="n">o</span> <span class="o">=</span> <span class="n">obsl</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span>
+</span><span id="L-750"><a href="#L-750"><span class="linenos">750</span></a>                    <span class="k">if</span> <span class="n">repname</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">:</span>
+</span><span id="L-751"><a href="#L-751"><span class="linenos">751</span></a>                        <span class="k">if</span> <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-752"><a href="#L-752"><span class="linenos">752</span></a>                            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="L-753"><a href="#L-753"><span class="linenos">753</span></a>                            <span class="k">continue</span>
+</span><span id="L-754"><a href="#L-754"><span class="linenos">754</span></a>                        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">repname</span><span class="p">][</span><span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]]</span> <span class="o">==</span> <span class="n">ci</span><span class="p">:</span>
+</span><span id="L-755"><a href="#L-755"><span class="linenos">755</span></a>                            <span class="n">num</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">repname</span><span class="p">][</span><span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]]</span>
+</span><span id="L-756"><a href="#L-756"><span class="linenos">756</span></a>                            <span class="k">if</span> <span class="n">num</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-757"><a href="#L-757"><span class="linenos">757</span></a>                                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="L-758"><a href="#L-758"><span class="linenos">758</span></a>                            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-759"><a href="#L-759"><span class="linenos">759</span></a>                                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.16e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">num</span><span class="p">)</span>
+</span><span id="L-760"><a href="#L-760"><span class="linenos">760</span></a>                            <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-761"><a href="#L-761"><span class="linenos">761</span></a>                            <span class="k">if</span> <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">&gt;=</span> <span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">repname</span><span class="p">]):</span>
+</span><span id="L-762"><a href="#L-762"><span class="linenos">762</span></a>                                <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
+</span><span id="L-763"><a href="#L-763"><span class="linenos">763</span></a>                        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-764"><a href="#L-764"><span class="linenos">764</span></a>                            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="L-765"><a href="#L-765"><span class="linenos">765</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-766"><a href="#L-766"><span class="linenos">766</span></a>                        <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="L-767"><a href="#L-767"><span class="linenos">767</span></a>                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-768"><a href="#L-768"><span class="linenos">768</span></a>            <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
+</span><span id="L-769"><a href="#L-769"><span class="linenos">769</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ad</span><span class="p">)</span>
+</span><span id="L-770"><a href="#L-770"><span class="linenos">770</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;edata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ed</span><span class="p">)</span>
+</span><span id="L-771"><a href="#L-771"><span class="linenos">771</span></a>
+</span><span id="L-772"><a href="#L-772"><span class="linenos">772</span></a>        <span class="n">allcov</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-773"><a href="#L-773"><span class="linenos">773</span></a>        <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
+</span><span id="L-774"><a href="#L-774"><span class="linenos">774</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="L-775"><a href="#L-775"><span class="linenos">775</span></a>                <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">allcov</span><span class="p">:</span>
+</span><span id="L-776"><a href="#L-776"><span class="linenos">776</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">array_equal</span><span class="p">(</span><span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">):</span>
+</span><span id="L-777"><a href="#L-777"><span class="linenos">777</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Inconsistent covariance matrices for </span><span class="si">%s</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
+</span><span id="L-778"><a href="#L-778"><span class="linenos">778</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-779"><a href="#L-779"><span class="linenos">779</span></a>                    <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span>
+</span><span id="L-780"><a href="#L-780"><span class="linenos">780</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-781"><a href="#L-781"><span class="linenos">781</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cov_names</span><span class="p">:</span>
+</span><span id="L-782"><a href="#L-782"><span class="linenos">782</span></a>            <span class="n">cd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-783"><a href="#L-783"><span class="linenos">783</span></a>            <span class="n">cd</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="L-784"><a href="#L-784"><span class="linenos">784</span></a>
+</span><span id="L-785"><a href="#L-785"><span class="linenos">785</span></a>            <span class="n">covd</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;id&#39;</span><span class="p">:</span> <span class="s1">&#39;cov&#39;</span><span class="p">}</span>
+</span><span id="L-786"><a href="#L-786"><span class="linenos">786</span></a>            <span class="k">if</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">():</span>
+</span><span id="L-787"><a href="#L-787"><span class="linenos">787</span></a>                <span class="n">ncov</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-788"><a href="#L-788"><span class="linenos">788</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1 1 f&#39;</span>
+</span><span id="L-789"><a href="#L-789"><span class="linenos">789</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%1.14e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="L-790"><a href="#L-790"><span class="linenos">790</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-791"><a href="#L-791"><span class="linenos">791</span></a>                <span class="n">shape</span> <span class="o">=</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span>
+</span><span id="L-792"><a href="#L-792"><span class="linenos">792</span></a>                <span class="k">assert</span> <span class="p">(</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-793"><a href="#L-793"><span class="linenos">793</span></a>                <span class="n">ncov</span> <span class="o">=</span> <span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-794"><a href="#L-794"><span class="linenos">794</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> </span><span class="si">%d</span><span class="s1"> f&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ncov</span><span class="p">,</span> <span class="n">ncov</span><span class="p">)</span>
+</span><span id="L-795"><a href="#L-795"><span class="linenos">795</span></a>                <span class="n">ds</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-796"><a href="#L-796"><span class="linenos">796</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
+</span><span id="L-797"><a href="#L-797"><span class="linenos">797</span></a>                    <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
+</span><span id="L-798"><a href="#L-798"><span class="linenos">798</span></a>                        <span class="n">val</span> <span class="o">=</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span>
+</span><span id="L-799"><a href="#L-799"><span class="linenos">799</span></a>                        <span class="k">if</span> <span class="n">val</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-800"><a href="#L-800"><span class="linenos">800</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="L-801"><a href="#L-801"><span class="linenos">801</span></a>                        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-802"><a href="#L-802"><span class="linenos">802</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.14e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">val</span><span class="p">)</span>
+</span><span id="L-803"><a href="#L-803"><span class="linenos">803</span></a>                    <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="L-804"><a href="#L-804"><span class="linenos">804</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ds</span>
+</span><span id="L-805"><a href="#L-805"><span class="linenos">805</span></a>
+</span><span id="L-806"><a href="#L-806"><span class="linenos">806</span></a>            <span class="n">gradd</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;id&#39;</span><span class="p">:</span> <span class="s1">&#39;grad&#39;</span><span class="p">}</span>
+</span><span id="L-807"><a href="#L-807"><span class="linenos">807</span></a>            <span class="n">gradd</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ncov</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
+</span><span id="L-808"><a href="#L-808"><span class="linenos">808</span></a>            <span class="n">ds</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-809"><a href="#L-809"><span class="linenos">809</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
+</span><span id="L-810"><a href="#L-810"><span class="linenos">810</span></a>                <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
+</span><span id="L-811"><a href="#L-811"><span class="linenos">811</span></a>                    <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">:</span>
+</span><span id="L-812"><a href="#L-812"><span class="linenos">812</span></a>                        <span class="n">val</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="L-813"><a href="#L-813"><span class="linenos">813</span></a>                        <span class="k">if</span> <span class="n">val</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-814"><a href="#L-814"><span class="linenos">814</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.14e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">val</span><span class="p">)</span>
+</span><span id="L-815"><a href="#L-815"><span class="linenos">815</span></a>                        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-816"><a href="#L-816"><span class="linenos">816</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="L-817"><a href="#L-817"><span class="linenos">817</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-818"><a href="#L-818"><span class="linenos">818</span></a>                        <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="L-819"><a href="#L-819"><span class="linenos">819</span></a>            <span class="n">gradd</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ds</span>
+</span><span id="L-820"><a href="#L-820"><span class="linenos">820</span></a>            <span class="n">cd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">covd</span><span class="p">,</span> <span class="n">gradd</span><span class="p">]</span>
+</span><span id="L-821"><a href="#L-821"><span class="linenos">821</span></a>            <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cd</span><span class="p">)</span>
+</span><span id="L-822"><a href="#L-822"><span class="linenos">822</span></a>
+</span><span id="L-823"><a href="#L-823"><span class="linenos">823</span></a>    <span class="n">rs</span> <span class="o">=</span> <span class="s1">&#39;&lt;?xml version=&quot;1.0&quot; encoding=&quot;utf-8&quot;?&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">_dobsdict_to_xmlstring_spaces</span><span class="p">(</span><span class="n">od</span><span class="p">)</span>
+</span><span id="L-824"><a href="#L-824"><span class="linenos">824</span></a>
+</span><span id="L-825"><a href="#L-825"><span class="linenos">825</span></a>    <span class="k">return</span> <span class="n">rs</span>
 </span><span id="L-826"><a href="#L-826"><span class="linenos">826</span></a>
-</span><span id="L-827"><a href="#L-827"><span class="linenos">827</span></a><span class="k">def</span> <span class="nf">write_dobs</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;dobs v1.0&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">who</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">enstags</span><span class="o">=</span><span class="p">{},</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="L-828"><a href="#L-828"><span class="linenos">828</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to a .xml.gz file</span>
-</span><span id="L-829"><a href="#L-829"><span class="linenos">829</span></a><span class="sd">    according to the Zeuthen dobs format.</span>
-</span><span id="L-830"><a href="#L-830"><span class="linenos">830</span></a>
-</span><span id="L-831"><a href="#L-831"><span class="linenos">831</span></a><span class="sd">    Tags are not written or recovered automatically. The separator | is removed from the replica names.</span>
-</span><span id="L-832"><a href="#L-832"><span class="linenos">832</span></a>
-</span><span id="L-833"><a href="#L-833"><span class="linenos">833</span></a><span class="sd">    Parameters</span>
-</span><span id="L-834"><a href="#L-834"><span class="linenos">834</span></a><span class="sd">    ----------</span>
-</span><span id="L-835"><a href="#L-835"><span class="linenos">835</span></a><span class="sd">    obsl : list</span>
-</span><span id="L-836"><a href="#L-836"><span class="linenos">836</span></a><span class="sd">        List of Obs that will be exported.</span>
-</span><span id="L-837"><a href="#L-837"><span class="linenos">837</span></a><span class="sd">        The Obs inside a structure do not have to be defined on the same set of configurations,</span>
-</span><span id="L-838"><a href="#L-838"><span class="linenos">838</span></a><span class="sd">        but the storage requirement is increased, if this is not the case.</span>
-</span><span id="L-839"><a href="#L-839"><span class="linenos">839</span></a><span class="sd">    fname : str</span>
-</span><span id="L-840"><a href="#L-840"><span class="linenos">840</span></a><span class="sd">        Filename of the output file.</span>
-</span><span id="L-841"><a href="#L-841"><span class="linenos">841</span></a><span class="sd">    name : str</span>
-</span><span id="L-842"><a href="#L-842"><span class="linenos">842</span></a><span class="sd">        The name of the observable.</span>
-</span><span id="L-843"><a href="#L-843"><span class="linenos">843</span></a><span class="sd">    spec : str</span>
-</span><span id="L-844"><a href="#L-844"><span class="linenos">844</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
-</span><span id="L-845"><a href="#L-845"><span class="linenos">845</span></a><span class="sd">    origin : str</span>
-</span><span id="L-846"><a href="#L-846"><span class="linenos">846</span></a><span class="sd">        Specify where the data has its origin.</span>
-</span><span id="L-847"><a href="#L-847"><span class="linenos">847</span></a><span class="sd">    symbol : list</span>
-</span><span id="L-848"><a href="#L-848"><span class="linenos">848</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
-</span><span id="L-849"><a href="#L-849"><span class="linenos">849</span></a><span class="sd">    who : str</span>
-</span><span id="L-850"><a href="#L-850"><span class="linenos">850</span></a><span class="sd">        Provide the name of the person that exports the data.</span>
-</span><span id="L-851"><a href="#L-851"><span class="linenos">851</span></a><span class="sd">    enstags : dict</span>
-</span><span id="L-852"><a href="#L-852"><span class="linenos">852</span></a><span class="sd">        Provide alternative enstag for ensembles in the form enstags = {ename: enstag}</span>
-</span><span id="L-853"><a href="#L-853"><span class="linenos">853</span></a><span class="sd">        Otherwise, the ensemble name is used.</span>
-</span><span id="L-854"><a href="#L-854"><span class="linenos">854</span></a><span class="sd">    gz : bool</span>
-</span><span id="L-855"><a href="#L-855"><span class="linenos">855</span></a><span class="sd">        If True, the output is a gzipped XML. If False, the output is a XML file.</span>
-</span><span id="L-856"><a href="#L-856"><span class="linenos">856</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-857"><a href="#L-857"><span class="linenos">857</span></a>
-</span><span id="L-858"><a href="#L-858"><span class="linenos">858</span></a>    <span class="n">dobsstring</span> <span class="o">=</span> <span class="n">create_dobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="p">,</span> <span class="n">origin</span><span class="p">,</span> <span class="n">symbol</span><span class="p">,</span> <span class="n">who</span><span class="p">,</span> <span class="n">enstags</span><span class="o">=</span><span class="n">enstags</span><span class="p">)</span>
-</span><span id="L-859"><a href="#L-859"><span class="linenos">859</span></a>
-</span><span id="L-860"><a href="#L-860"><span class="linenos">860</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-861"><a href="#L-861"><span class="linenos">861</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
-</span><span id="L-862"><a href="#L-862"><span class="linenos">862</span></a>
-</span><span id="L-863"><a href="#L-863"><span class="linenos">863</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
-</span><span id="L-864"><a href="#L-864"><span class="linenos">864</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-865"><a href="#L-865"><span class="linenos">865</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
-</span><span id="L-866"><a href="#L-866"><span class="linenos">866</span></a>
-</span><span id="L-867"><a href="#L-867"><span class="linenos">867</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
-</span><span id="L-868"><a href="#L-868"><span class="linenos">868</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">dobsstring</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span>
-</span><span id="L-869"><a href="#L-869"><span class="linenos">869</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-870"><a href="#L-870"><span class="linenos">870</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-871"><a href="#L-871"><span class="linenos">871</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">dobsstring</span><span class="p">)</span>
-</span><span id="L-872"><a href="#L-872"><span class="linenos">872</span></a>    <span class="n">fp</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="L-827"><a href="#L-827"><span class="linenos">827</span></a>
+</span><span id="L-828"><a href="#L-828"><span class="linenos">828</span></a><span class="k">def</span> <span class="nf">write_dobs</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;dobs v1.0&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">who</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">enstags</span><span class="o">=</span><span class="p">{},</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="L-829"><a href="#L-829"><span class="linenos">829</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to a .xml.gz file</span>
+</span><span id="L-830"><a href="#L-830"><span class="linenos">830</span></a><span class="sd">    according to the Zeuthen dobs format.</span>
+</span><span id="L-831"><a href="#L-831"><span class="linenos">831</span></a>
+</span><span id="L-832"><a href="#L-832"><span class="linenos">832</span></a><span class="sd">    Tags are not written or recovered automatically. The separator | is removed from the replica names.</span>
+</span><span id="L-833"><a href="#L-833"><span class="linenos">833</span></a>
+</span><span id="L-834"><a href="#L-834"><span class="linenos">834</span></a><span class="sd">    Parameters</span>
+</span><span id="L-835"><a href="#L-835"><span class="linenos">835</span></a><span class="sd">    ----------</span>
+</span><span id="L-836"><a href="#L-836"><span class="linenos">836</span></a><span class="sd">    obsl : list</span>
+</span><span id="L-837"><a href="#L-837"><span class="linenos">837</span></a><span class="sd">        List of Obs that will be exported.</span>
+</span><span id="L-838"><a href="#L-838"><span class="linenos">838</span></a><span class="sd">        The Obs inside a structure do not have to be defined on the same set of configurations,</span>
+</span><span id="L-839"><a href="#L-839"><span class="linenos">839</span></a><span class="sd">        but the storage requirement is increased, if this is not the case.</span>
+</span><span id="L-840"><a href="#L-840"><span class="linenos">840</span></a><span class="sd">    fname : str</span>
+</span><span id="L-841"><a href="#L-841"><span class="linenos">841</span></a><span class="sd">        Filename of the output file.</span>
+</span><span id="L-842"><a href="#L-842"><span class="linenos">842</span></a><span class="sd">    name : str</span>
+</span><span id="L-843"><a href="#L-843"><span class="linenos">843</span></a><span class="sd">        The name of the observable.</span>
+</span><span id="L-844"><a href="#L-844"><span class="linenos">844</span></a><span class="sd">    spec : str</span>
+</span><span id="L-845"><a href="#L-845"><span class="linenos">845</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
+</span><span id="L-846"><a href="#L-846"><span class="linenos">846</span></a><span class="sd">    origin : str</span>
+</span><span id="L-847"><a href="#L-847"><span class="linenos">847</span></a><span class="sd">        Specify where the data has its origin.</span>
+</span><span id="L-848"><a href="#L-848"><span class="linenos">848</span></a><span class="sd">    symbol : list</span>
+</span><span id="L-849"><a href="#L-849"><span class="linenos">849</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
+</span><span id="L-850"><a href="#L-850"><span class="linenos">850</span></a><span class="sd">    who : str</span>
+</span><span id="L-851"><a href="#L-851"><span class="linenos">851</span></a><span class="sd">        Provide the name of the person that exports the data.</span>
+</span><span id="L-852"><a href="#L-852"><span class="linenos">852</span></a><span class="sd">    enstags : dict</span>
+</span><span id="L-853"><a href="#L-853"><span class="linenos">853</span></a><span class="sd">        Provide alternative enstag for ensembles in the form enstags = {ename: enstag}</span>
+</span><span id="L-854"><a href="#L-854"><span class="linenos">854</span></a><span class="sd">        Otherwise, the ensemble name is used.</span>
+</span><span id="L-855"><a href="#L-855"><span class="linenos">855</span></a><span class="sd">    gz : bool</span>
+</span><span id="L-856"><a href="#L-856"><span class="linenos">856</span></a><span class="sd">        If True, the output is a gzipped XML. If False, the output is a XML file.</span>
+</span><span id="L-857"><a href="#L-857"><span class="linenos">857</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-858"><a href="#L-858"><span class="linenos">858</span></a>
+</span><span id="L-859"><a href="#L-859"><span class="linenos">859</span></a>    <span class="n">dobsstring</span> <span class="o">=</span> <span class="n">create_dobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="p">,</span> <span class="n">origin</span><span class="p">,</span> <span class="n">symbol</span><span class="p">,</span> <span class="n">who</span><span class="p">,</span> <span class="n">enstags</span><span class="o">=</span><span class="n">enstags</span><span class="p">)</span>
+</span><span id="L-860"><a href="#L-860"><span class="linenos">860</span></a>
+</span><span id="L-861"><a href="#L-861"><span class="linenos">861</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-862"><a href="#L-862"><span class="linenos">862</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
+</span><span id="L-863"><a href="#L-863"><span class="linenos">863</span></a>
+</span><span id="L-864"><a href="#L-864"><span class="linenos">864</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
+</span><span id="L-865"><a href="#L-865"><span class="linenos">865</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-866"><a href="#L-866"><span class="linenos">866</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
+</span><span id="L-867"><a href="#L-867"><span class="linenos">867</span></a>
+</span><span id="L-868"><a href="#L-868"><span class="linenos">868</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
+</span><span id="L-869"><a href="#L-869"><span class="linenos">869</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">dobsstring</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span>
+</span><span id="L-870"><a href="#L-870"><span class="linenos">870</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-871"><a href="#L-871"><span class="linenos">871</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-872"><a href="#L-872"><span class="linenos">872</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">dobsstring</span><span class="p">)</span>
+</span><span id="L-873"><a href="#L-873"><span class="linenos">873</span></a>    <span class="n">fp</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="create_pobs_string">
-                            <div class="attr function"><a class="headerlink" href="#create_pobs_string">#&nbsp;&nbsp</a>
+                            <input id="create_pobs_string-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">create_pobs_string</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">obsl</span>, </span><span class="param"><span class="n">name</span>, </span><span class="param"><span class="n">spec</span><span class="o">=</span><span class="s1">&#39;&#39;</span>, </span><span class="param"><span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span>, </span><span class="param"><span class="n">symbol</span><span class="o">=</span><span class="p">[]</span>, </span><span class="param"><span class="n">enstag</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="create_pobs_string-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">create_pobs_string</span><span class="signature">(obsl, name, spec=&#39;&#39;, origin=&#39;&#39;, symbol=[], enstag=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="create_pobs_string-88"><a href="#create_pobs_string-88"><span class="linenos"> 88</span></a><span class="k">def</span> <span class="nf">create_pobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">enstag</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="create_pobs_string-89"><a href="#create_pobs_string-89"><span class="linenos"> 89</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to an xml string</span>
-</span><span id="create_pobs_string-90"><a href="#create_pobs_string-90"><span class="linenos"> 90</span></a><span class="sd">    according to the Zeuthen pobs format.</span>
-</span><span id="create_pobs_string-91"><a href="#create_pobs_string-91"><span class="linenos"> 91</span></a>
-</span><span id="create_pobs_string-92"><a href="#create_pobs_string-92"><span class="linenos"> 92</span></a><span class="sd">    Tags are not written or recovered automatically. The separator | is removed from the replica names.</span>
-</span><span id="create_pobs_string-93"><a href="#create_pobs_string-93"><span class="linenos"> 93</span></a>
-</span><span id="create_pobs_string-94"><a href="#create_pobs_string-94"><span class="linenos"> 94</span></a><span class="sd">    Parameters</span>
-</span><span id="create_pobs_string-95"><a href="#create_pobs_string-95"><span class="linenos"> 95</span></a><span class="sd">    ----------</span>
-</span><span id="create_pobs_string-96"><a href="#create_pobs_string-96"><span class="linenos"> 96</span></a><span class="sd">    obsl : list</span>
-</span><span id="create_pobs_string-97"><a href="#create_pobs_string-97"><span class="linenos"> 97</span></a><span class="sd">        List of Obs that will be exported.</span>
-</span><span id="create_pobs_string-98"><a href="#create_pobs_string-98"><span class="linenos"> 98</span></a><span class="sd">        The Obs inside a structure have to be defined on the same ensemble.</span>
-</span><span id="create_pobs_string-99"><a href="#create_pobs_string-99"><span class="linenos"> 99</span></a><span class="sd">    name : str</span>
-</span><span id="create_pobs_string-100"><a href="#create_pobs_string-100"><span class="linenos">100</span></a><span class="sd">        The name of the observable.</span>
-</span><span id="create_pobs_string-101"><a href="#create_pobs_string-101"><span class="linenos">101</span></a><span class="sd">    spec : str</span>
-</span><span id="create_pobs_string-102"><a href="#create_pobs_string-102"><span class="linenos">102</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
-</span><span id="create_pobs_string-103"><a href="#create_pobs_string-103"><span class="linenos">103</span></a><span class="sd">    origin : str</span>
-</span><span id="create_pobs_string-104"><a href="#create_pobs_string-104"><span class="linenos">104</span></a><span class="sd">        Specify where the data has its origin.</span>
-</span><span id="create_pobs_string-105"><a href="#create_pobs_string-105"><span class="linenos">105</span></a><span class="sd">    symbol : list</span>
-</span><span id="create_pobs_string-106"><a href="#create_pobs_string-106"><span class="linenos">106</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
-</span><span id="create_pobs_string-107"><a href="#create_pobs_string-107"><span class="linenos">107</span></a><span class="sd">    enstag : str</span>
-</span><span id="create_pobs_string-108"><a href="#create_pobs_string-108"><span class="linenos">108</span></a><span class="sd">        Enstag that is written to pobs. If None, the ensemble name is used.</span>
-</span><span id="create_pobs_string-109"><a href="#create_pobs_string-109"><span class="linenos">109</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="create_pobs_string-110"><a href="#create_pobs_string-110"><span class="linenos">110</span></a>
-</span><span id="create_pobs_string-111"><a href="#create_pobs_string-111"><span class="linenos">111</span></a>    <span class="n">od</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_pobs_string-112"><a href="#create_pobs_string-112"><span class="linenos">112</span></a>    <span class="n">ename</span> <span class="o">=</span> <span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">e_names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="create_pobs_string-113"><a href="#create_pobs_string-113"><span class="linenos">113</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
-</span><span id="create_pobs_string-114"><a href="#create_pobs_string-114"><span class="linenos">114</span></a>    <span class="n">nr</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
-</span><span id="create_pobs_string-115"><a href="#create_pobs_string-115"><span class="linenos">115</span></a>    <span class="n">onames</span> <span class="o">=</span> <span class="p">[</span><span class="n">name</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">]</span>
-</span><span id="create_pobs_string-116"><a href="#create_pobs_string-116"><span class="linenos">116</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
-</span><span id="create_pobs_string-117"><a href="#create_pobs_string-117"><span class="linenos">117</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="create_pobs_string-118"><a href="#create_pobs_string-118"><span class="linenos">118</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You try to export dobs to obs!&#39;</span><span class="p">)</span>
-</span><span id="create_pobs_string-119"><a href="#create_pobs_string-119"><span class="linenos">119</span></a>        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">e_names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">!=</span> <span class="n">ename</span><span class="p">:</span>
-</span><span id="create_pobs_string-120"><a href="#create_pobs_string-120"><span class="linenos">120</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You try to export dobs to obs!&#39;</span><span class="p">)</span>
-</span><span id="create_pobs_string-121"><a href="#create_pobs_string-121"><span class="linenos">121</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span> <span class="o">!=</span> <span class="n">nr</span><span class="p">:</span>
-</span><span id="create_pobs_string-122"><a href="#create_pobs_string-122"><span class="linenos">122</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Incompatible obses in list&#39;</span><span class="p">)</span>
-</span><span id="create_pobs_string-123"><a href="#create_pobs_string-123"><span class="linenos">123</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_pobs_string-124"><a href="#create_pobs_string-124"><span class="linenos">124</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;schema&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="s1">&#39;lattobs&#39;</span><span class="p">,</span> <span class="s1">&#39;version&#39;</span><span class="p">:</span> <span class="s1">&#39;1.0&#39;</span><span class="p">}</span>
-</span><span id="create_pobs_string-125"><a href="#create_pobs_string-125"><span class="linenos">125</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span>
-</span><span id="create_pobs_string-126"><a href="#create_pobs_string-126"><span class="linenos">126</span></a>        <span class="s1">&#39;who&#39;</span><span class="p">:</span> <span class="n">getpass</span><span class="o">.</span><span class="n">getuser</span><span class="p">(),</span>
-</span><span id="create_pobs_string-127"><a href="#create_pobs_string-127"><span class="linenos">127</span></a>        <span class="s1">&#39;date&#39;</span><span class="p">:</span> <span class="nb">str</span><span class="p">(</span><span class="n">datetime</span><span class="o">.</span><span class="n">datetime</span><span class="o">.</span><span class="n">now</span><span class="p">())[:</span><span class="o">-</span><span class="mi">7</span><span class="p">],</span>
-</span><span id="create_pobs_string-128"><a href="#create_pobs_string-128"><span class="linenos">128</span></a>        <span class="s1">&#39;host&#39;</span><span class="p">:</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">(),</span>
-</span><span id="create_pobs_string-129"><a href="#create_pobs_string-129"><span class="linenos">129</span></a>        <span class="s1">&#39;tool&#39;</span><span class="p">:</span> <span class="p">{</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="s1">&#39;pyerrors&#39;</span><span class="p">,</span> <span class="s1">&#39;version&#39;</span><span class="p">:</span> <span class="n">pyerrorsversion</span><span class="o">.</span><span class="n">__version__</span><span class="p">}}</span>
-</span><span id="create_pobs_string-130"><a href="#create_pobs_string-130"><span class="linenos">130</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;pobs&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_pobs_string-131"><a href="#create_pobs_string-131"><span class="linenos">131</span></a>    <span class="n">pd</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;pobs&#39;</span><span class="p">]</span>
-</span><span id="create_pobs_string-132"><a href="#create_pobs_string-132"><span class="linenos">132</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;spec&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">spec</span>
-</span><span id="create_pobs_string-133"><a href="#create_pobs_string-133"><span class="linenos">133</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">origin</span>
-</span><span id="create_pobs_string-134"><a href="#create_pobs_string-134"><span class="linenos">134</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="create_pobs_string-135"><a href="#create_pobs_string-135"><span class="linenos">135</span></a>    <span class="k">if</span> <span class="n">enstag</span><span class="p">:</span>
-</span><span id="create_pobs_string-136"><a href="#create_pobs_string-136"><span class="linenos">136</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">enstag</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="create_pobs_string-137"><a href="#create_pobs_string-137"><span class="linenos">137</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;enstag has to be a string!&#39;</span><span class="p">)</span>
-</span><span id="create_pobs_string-138"><a href="#create_pobs_string-138"><span class="linenos">138</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;enstag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">enstag</span>
-</span><span id="create_pobs_string-139"><a href="#create_pobs_string-139"><span class="linenos">139</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="create_pobs_string-140"><a href="#create_pobs_string-140"><span class="linenos">140</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;enstag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ename</span>
-</span><span id="create_pobs_string-141"><a href="#create_pobs_string-141"><span class="linenos">141</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;nr&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">nr</span><span class="p">)</span>
-</span><span id="create_pobs_string-142"><a href="#create_pobs_string-142"><span class="linenos">142</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_pobs_string-143"><a href="#create_pobs_string-143"><span class="linenos">143</span></a>    <span class="n">osymbol</span> <span class="o">=</span> <span class="s1">&#39;cfg&#39;</span>
-</span><span id="create_pobs_string-144"><a href="#create_pobs_string-144"><span class="linenos">144</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">symbol</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="create_pobs_string-145"><a href="#create_pobs_string-145"><span class="linenos">145</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list!&#39;</span><span class="p">)</span>
-</span><span id="create_pobs_string-146"><a href="#create_pobs_string-146"><span class="linenos">146</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)):</span>
-</span><span id="create_pobs_string-147"><a href="#create_pobs_string-147"><span class="linenos">147</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list of lenght 0 or </span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)))</span>
-</span><span id="create_pobs_string-148"><a href="#create_pobs_string-148"><span class="linenos">148</span></a>    <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">symbol</span><span class="p">:</span>
-</span><span id="create_pobs_string-149"><a href="#create_pobs_string-149"><span class="linenos">149</span></a>        <span class="n">osymbol</span> <span class="o">+=</span> <span class="s1">&#39; </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="n">s</span>
-</span><span id="create_pobs_string-150"><a href="#create_pobs_string-150"><span class="linenos">150</span></a>    <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nr</span><span class="p">):</span>
-</span><span id="create_pobs_string-151"><a href="#create_pobs_string-151"><span class="linenos">151</span></a>        <span class="n">ad</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_pobs_string-152"><a href="#create_pobs_string-152"><span class="linenos">152</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">onames</span><span class="p">[</span><span class="n">r</span><span class="p">]</span>
-</span><span id="create_pobs_string-153"><a href="#create_pobs_string-153"><span class="linenos">153</span></a>        <span class="n">Nconf</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]])</span>
-</span><span id="create_pobs_string-154"><a href="#create_pobs_string-154"><span class="linenos">154</span></a>        <span class="n">layout</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> i f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">Nconf</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
-</span><span id="create_pobs_string-155"><a href="#create_pobs_string-155"><span class="linenos">155</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">layout</span>
-</span><span id="create_pobs_string-156"><a href="#create_pobs_string-156"><span class="linenos">156</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">osymbol</span>
-</span><span id="create_pobs_string-157"><a href="#create_pobs_string-157"><span class="linenos">157</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="create_pobs_string-158"><a href="#create_pobs_string-158"><span class="linenos">158</span></a>        <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Nconf</span><span class="p">):</span>
-</span><span id="create_pobs_string-159"><a href="#create_pobs_string-159"><span class="linenos">159</span></a>            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]][</span><span class="n">c</span><span class="p">]</span>
-</span><span id="create_pobs_string-160"><a href="#create_pobs_string-160"><span class="linenos">160</span></a>            <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
-</span><span id="create_pobs_string-161"><a href="#create_pobs_string-161"><span class="linenos">161</span></a>                <span class="n">num</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]][</span><span class="n">c</span><span class="p">]</span> <span class="o">+</span> <span class="n">o</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]]</span>
-</span><span id="create_pobs_string-162"><a href="#create_pobs_string-162"><span class="linenos">162</span></a>                <span class="k">if</span> <span class="n">num</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="create_pobs_string-163"><a href="#create_pobs_string-163"><span class="linenos">163</span></a>                    <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="create_pobs_string-164"><a href="#create_pobs_string-164"><span class="linenos">164</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="create_pobs_string-165"><a href="#create_pobs_string-165"><span class="linenos">165</span></a>                    <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.16e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">num</span><span class="p">)</span>
-</span><span id="create_pobs_string-166"><a href="#create_pobs_string-166"><span class="linenos">166</span></a>            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="create_pobs_string-167"><a href="#create_pobs_string-167"><span class="linenos">167</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
-</span><span id="create_pobs_string-168"><a href="#create_pobs_string-168"><span class="linenos">168</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ad</span><span class="p">)</span>
-</span><span id="create_pobs_string-169"><a href="#create_pobs_string-169"><span class="linenos">169</span></a>
-</span><span id="create_pobs_string-170"><a href="#create_pobs_string-170"><span class="linenos">170</span></a>    <span class="n">rs</span> <span class="o">=</span> <span class="s1">&#39;&lt;?xml version=&quot;1.0&quot; encoding=&quot;utf-8&quot;?&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">_dict_to_xmlstring_spaces</span><span class="p">(</span><span class="n">od</span><span class="p">)</span>
-</span><span id="create_pobs_string-171"><a href="#create_pobs_string-171"><span class="linenos">171</span></a>    <span class="k">return</span> <span class="n">rs</span>
+    <a class="headerlink" href="#create_pobs_string"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="create_pobs_string-89"><a href="#create_pobs_string-89"><span class="linenos"> 89</span></a><span class="k">def</span> <span class="nf">create_pobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">enstag</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="create_pobs_string-90"><a href="#create_pobs_string-90"><span class="linenos"> 90</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to an xml string</span>
+</span><span id="create_pobs_string-91"><a href="#create_pobs_string-91"><span class="linenos"> 91</span></a><span class="sd">    according to the Zeuthen pobs format.</span>
+</span><span id="create_pobs_string-92"><a href="#create_pobs_string-92"><span class="linenos"> 92</span></a>
+</span><span id="create_pobs_string-93"><a href="#create_pobs_string-93"><span class="linenos"> 93</span></a><span class="sd">    Tags are not written or recovered automatically. The separator | is removed from the replica names.</span>
+</span><span id="create_pobs_string-94"><a href="#create_pobs_string-94"><span class="linenos"> 94</span></a>
+</span><span id="create_pobs_string-95"><a href="#create_pobs_string-95"><span class="linenos"> 95</span></a><span class="sd">    Parameters</span>
+</span><span id="create_pobs_string-96"><a href="#create_pobs_string-96"><span class="linenos"> 96</span></a><span class="sd">    ----------</span>
+</span><span id="create_pobs_string-97"><a href="#create_pobs_string-97"><span class="linenos"> 97</span></a><span class="sd">    obsl : list</span>
+</span><span id="create_pobs_string-98"><a href="#create_pobs_string-98"><span class="linenos"> 98</span></a><span class="sd">        List of Obs that will be exported.</span>
+</span><span id="create_pobs_string-99"><a href="#create_pobs_string-99"><span class="linenos"> 99</span></a><span class="sd">        The Obs inside a structure have to be defined on the same ensemble.</span>
+</span><span id="create_pobs_string-100"><a href="#create_pobs_string-100"><span class="linenos">100</span></a><span class="sd">    name : str</span>
+</span><span id="create_pobs_string-101"><a href="#create_pobs_string-101"><span class="linenos">101</span></a><span class="sd">        The name of the observable.</span>
+</span><span id="create_pobs_string-102"><a href="#create_pobs_string-102"><span class="linenos">102</span></a><span class="sd">    spec : str</span>
+</span><span id="create_pobs_string-103"><a href="#create_pobs_string-103"><span class="linenos">103</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
+</span><span id="create_pobs_string-104"><a href="#create_pobs_string-104"><span class="linenos">104</span></a><span class="sd">    origin : str</span>
+</span><span id="create_pobs_string-105"><a href="#create_pobs_string-105"><span class="linenos">105</span></a><span class="sd">        Specify where the data has its origin.</span>
+</span><span id="create_pobs_string-106"><a href="#create_pobs_string-106"><span class="linenos">106</span></a><span class="sd">    symbol : list</span>
+</span><span id="create_pobs_string-107"><a href="#create_pobs_string-107"><span class="linenos">107</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
+</span><span id="create_pobs_string-108"><a href="#create_pobs_string-108"><span class="linenos">108</span></a><span class="sd">    enstag : str</span>
+</span><span id="create_pobs_string-109"><a href="#create_pobs_string-109"><span class="linenos">109</span></a><span class="sd">        Enstag that is written to pobs. If None, the ensemble name is used.</span>
+</span><span id="create_pobs_string-110"><a href="#create_pobs_string-110"><span class="linenos">110</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="create_pobs_string-111"><a href="#create_pobs_string-111"><span class="linenos">111</span></a>
+</span><span id="create_pobs_string-112"><a href="#create_pobs_string-112"><span class="linenos">112</span></a>    <span class="n">od</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_pobs_string-113"><a href="#create_pobs_string-113"><span class="linenos">113</span></a>    <span class="n">ename</span> <span class="o">=</span> <span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">e_names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="create_pobs_string-114"><a href="#create_pobs_string-114"><span class="linenos">114</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
+</span><span id="create_pobs_string-115"><a href="#create_pobs_string-115"><span class="linenos">115</span></a>    <span class="n">nr</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
+</span><span id="create_pobs_string-116"><a href="#create_pobs_string-116"><span class="linenos">116</span></a>    <span class="n">onames</span> <span class="o">=</span> <span class="p">[</span><span class="n">name</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">]</span>
+</span><span id="create_pobs_string-117"><a href="#create_pobs_string-117"><span class="linenos">117</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
+</span><span id="create_pobs_string-118"><a href="#create_pobs_string-118"><span class="linenos">118</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="create_pobs_string-119"><a href="#create_pobs_string-119"><span class="linenos">119</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You try to export dobs to obs!&#39;</span><span class="p">)</span>
+</span><span id="create_pobs_string-120"><a href="#create_pobs_string-120"><span class="linenos">120</span></a>        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">e_names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">!=</span> <span class="n">ename</span><span class="p">:</span>
+</span><span id="create_pobs_string-121"><a href="#create_pobs_string-121"><span class="linenos">121</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You try to export dobs to obs!&#39;</span><span class="p">)</span>
+</span><span id="create_pobs_string-122"><a href="#create_pobs_string-122"><span class="linenos">122</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span> <span class="o">!=</span> <span class="n">nr</span><span class="p">:</span>
+</span><span id="create_pobs_string-123"><a href="#create_pobs_string-123"><span class="linenos">123</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Incompatible obses in list&#39;</span><span class="p">)</span>
+</span><span id="create_pobs_string-124"><a href="#create_pobs_string-124"><span class="linenos">124</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_pobs_string-125"><a href="#create_pobs_string-125"><span class="linenos">125</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;schema&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="s1">&#39;lattobs&#39;</span><span class="p">,</span> <span class="s1">&#39;version&#39;</span><span class="p">:</span> <span class="s1">&#39;1.0&#39;</span><span class="p">}</span>
+</span><span id="create_pobs_string-126"><a href="#create_pobs_string-126"><span class="linenos">126</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span>
+</span><span id="create_pobs_string-127"><a href="#create_pobs_string-127"><span class="linenos">127</span></a>        <span class="s1">&#39;who&#39;</span><span class="p">:</span> <span class="n">getpass</span><span class="o">.</span><span class="n">getuser</span><span class="p">(),</span>
+</span><span id="create_pobs_string-128"><a href="#create_pobs_string-128"><span class="linenos">128</span></a>        <span class="s1">&#39;date&#39;</span><span class="p">:</span> <span class="nb">str</span><span class="p">(</span><span class="n">datetime</span><span class="o">.</span><span class="n">datetime</span><span class="o">.</span><span class="n">now</span><span class="p">())[:</span><span class="o">-</span><span class="mi">7</span><span class="p">],</span>
+</span><span id="create_pobs_string-129"><a href="#create_pobs_string-129"><span class="linenos">129</span></a>        <span class="s1">&#39;host&#39;</span><span class="p">:</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">(),</span>
+</span><span id="create_pobs_string-130"><a href="#create_pobs_string-130"><span class="linenos">130</span></a>        <span class="s1">&#39;tool&#39;</span><span class="p">:</span> <span class="p">{</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="s1">&#39;pyerrors&#39;</span><span class="p">,</span> <span class="s1">&#39;version&#39;</span><span class="p">:</span> <span class="n">pyerrorsversion</span><span class="o">.</span><span class="n">__version__</span><span class="p">}}</span>
+</span><span id="create_pobs_string-131"><a href="#create_pobs_string-131"><span class="linenos">131</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;pobs&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_pobs_string-132"><a href="#create_pobs_string-132"><span class="linenos">132</span></a>    <span class="n">pd</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;observables&#39;</span><span class="p">][</span><span class="s1">&#39;pobs&#39;</span><span class="p">]</span>
+</span><span id="create_pobs_string-133"><a href="#create_pobs_string-133"><span class="linenos">133</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;spec&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">spec</span>
+</span><span id="create_pobs_string-134"><a href="#create_pobs_string-134"><span class="linenos">134</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">origin</span>
+</span><span id="create_pobs_string-135"><a href="#create_pobs_string-135"><span class="linenos">135</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="create_pobs_string-136"><a href="#create_pobs_string-136"><span class="linenos">136</span></a>    <span class="k">if</span> <span class="n">enstag</span><span class="p">:</span>
+</span><span id="create_pobs_string-137"><a href="#create_pobs_string-137"><span class="linenos">137</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">enstag</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="create_pobs_string-138"><a href="#create_pobs_string-138"><span class="linenos">138</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;enstag has to be a string!&#39;</span><span class="p">)</span>
+</span><span id="create_pobs_string-139"><a href="#create_pobs_string-139"><span class="linenos">139</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;enstag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">enstag</span>
+</span><span id="create_pobs_string-140"><a href="#create_pobs_string-140"><span class="linenos">140</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="create_pobs_string-141"><a href="#create_pobs_string-141"><span class="linenos">141</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;enstag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ename</span>
+</span><span id="create_pobs_string-142"><a href="#create_pobs_string-142"><span class="linenos">142</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;nr&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">nr</span><span class="p">)</span>
+</span><span id="create_pobs_string-143"><a href="#create_pobs_string-143"><span class="linenos">143</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_pobs_string-144"><a href="#create_pobs_string-144"><span class="linenos">144</span></a>    <span class="n">osymbol</span> <span class="o">=</span> <span class="s1">&#39;cfg&#39;</span>
+</span><span id="create_pobs_string-145"><a href="#create_pobs_string-145"><span class="linenos">145</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">symbol</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="create_pobs_string-146"><a href="#create_pobs_string-146"><span class="linenos">146</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list!&#39;</span><span class="p">)</span>
+</span><span id="create_pobs_string-147"><a href="#create_pobs_string-147"><span class="linenos">147</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)):</span>
+</span><span id="create_pobs_string-148"><a href="#create_pobs_string-148"><span class="linenos">148</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list of lenght 0 or </span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)))</span>
+</span><span id="create_pobs_string-149"><a href="#create_pobs_string-149"><span class="linenos">149</span></a>    <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">symbol</span><span class="p">:</span>
+</span><span id="create_pobs_string-150"><a href="#create_pobs_string-150"><span class="linenos">150</span></a>        <span class="n">osymbol</span> <span class="o">+=</span> <span class="s1">&#39; </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="n">s</span>
+</span><span id="create_pobs_string-151"><a href="#create_pobs_string-151"><span class="linenos">151</span></a>    <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nr</span><span class="p">):</span>
+</span><span id="create_pobs_string-152"><a href="#create_pobs_string-152"><span class="linenos">152</span></a>        <span class="n">ad</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_pobs_string-153"><a href="#create_pobs_string-153"><span class="linenos">153</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">onames</span><span class="p">[</span><span class="n">r</span><span class="p">]</span>
+</span><span id="create_pobs_string-154"><a href="#create_pobs_string-154"><span class="linenos">154</span></a>        <span class="n">Nconf</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]])</span>
+</span><span id="create_pobs_string-155"><a href="#create_pobs_string-155"><span class="linenos">155</span></a>        <span class="n">layout</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> i f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">Nconf</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
+</span><span id="create_pobs_string-156"><a href="#create_pobs_string-156"><span class="linenos">156</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">layout</span>
+</span><span id="create_pobs_string-157"><a href="#create_pobs_string-157"><span class="linenos">157</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">osymbol</span>
+</span><span id="create_pobs_string-158"><a href="#create_pobs_string-158"><span class="linenos">158</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="create_pobs_string-159"><a href="#create_pobs_string-159"><span class="linenos">159</span></a>        <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">Nconf</span><span class="p">):</span>
+</span><span id="create_pobs_string-160"><a href="#create_pobs_string-160"><span class="linenos">160</span></a>            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="n">obsl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]][</span><span class="n">c</span><span class="p">]</span>
+</span><span id="create_pobs_string-161"><a href="#create_pobs_string-161"><span class="linenos">161</span></a>            <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
+</span><span id="create_pobs_string-162"><a href="#create_pobs_string-162"><span class="linenos">162</span></a>                <span class="n">num</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]][</span><span class="n">c</span><span class="p">]</span> <span class="o">+</span> <span class="n">o</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">names</span><span class="p">[</span><span class="n">r</span><span class="p">]]</span>
+</span><span id="create_pobs_string-163"><a href="#create_pobs_string-163"><span class="linenos">163</span></a>                <span class="k">if</span> <span class="n">num</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="create_pobs_string-164"><a href="#create_pobs_string-164"><span class="linenos">164</span></a>                    <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="create_pobs_string-165"><a href="#create_pobs_string-165"><span class="linenos">165</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="create_pobs_string-166"><a href="#create_pobs_string-166"><span class="linenos">166</span></a>                    <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.16e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">num</span><span class="p">)</span>
+</span><span id="create_pobs_string-167"><a href="#create_pobs_string-167"><span class="linenos">167</span></a>            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="create_pobs_string-168"><a href="#create_pobs_string-168"><span class="linenos">168</span></a>        <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
+</span><span id="create_pobs_string-169"><a href="#create_pobs_string-169"><span class="linenos">169</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ad</span><span class="p">)</span>
+</span><span id="create_pobs_string-170"><a href="#create_pobs_string-170"><span class="linenos">170</span></a>
+</span><span id="create_pobs_string-171"><a href="#create_pobs_string-171"><span class="linenos">171</span></a>    <span class="n">rs</span> <span class="o">=</span> <span class="s1">&#39;&lt;?xml version=&quot;1.0&quot; encoding=&quot;utf-8&quot;?&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">_dict_to_xmlstring_spaces</span><span class="p">(</span><span class="n">od</span><span class="p">)</span>
+</span><span id="create_pobs_string-172"><a href="#create_pobs_string-172"><span class="linenos">172</span></a>    <span class="k">return</span> <span class="n">rs</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Export a list of Obs or structures containing Obs to an xml string
 according to the Zeuthen pobs format.</p>
@@ -1090,68 +1091,59 @@ Enstag that is written to pobs. If None, the ensemble name is used.</li>
 
                 </section>
                 <section id="write_pobs">
-                            <div class="attr function"><a class="headerlink" href="#write_pobs">#&nbsp;&nbsp</a>
+                            <input id="write_pobs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">write_pobs</span><span class="signature pdoc-code multiline">(<span class="param">	<span class="n">obsl</span>,</span><span class="param">	<span class="n">fname</span>,</span><span class="param">	<span class="n">name</span>,</span><span class="param">	<span class="n">spec</span><span class="o">=</span><span class="s1">&#39;&#39;</span>,</span><span class="param">	<span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span>,</span><span class="param">	<span class="n">symbol</span><span class="o">=</span><span class="p">[]</span>,</span><span class="param">	<span class="n">enstag</span><span class="o">=</span><span class="kc">None</span>,</span><span class="param">	<span class="n">gz</span><span class="o">=</span><span class="kc">True</span></span>)</span>
+
+                <label class="view-source-button" for="write_pobs-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">write_pobs</span><span class="signature">(
-    obsl,
-    fname,
-    name,
-    spec=&#39;&#39;,
-    origin=&#39;&#39;,
-    symbol=[],
-    enstag=None,
-    gz=True
-)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="write_pobs-174"><a href="#write_pobs-174"><span class="linenos">174</span></a><span class="k">def</span> <span class="nf">write_pobs</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">enstag</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="write_pobs-175"><a href="#write_pobs-175"><span class="linenos">175</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to a .xml.gz file</span>
-</span><span id="write_pobs-176"><a href="#write_pobs-176"><span class="linenos">176</span></a><span class="sd">    according to the Zeuthen pobs format.</span>
-</span><span id="write_pobs-177"><a href="#write_pobs-177"><span class="linenos">177</span></a>
-</span><span id="write_pobs-178"><a href="#write_pobs-178"><span class="linenos">178</span></a><span class="sd">    Tags are not written or recovered automatically. The separator | is removed from the replica names.</span>
-</span><span id="write_pobs-179"><a href="#write_pobs-179"><span class="linenos">179</span></a>
-</span><span id="write_pobs-180"><a href="#write_pobs-180"><span class="linenos">180</span></a><span class="sd">    Parameters</span>
-</span><span id="write_pobs-181"><a href="#write_pobs-181"><span class="linenos">181</span></a><span class="sd">    ----------</span>
-</span><span id="write_pobs-182"><a href="#write_pobs-182"><span class="linenos">182</span></a><span class="sd">    obsl : list</span>
-</span><span id="write_pobs-183"><a href="#write_pobs-183"><span class="linenos">183</span></a><span class="sd">        List of Obs that will be exported.</span>
-</span><span id="write_pobs-184"><a href="#write_pobs-184"><span class="linenos">184</span></a><span class="sd">        The Obs inside a structure have to be defined on the same ensemble.</span>
-</span><span id="write_pobs-185"><a href="#write_pobs-185"><span class="linenos">185</span></a><span class="sd">    fname : str</span>
-</span><span id="write_pobs-186"><a href="#write_pobs-186"><span class="linenos">186</span></a><span class="sd">        Filename of the output file.</span>
-</span><span id="write_pobs-187"><a href="#write_pobs-187"><span class="linenos">187</span></a><span class="sd">    name : str</span>
-</span><span id="write_pobs-188"><a href="#write_pobs-188"><span class="linenos">188</span></a><span class="sd">        The name of the observable.</span>
-</span><span id="write_pobs-189"><a href="#write_pobs-189"><span class="linenos">189</span></a><span class="sd">    spec : str</span>
-</span><span id="write_pobs-190"><a href="#write_pobs-190"><span class="linenos">190</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
-</span><span id="write_pobs-191"><a href="#write_pobs-191"><span class="linenos">191</span></a><span class="sd">    origin : str</span>
-</span><span id="write_pobs-192"><a href="#write_pobs-192"><span class="linenos">192</span></a><span class="sd">        Specify where the data has its origin.</span>
-</span><span id="write_pobs-193"><a href="#write_pobs-193"><span class="linenos">193</span></a><span class="sd">    symbol : list</span>
-</span><span id="write_pobs-194"><a href="#write_pobs-194"><span class="linenos">194</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
-</span><span id="write_pobs-195"><a href="#write_pobs-195"><span class="linenos">195</span></a><span class="sd">    enstag : str</span>
-</span><span id="write_pobs-196"><a href="#write_pobs-196"><span class="linenos">196</span></a><span class="sd">        Enstag that is written to pobs. If None, the ensemble name is used.</span>
-</span><span id="write_pobs-197"><a href="#write_pobs-197"><span class="linenos">197</span></a><span class="sd">    gz : bool</span>
-</span><span id="write_pobs-198"><a href="#write_pobs-198"><span class="linenos">198</span></a><span class="sd">        If True, the output is a gzipped xml. If False, the output is an xml file.</span>
-</span><span id="write_pobs-199"><a href="#write_pobs-199"><span class="linenos">199</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="write_pobs-200"><a href="#write_pobs-200"><span class="linenos">200</span></a>    <span class="n">pobsstring</span> <span class="o">=</span> <span class="n">create_pobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="p">,</span> <span class="n">origin</span><span class="p">,</span> <span class="n">symbol</span><span class="p">,</span> <span class="n">enstag</span><span class="p">)</span>
-</span><span id="write_pobs-201"><a href="#write_pobs-201"><span class="linenos">201</span></a>
-</span><span id="write_pobs-202"><a href="#write_pobs-202"><span class="linenos">202</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="write_pobs-203"><a href="#write_pobs-203"><span class="linenos">203</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
-</span><span id="write_pobs-204"><a href="#write_pobs-204"><span class="linenos">204</span></a>
-</span><span id="write_pobs-205"><a href="#write_pobs-205"><span class="linenos">205</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
-</span><span id="write_pobs-206"><a href="#write_pobs-206"><span class="linenos">206</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="write_pobs-207"><a href="#write_pobs-207"><span class="linenos">207</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
-</span><span id="write_pobs-208"><a href="#write_pobs-208"><span class="linenos">208</span></a>
-</span><span id="write_pobs-209"><a href="#write_pobs-209"><span class="linenos">209</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
-</span><span id="write_pobs-210"><a href="#write_pobs-210"><span class="linenos">210</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">pobsstring</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span>
-</span><span id="write_pobs-211"><a href="#write_pobs-211"><span class="linenos">211</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="write_pobs-212"><a href="#write_pobs-212"><span class="linenos">212</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="write_pobs-213"><a href="#write_pobs-213"><span class="linenos">213</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">pobsstring</span><span class="p">)</span>
-</span><span id="write_pobs-214"><a href="#write_pobs-214"><span class="linenos">214</span></a>    <span class="n">fp</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+    <a class="headerlink" href="#write_pobs"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="write_pobs-175"><a href="#write_pobs-175"><span class="linenos">175</span></a><span class="k">def</span> <span class="nf">write_pobs</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">enstag</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="write_pobs-176"><a href="#write_pobs-176"><span class="linenos">176</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to a .xml.gz file</span>
+</span><span id="write_pobs-177"><a href="#write_pobs-177"><span class="linenos">177</span></a><span class="sd">    according to the Zeuthen pobs format.</span>
+</span><span id="write_pobs-178"><a href="#write_pobs-178"><span class="linenos">178</span></a>
+</span><span id="write_pobs-179"><a href="#write_pobs-179"><span class="linenos">179</span></a><span class="sd">    Tags are not written or recovered automatically. The separator | is removed from the replica names.</span>
+</span><span id="write_pobs-180"><a href="#write_pobs-180"><span class="linenos">180</span></a>
+</span><span id="write_pobs-181"><a href="#write_pobs-181"><span class="linenos">181</span></a><span class="sd">    Parameters</span>
+</span><span id="write_pobs-182"><a href="#write_pobs-182"><span class="linenos">182</span></a><span class="sd">    ----------</span>
+</span><span id="write_pobs-183"><a href="#write_pobs-183"><span class="linenos">183</span></a><span class="sd">    obsl : list</span>
+</span><span id="write_pobs-184"><a href="#write_pobs-184"><span class="linenos">184</span></a><span class="sd">        List of Obs that will be exported.</span>
+</span><span id="write_pobs-185"><a href="#write_pobs-185"><span class="linenos">185</span></a><span class="sd">        The Obs inside a structure have to be defined on the same ensemble.</span>
+</span><span id="write_pobs-186"><a href="#write_pobs-186"><span class="linenos">186</span></a><span class="sd">    fname : str</span>
+</span><span id="write_pobs-187"><a href="#write_pobs-187"><span class="linenos">187</span></a><span class="sd">        Filename of the output file.</span>
+</span><span id="write_pobs-188"><a href="#write_pobs-188"><span class="linenos">188</span></a><span class="sd">    name : str</span>
+</span><span id="write_pobs-189"><a href="#write_pobs-189"><span class="linenos">189</span></a><span class="sd">        The name of the observable.</span>
+</span><span id="write_pobs-190"><a href="#write_pobs-190"><span class="linenos">190</span></a><span class="sd">    spec : str</span>
+</span><span id="write_pobs-191"><a href="#write_pobs-191"><span class="linenos">191</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
+</span><span id="write_pobs-192"><a href="#write_pobs-192"><span class="linenos">192</span></a><span class="sd">    origin : str</span>
+</span><span id="write_pobs-193"><a href="#write_pobs-193"><span class="linenos">193</span></a><span class="sd">        Specify where the data has its origin.</span>
+</span><span id="write_pobs-194"><a href="#write_pobs-194"><span class="linenos">194</span></a><span class="sd">    symbol : list</span>
+</span><span id="write_pobs-195"><a href="#write_pobs-195"><span class="linenos">195</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
+</span><span id="write_pobs-196"><a href="#write_pobs-196"><span class="linenos">196</span></a><span class="sd">    enstag : str</span>
+</span><span id="write_pobs-197"><a href="#write_pobs-197"><span class="linenos">197</span></a><span class="sd">        Enstag that is written to pobs. If None, the ensemble name is used.</span>
+</span><span id="write_pobs-198"><a href="#write_pobs-198"><span class="linenos">198</span></a><span class="sd">    gz : bool</span>
+</span><span id="write_pobs-199"><a href="#write_pobs-199"><span class="linenos">199</span></a><span class="sd">        If True, the output is a gzipped xml. If False, the output is an xml file.</span>
+</span><span id="write_pobs-200"><a href="#write_pobs-200"><span class="linenos">200</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="write_pobs-201"><a href="#write_pobs-201"><span class="linenos">201</span></a>    <span class="n">pobsstring</span> <span class="o">=</span> <span class="n">create_pobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="p">,</span> <span class="n">origin</span><span class="p">,</span> <span class="n">symbol</span><span class="p">,</span> <span class="n">enstag</span><span class="p">)</span>
+</span><span id="write_pobs-202"><a href="#write_pobs-202"><span class="linenos">202</span></a>
+</span><span id="write_pobs-203"><a href="#write_pobs-203"><span class="linenos">203</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="write_pobs-204"><a href="#write_pobs-204"><span class="linenos">204</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
+</span><span id="write_pobs-205"><a href="#write_pobs-205"><span class="linenos">205</span></a>
+</span><span id="write_pobs-206"><a href="#write_pobs-206"><span class="linenos">206</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
+</span><span id="write_pobs-207"><a href="#write_pobs-207"><span class="linenos">207</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="write_pobs-208"><a href="#write_pobs-208"><span class="linenos">208</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
+</span><span id="write_pobs-209"><a href="#write_pobs-209"><span class="linenos">209</span></a>
+</span><span id="write_pobs-210"><a href="#write_pobs-210"><span class="linenos">210</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
+</span><span id="write_pobs-211"><a href="#write_pobs-211"><span class="linenos">211</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">pobsstring</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span>
+</span><span id="write_pobs-212"><a href="#write_pobs-212"><span class="linenos">212</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="write_pobs-213"><a href="#write_pobs-213"><span class="linenos">213</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="write_pobs-214"><a href="#write_pobs-214"><span class="linenos">214</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">pobsstring</span><span class="p">)</span>
+</span><span id="write_pobs-215"><a href="#write_pobs-215"><span class="linenos">215</span></a>    <span class="n">fp</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Export a list of Obs or structures containing Obs to a .xml.gz file
 according to the Zeuthen pobs format.</p>
@@ -1184,107 +1176,107 @@ If True, the output is a gzipped xml. If False, the output is an xml file.</li>
 
                 </section>
                 <section id="read_pobs">
-                            <div class="attr function"><a class="headerlink" href="#read_pobs">#&nbsp;&nbsp</a>
+                            <input id="read_pobs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_pobs</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">fname</span>, </span><span class="param"><span class="n">full_output</span><span class="o">=</span><span class="kc">False</span>, </span><span class="param"><span class="n">gz</span><span class="o">=</span><span class="kc">True</span>, </span><span class="param"><span class="n">separator_insertion</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="read_pobs-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_pobs</span><span class="signature">(fname, full_output=False, gz=True, separator_insertion=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_pobs-291"><a href="#read_pobs-291"><span class="linenos">291</span></a><span class="k">def</span> <span class="nf">read_pobs</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="read_pobs-292"><a href="#read_pobs-292"><span class="linenos">292</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs from an xml.gz file in the Zeuthen pobs format.</span>
-</span><span id="read_pobs-293"><a href="#read_pobs-293"><span class="linenos">293</span></a>
-</span><span id="read_pobs-294"><a href="#read_pobs-294"><span class="linenos">294</span></a><span class="sd">    Tags are not written or recovered automatically.</span>
-</span><span id="read_pobs-295"><a href="#read_pobs-295"><span class="linenos">295</span></a>
-</span><span id="read_pobs-296"><a href="#read_pobs-296"><span class="linenos">296</span></a><span class="sd">    Parameters</span>
-</span><span id="read_pobs-297"><a href="#read_pobs-297"><span class="linenos">297</span></a><span class="sd">    ----------</span>
-</span><span id="read_pobs-298"><a href="#read_pobs-298"><span class="linenos">298</span></a><span class="sd">    fname : str</span>
-</span><span id="read_pobs-299"><a href="#read_pobs-299"><span class="linenos">299</span></a><span class="sd">        Filename of the input file.</span>
-</span><span id="read_pobs-300"><a href="#read_pobs-300"><span class="linenos">300</span></a><span class="sd">    full_output : bool</span>
-</span><span id="read_pobs-301"><a href="#read_pobs-301"><span class="linenos">301</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="read_pobs-302"><a href="#read_pobs-302"><span class="linenos">302</span></a><span class="sd">        If False, only the data is returned as list.</span>
-</span><span id="read_pobs-303"><a href="#read_pobs-303"><span class="linenos">303</span></a><span class="sd">    separatior_insertion: str or int</span>
-</span><span id="read_pobs-304"><a href="#read_pobs-304"><span class="linenos">304</span></a><span class="sd">        str: replace all occurences of &quot;separator_insertion&quot; within the replica names</span>
-</span><span id="read_pobs-305"><a href="#read_pobs-305"><span class="linenos">305</span></a><span class="sd">        by &quot;|%s&quot; % (separator_insertion) when constructing the names of the replica.</span>
-</span><span id="read_pobs-306"><a href="#read_pobs-306"><span class="linenos">306</span></a><span class="sd">        int: Insert the separator &quot;|&quot; at the position given by separator_insertion.</span>
-</span><span id="read_pobs-307"><a href="#read_pobs-307"><span class="linenos">307</span></a><span class="sd">        None (default): Replica names remain unchanged.</span>
-</span><span id="read_pobs-308"><a href="#read_pobs-308"><span class="linenos">308</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_pobs-309"><a href="#read_pobs-309"><span class="linenos">309</span></a>
-</span><span id="read_pobs-310"><a href="#read_pobs-310"><span class="linenos">310</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="read_pobs-311"><a href="#read_pobs-311"><span class="linenos">311</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
-</span><span id="read_pobs-312"><a href="#read_pobs-312"><span class="linenos">312</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
-</span><span id="read_pobs-313"><a href="#read_pobs-313"><span class="linenos">313</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="read_pobs-314"><a href="#read_pobs-314"><span class="linenos">314</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
-</span><span id="read_pobs-315"><a href="#read_pobs-315"><span class="linenos">315</span></a>        <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
-</span><span id="read_pobs-316"><a href="#read_pobs-316"><span class="linenos">316</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
-</span><span id="read_pobs-317"><a href="#read_pobs-317"><span class="linenos">317</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_pobs-318"><a href="#read_pobs-318"><span class="linenos">318</span></a>        <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="read_pobs-319"><a href="#read_pobs-319"><span class="linenos">319</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!&quot;</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
-</span><span id="read_pobs-320"><a href="#read_pobs-320"><span class="linenos">320</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
-</span><span id="read_pobs-321"><a href="#read_pobs-321"><span class="linenos">321</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
-</span><span id="read_pobs-322"><a href="#read_pobs-322"><span class="linenos">322</span></a>
-</span><span id="read_pobs-323"><a href="#read_pobs-323"><span class="linenos">323</span></a>    <span class="c1"># parse xml file content</span>
-</span><span id="read_pobs-324"><a href="#read_pobs-324"><span class="linenos">324</span></a>    <span class="n">root</span> <span class="o">=</span> <span class="n">et</span><span class="o">.</span><span class="n">fromstring</span><span class="p">(</span><span class="n">content</span><span class="p">)</span>
-</span><span id="read_pobs-325"><a href="#read_pobs-325"><span class="linenos">325</span></a>
-</span><span id="read_pobs-326"><a href="#read_pobs-326"><span class="linenos">326</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;pobs&#39;</span><span class="p">)</span>
-</span><span id="read_pobs-327"><a href="#read_pobs-327"><span class="linenos">327</span></a>    <span class="n">pobs</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="read_pobs-328"><a href="#read_pobs-328"><span class="linenos">328</span></a>
-</span><span id="read_pobs-329"><a href="#read_pobs-329"><span class="linenos">329</span></a>    <span class="n">version</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="read_pobs-330"><a href="#read_pobs-330"><span class="linenos">330</span></a>
-</span><span id="read_pobs-331"><a href="#read_pobs-331"><span class="linenos">331</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;origin&#39;</span><span class="p">)</span>
-</span><span id="read_pobs-332"><a href="#read_pobs-332"><span class="linenos">332</span></a>    <span class="n">file_origin</span> <span class="o">=</span> <span class="n">_etree_to_dict</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">])[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span>
-</span><span id="read_pobs-333"><a href="#read_pobs-333"><span class="linenos">333</span></a>
-</span><span id="read_pobs-334"><a href="#read_pobs-334"><span class="linenos">334</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_pobs-335"><a href="#read_pobs-335"><span class="linenos">335</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_pobs-336"><a href="#read_pobs-336"><span class="linenos">336</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_pobs-337"><a href="#read_pobs-337"><span class="linenos">337</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">5</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">pobs</span><span class="p">)):</span>
-</span><span id="read_pobs-338"><a href="#read_pobs-338"><span class="linenos">338</span></a>        <span class="n">delta</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_import_rdata</span><span class="p">(</span><span class="n">pobs</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
-</span><span id="read_pobs-339"><a href="#read_pobs-339"><span class="linenos">339</span></a>        <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">delta</span><span class="p">)</span>
-</span><span id="read_pobs-340"><a href="#read_pobs-340"><span class="linenos">340</span></a>        <span class="k">if</span> <span class="n">separator_insertion</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_pobs-341"><a href="#read_pobs-341"><span class="linenos">341</span></a>            <span class="k">pass</span>
-</span><span id="read_pobs-342"><a href="#read_pobs-342"><span class="linenos">342</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
-</span><span id="read_pobs-343"><a href="#read_pobs-343"><span class="linenos">343</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">name</span><span class="p">[:</span><span class="n">separator_insertion</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">[</span><span class="n">separator_insertion</span><span class="p">:]</span>
-</span><span id="read_pobs-344"><a href="#read_pobs-344"><span class="linenos">344</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="read_pobs-345"><a href="#read_pobs-345"><span class="linenos">345</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">name</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="s2">&quot;|</span><span class="si">%s</span><span class="s2">&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
-</span><span id="read_pobs-346"><a href="#read_pobs-346"><span class="linenos">346</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_pobs-347"><a href="#read_pobs-347"><span class="linenos">347</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;separator_insertion has to be string or int, is &quot;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
-</span><span id="read_pobs-348"><a href="#read_pobs-348"><span class="linenos">348</span></a>        <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="read_pobs-349"><a href="#read_pobs-349"><span class="linenos">349</span></a>        <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
-</span><span id="read_pobs-350"><a href="#read_pobs-350"><span class="linenos">350</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="p">[</span><span class="n">Obs</span><span class="p">([</span><span class="n">d</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="k">for</span> <span class="n">d</span> <span class="ow">in</span> <span class="n">deltas</span><span class="p">],</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="mi">0</span><span class="p">]))]</span>
-</span><span id="read_pobs-351"><a href="#read_pobs-351"><span class="linenos">351</span></a>
-</span><span id="read_pobs-352"><a href="#read_pobs-352"><span class="linenos">352</span></a>    <span class="n">descriptiond</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="read_pobs-353"><a href="#read_pobs-353"><span class="linenos">353</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">4</span><span class="p">):</span>
-</span><span id="read_pobs-354"><a href="#read_pobs-354"><span class="linenos">354</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="n">pobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span> <span class="o">=</span> <span class="n">pobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="read_pobs-355"><a href="#read_pobs-355"><span class="linenos">355</span></a>
-</span><span id="read_pobs-356"><a href="#read_pobs-356"><span class="linenos">356</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">pobs</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;nr&quot;</span><span class="p">)</span>
-</span><span id="read_pobs-357"><a href="#read_pobs-357"><span class="linenos">357</span></a>
-</span><span id="read_pobs-358"><a href="#read_pobs-358"><span class="linenos">358</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">pobs</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;array&#39;</span><span class="p">)</span>
-</span><span id="read_pobs-359"><a href="#read_pobs-359"><span class="linenos">359</span></a>    <span class="k">if</span> <span class="n">pobs</span><span class="p">[</span><span class="mi">5</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;symbol&#39;</span><span class="p">:</span>
-</span><span id="read_pobs-360"><a href="#read_pobs-360"><span class="linenos">360</span></a>        <span class="n">symbol</span> <span class="o">=</span> <span class="n">pobs</span><span class="p">[</span><span class="mi">5</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="read_pobs-361"><a href="#read_pobs-361"><span class="linenos">361</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">symbol</span>
-</span><span id="read_pobs-362"><a href="#read_pobs-362"><span class="linenos">362</span></a>
-</span><span id="read_pobs-363"><a href="#read_pobs-363"><span class="linenos">363</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
-</span><span id="read_pobs-364"><a href="#read_pobs-364"><span class="linenos">364</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="read_pobs-365"><a href="#read_pobs-365"><span class="linenos">365</span></a>        <span class="n">tool</span> <span class="o">=</span> <span class="n">file_origin</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tool&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="read_pobs-366"><a href="#read_pobs-366"><span class="linenos">366</span></a>        <span class="k">if</span> <span class="n">tool</span><span class="p">:</span>
-</span><span id="read_pobs-367"><a href="#read_pobs-367"><span class="linenos">367</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">+</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span>
-</span><span id="read_pobs-368"><a href="#read_pobs-368"><span class="linenos">368</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_pobs-369"><a href="#read_pobs-369"><span class="linenos">369</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="read_pobs-370"><a href="#read_pobs-370"><span class="linenos">370</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">program</span>
-</span><span id="read_pobs-371"><a href="#read_pobs-371"><span class="linenos">371</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">version</span>
-</span><span id="read_pobs-372"><a href="#read_pobs-372"><span class="linenos">372</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span>
-</span><span id="read_pobs-373"><a href="#read_pobs-373"><span class="linenos">373</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span>
-</span><span id="read_pobs-374"><a href="#read_pobs-374"><span class="linenos">374</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span>
-</span><span id="read_pobs-375"><a href="#read_pobs-375"><span class="linenos">375</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">descriptiond</span>
-</span><span id="read_pobs-376"><a href="#read_pobs-376"><span class="linenos">376</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">res</span>
-</span><span id="read_pobs-377"><a href="#read_pobs-377"><span class="linenos">377</span></a>        <span class="k">return</span> <span class="n">retd</span>
-</span><span id="read_pobs-378"><a href="#read_pobs-378"><span class="linenos">378</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_pobs-379"><a href="#read_pobs-379"><span class="linenos">379</span></a>        <span class="k">return</span> <span class="n">res</span>
+    <a class="headerlink" href="#read_pobs"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_pobs-292"><a href="#read_pobs-292"><span class="linenos">292</span></a><span class="k">def</span> <span class="nf">read_pobs</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="read_pobs-293"><a href="#read_pobs-293"><span class="linenos">293</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs from an xml.gz file in the Zeuthen pobs format.</span>
+</span><span id="read_pobs-294"><a href="#read_pobs-294"><span class="linenos">294</span></a>
+</span><span id="read_pobs-295"><a href="#read_pobs-295"><span class="linenos">295</span></a><span class="sd">    Tags are not written or recovered automatically.</span>
+</span><span id="read_pobs-296"><a href="#read_pobs-296"><span class="linenos">296</span></a>
+</span><span id="read_pobs-297"><a href="#read_pobs-297"><span class="linenos">297</span></a><span class="sd">    Parameters</span>
+</span><span id="read_pobs-298"><a href="#read_pobs-298"><span class="linenos">298</span></a><span class="sd">    ----------</span>
+</span><span id="read_pobs-299"><a href="#read_pobs-299"><span class="linenos">299</span></a><span class="sd">    fname : str</span>
+</span><span id="read_pobs-300"><a href="#read_pobs-300"><span class="linenos">300</span></a><span class="sd">        Filename of the input file.</span>
+</span><span id="read_pobs-301"><a href="#read_pobs-301"><span class="linenos">301</span></a><span class="sd">    full_output : bool</span>
+</span><span id="read_pobs-302"><a href="#read_pobs-302"><span class="linenos">302</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="read_pobs-303"><a href="#read_pobs-303"><span class="linenos">303</span></a><span class="sd">        If False, only the data is returned as list.</span>
+</span><span id="read_pobs-304"><a href="#read_pobs-304"><span class="linenos">304</span></a><span class="sd">    separatior_insertion: str or int</span>
+</span><span id="read_pobs-305"><a href="#read_pobs-305"><span class="linenos">305</span></a><span class="sd">        str: replace all occurences of &quot;separator_insertion&quot; within the replica names</span>
+</span><span id="read_pobs-306"><a href="#read_pobs-306"><span class="linenos">306</span></a><span class="sd">        by &quot;|%s&quot; % (separator_insertion) when constructing the names of the replica.</span>
+</span><span id="read_pobs-307"><a href="#read_pobs-307"><span class="linenos">307</span></a><span class="sd">        int: Insert the separator &quot;|&quot; at the position given by separator_insertion.</span>
+</span><span id="read_pobs-308"><a href="#read_pobs-308"><span class="linenos">308</span></a><span class="sd">        None (default): Replica names remain unchanged.</span>
+</span><span id="read_pobs-309"><a href="#read_pobs-309"><span class="linenos">309</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_pobs-310"><a href="#read_pobs-310"><span class="linenos">310</span></a>
+</span><span id="read_pobs-311"><a href="#read_pobs-311"><span class="linenos">311</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="read_pobs-312"><a href="#read_pobs-312"><span class="linenos">312</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
+</span><span id="read_pobs-313"><a href="#read_pobs-313"><span class="linenos">313</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
+</span><span id="read_pobs-314"><a href="#read_pobs-314"><span class="linenos">314</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="read_pobs-315"><a href="#read_pobs-315"><span class="linenos">315</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
+</span><span id="read_pobs-316"><a href="#read_pobs-316"><span class="linenos">316</span></a>        <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+</span><span id="read_pobs-317"><a href="#read_pobs-317"><span class="linenos">317</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
+</span><span id="read_pobs-318"><a href="#read_pobs-318"><span class="linenos">318</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_pobs-319"><a href="#read_pobs-319"><span class="linenos">319</span></a>        <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="read_pobs-320"><a href="#read_pobs-320"><span class="linenos">320</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!&quot;</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
+</span><span id="read_pobs-321"><a href="#read_pobs-321"><span class="linenos">321</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+</span><span id="read_pobs-322"><a href="#read_pobs-322"><span class="linenos">322</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
+</span><span id="read_pobs-323"><a href="#read_pobs-323"><span class="linenos">323</span></a>
+</span><span id="read_pobs-324"><a href="#read_pobs-324"><span class="linenos">324</span></a>    <span class="c1"># parse xml file content</span>
+</span><span id="read_pobs-325"><a href="#read_pobs-325"><span class="linenos">325</span></a>    <span class="n">root</span> <span class="o">=</span> <span class="n">et</span><span class="o">.</span><span class="n">fromstring</span><span class="p">(</span><span class="n">content</span><span class="p">)</span>
+</span><span id="read_pobs-326"><a href="#read_pobs-326"><span class="linenos">326</span></a>
+</span><span id="read_pobs-327"><a href="#read_pobs-327"><span class="linenos">327</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;pobs&#39;</span><span class="p">)</span>
+</span><span id="read_pobs-328"><a href="#read_pobs-328"><span class="linenos">328</span></a>    <span class="n">pobs</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="read_pobs-329"><a href="#read_pobs-329"><span class="linenos">329</span></a>
+</span><span id="read_pobs-330"><a href="#read_pobs-330"><span class="linenos">330</span></a>    <span class="n">version</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="read_pobs-331"><a href="#read_pobs-331"><span class="linenos">331</span></a>
+</span><span id="read_pobs-332"><a href="#read_pobs-332"><span class="linenos">332</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;origin&#39;</span><span class="p">)</span>
+</span><span id="read_pobs-333"><a href="#read_pobs-333"><span class="linenos">333</span></a>    <span class="n">file_origin</span> <span class="o">=</span> <span class="n">_etree_to_dict</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">])[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span>
+</span><span id="read_pobs-334"><a href="#read_pobs-334"><span class="linenos">334</span></a>
+</span><span id="read_pobs-335"><a href="#read_pobs-335"><span class="linenos">335</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_pobs-336"><a href="#read_pobs-336"><span class="linenos">336</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_pobs-337"><a href="#read_pobs-337"><span class="linenos">337</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_pobs-338"><a href="#read_pobs-338"><span class="linenos">338</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">5</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">pobs</span><span class="p">)):</span>
+</span><span id="read_pobs-339"><a href="#read_pobs-339"><span class="linenos">339</span></a>        <span class="n">delta</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_import_rdata</span><span class="p">(</span><span class="n">pobs</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+</span><span id="read_pobs-340"><a href="#read_pobs-340"><span class="linenos">340</span></a>        <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">delta</span><span class="p">)</span>
+</span><span id="read_pobs-341"><a href="#read_pobs-341"><span class="linenos">341</span></a>        <span class="k">if</span> <span class="n">separator_insertion</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_pobs-342"><a href="#read_pobs-342"><span class="linenos">342</span></a>            <span class="k">pass</span>
+</span><span id="read_pobs-343"><a href="#read_pobs-343"><span class="linenos">343</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
+</span><span id="read_pobs-344"><a href="#read_pobs-344"><span class="linenos">344</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">name</span><span class="p">[:</span><span class="n">separator_insertion</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">[</span><span class="n">separator_insertion</span><span class="p">:]</span>
+</span><span id="read_pobs-345"><a href="#read_pobs-345"><span class="linenos">345</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="read_pobs-346"><a href="#read_pobs-346"><span class="linenos">346</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">name</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="s2">&quot;|</span><span class="si">%s</span><span class="s2">&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
+</span><span id="read_pobs-347"><a href="#read_pobs-347"><span class="linenos">347</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_pobs-348"><a href="#read_pobs-348"><span class="linenos">348</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;separator_insertion has to be string or int, is &quot;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
+</span><span id="read_pobs-349"><a href="#read_pobs-349"><span class="linenos">349</span></a>        <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="read_pobs-350"><a href="#read_pobs-350"><span class="linenos">350</span></a>        <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
+</span><span id="read_pobs-351"><a href="#read_pobs-351"><span class="linenos">351</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="p">[</span><span class="n">Obs</span><span class="p">([</span><span class="n">d</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="k">for</span> <span class="n">d</span> <span class="ow">in</span> <span class="n">deltas</span><span class="p">],</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="mi">0</span><span class="p">]))]</span>
+</span><span id="read_pobs-352"><a href="#read_pobs-352"><span class="linenos">352</span></a>
+</span><span id="read_pobs-353"><a href="#read_pobs-353"><span class="linenos">353</span></a>    <span class="n">descriptiond</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="read_pobs-354"><a href="#read_pobs-354"><span class="linenos">354</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">4</span><span class="p">):</span>
+</span><span id="read_pobs-355"><a href="#read_pobs-355"><span class="linenos">355</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="n">pobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span> <span class="o">=</span> <span class="n">pobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="read_pobs-356"><a href="#read_pobs-356"><span class="linenos">356</span></a>
+</span><span id="read_pobs-357"><a href="#read_pobs-357"><span class="linenos">357</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">pobs</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;nr&quot;</span><span class="p">)</span>
+</span><span id="read_pobs-358"><a href="#read_pobs-358"><span class="linenos">358</span></a>
+</span><span id="read_pobs-359"><a href="#read_pobs-359"><span class="linenos">359</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">pobs</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;array&#39;</span><span class="p">)</span>
+</span><span id="read_pobs-360"><a href="#read_pobs-360"><span class="linenos">360</span></a>    <span class="k">if</span> <span class="n">pobs</span><span class="p">[</span><span class="mi">5</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;symbol&#39;</span><span class="p">:</span>
+</span><span id="read_pobs-361"><a href="#read_pobs-361"><span class="linenos">361</span></a>        <span class="n">symbol</span> <span class="o">=</span> <span class="n">pobs</span><span class="p">[</span><span class="mi">5</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="read_pobs-362"><a href="#read_pobs-362"><span class="linenos">362</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">symbol</span>
+</span><span id="read_pobs-363"><a href="#read_pobs-363"><span class="linenos">363</span></a>
+</span><span id="read_pobs-364"><a href="#read_pobs-364"><span class="linenos">364</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
+</span><span id="read_pobs-365"><a href="#read_pobs-365"><span class="linenos">365</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="read_pobs-366"><a href="#read_pobs-366"><span class="linenos">366</span></a>        <span class="n">tool</span> <span class="o">=</span> <span class="n">file_origin</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tool&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="read_pobs-367"><a href="#read_pobs-367"><span class="linenos">367</span></a>        <span class="k">if</span> <span class="n">tool</span><span class="p">:</span>
+</span><span id="read_pobs-368"><a href="#read_pobs-368"><span class="linenos">368</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">+</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span>
+</span><span id="read_pobs-369"><a href="#read_pobs-369"><span class="linenos">369</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_pobs-370"><a href="#read_pobs-370"><span class="linenos">370</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="read_pobs-371"><a href="#read_pobs-371"><span class="linenos">371</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">program</span>
+</span><span id="read_pobs-372"><a href="#read_pobs-372"><span class="linenos">372</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">version</span>
+</span><span id="read_pobs-373"><a href="#read_pobs-373"><span class="linenos">373</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span>
+</span><span id="read_pobs-374"><a href="#read_pobs-374"><span class="linenos">374</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span>
+</span><span id="read_pobs-375"><a href="#read_pobs-375"><span class="linenos">375</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span>
+</span><span id="read_pobs-376"><a href="#read_pobs-376"><span class="linenos">376</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">descriptiond</span>
+</span><span id="read_pobs-377"><a href="#read_pobs-377"><span class="linenos">377</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">res</span>
+</span><span id="read_pobs-378"><a href="#read_pobs-378"><span class="linenos">378</span></a>        <span class="k">return</span> <span class="n">retd</span>
+</span><span id="read_pobs-379"><a href="#read_pobs-379"><span class="linenos">379</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_pobs-380"><a href="#read_pobs-380"><span class="linenos">380</span></a>        <span class="k">return</span> <span class="n">res</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Import a list of Obs from an xml.gz file in the Zeuthen pobs format.</p>
 
@@ -1309,179 +1301,179 @@ None (default): Replica names remain unchanged.</li>
 
                 </section>
                 <section id="import_dobs_string">
-                            <div class="attr function"><a class="headerlink" href="#import_dobs_string">#&nbsp;&nbsp</a>
+                            <input id="import_dobs_string-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">import_dobs_string</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">content</span>, </span><span class="param"><span class="n">noempty</span><span class="o">=</span><span class="kc">False</span>, </span><span class="param"><span class="n">full_output</span><span class="o">=</span><span class="kc">False</span>, </span><span class="param"><span class="n">separator_insertion</span><span class="o">=</span><span class="kc">True</span></span>)</span>
+
+                <label class="view-source-button" for="import_dobs_string-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">import_dobs_string</span><span class="signature">(content, noempty=False, full_output=False, separator_insertion=True)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="import_dobs_string-387"><a href="#import_dobs_string-387"><span class="linenos">387</span></a><span class="k">def</span> <span class="nf">import_dobs_string</span><span class="p">(</span><span class="n">content</span><span class="p">,</span> <span class="n">noempty</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="import_dobs_string-388"><a href="#import_dobs_string-388"><span class="linenos">388</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs from a string in the Zeuthen dobs format.</span>
-</span><span id="import_dobs_string-389"><a href="#import_dobs_string-389"><span class="linenos">389</span></a>
-</span><span id="import_dobs_string-390"><a href="#import_dobs_string-390"><span class="linenos">390</span></a><span class="sd">    Tags are not written or recovered automatically.</span>
-</span><span id="import_dobs_string-391"><a href="#import_dobs_string-391"><span class="linenos">391</span></a>
-</span><span id="import_dobs_string-392"><a href="#import_dobs_string-392"><span class="linenos">392</span></a><span class="sd">    Parameters</span>
-</span><span id="import_dobs_string-393"><a href="#import_dobs_string-393"><span class="linenos">393</span></a><span class="sd">    ----------</span>
-</span><span id="import_dobs_string-394"><a href="#import_dobs_string-394"><span class="linenos">394</span></a><span class="sd">    content : str</span>
-</span><span id="import_dobs_string-395"><a href="#import_dobs_string-395"><span class="linenos">395</span></a><span class="sd">        XML string containing the data</span>
-</span><span id="import_dobs_string-396"><a href="#import_dobs_string-396"><span class="linenos">396</span></a><span class="sd">    noemtpy : bool</span>
-</span><span id="import_dobs_string-397"><a href="#import_dobs_string-397"><span class="linenos">397</span></a><span class="sd">        If True, ensembles with no contribution to the Obs are not included.</span>
-</span><span id="import_dobs_string-398"><a href="#import_dobs_string-398"><span class="linenos">398</span></a><span class="sd">        If False, ensembles are included as written in the file, possibly with vanishing entries.</span>
-</span><span id="import_dobs_string-399"><a href="#import_dobs_string-399"><span class="linenos">399</span></a><span class="sd">    full_output : bool</span>
-</span><span id="import_dobs_string-400"><a href="#import_dobs_string-400"><span class="linenos">400</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="import_dobs_string-401"><a href="#import_dobs_string-401"><span class="linenos">401</span></a><span class="sd">        If False, only the data is returned as list.</span>
-</span><span id="import_dobs_string-402"><a href="#import_dobs_string-402"><span class="linenos">402</span></a><span class="sd">    separatior_insertion: str, int or bool</span>
-</span><span id="import_dobs_string-403"><a href="#import_dobs_string-403"><span class="linenos">403</span></a><span class="sd">        str: replace all occurences of &quot;separator_insertion&quot; within the replica names</span>
-</span><span id="import_dobs_string-404"><a href="#import_dobs_string-404"><span class="linenos">404</span></a><span class="sd">        by &quot;|%s&quot; % (separator_insertion) when constructing the names of the replica.</span>
-</span><span id="import_dobs_string-405"><a href="#import_dobs_string-405"><span class="linenos">405</span></a><span class="sd">        int: Insert the separator &quot;|&quot; at the position given by separator_insertion.</span>
-</span><span id="import_dobs_string-406"><a href="#import_dobs_string-406"><span class="linenos">406</span></a><span class="sd">        True (default): separator &quot;|&quot; is inserted after len(ensname), assuming that the</span>
-</span><span id="import_dobs_string-407"><a href="#import_dobs_string-407"><span class="linenos">407</span></a><span class="sd">        ensemble name is a prefix to the replica name.</span>
-</span><span id="import_dobs_string-408"><a href="#import_dobs_string-408"><span class="linenos">408</span></a><span class="sd">        None or False: No separator is inserted.</span>
-</span><span id="import_dobs_string-409"><a href="#import_dobs_string-409"><span class="linenos">409</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="import_dobs_string-410"><a href="#import_dobs_string-410"><span class="linenos">410</span></a>
-</span><span id="import_dobs_string-411"><a href="#import_dobs_string-411"><span class="linenos">411</span></a>    <span class="n">root</span> <span class="o">=</span> <span class="n">et</span><span class="o">.</span><span class="n">fromstring</span><span class="p">(</span><span class="n">content</span><span class="p">)</span>
-</span><span id="import_dobs_string-412"><a href="#import_dobs_string-412"><span class="linenos">412</span></a>
-</span><span id="import_dobs_string-413"><a href="#import_dobs_string-413"><span class="linenos">413</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">)</span>
-</span><span id="import_dobs_string-414"><a href="#import_dobs_string-414"><span class="linenos">414</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;SCHEMA&#39;</span><span class="p">)</span>
-</span><span id="import_dobs_string-415"><a href="#import_dobs_string-415"><span class="linenos">415</span></a>    <span class="n">version</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="import_dobs_string-416"><a href="#import_dobs_string-416"><span class="linenos">416</span></a>
-</span><span id="import_dobs_string-417"><a href="#import_dobs_string-417"><span class="linenos">417</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;origin&#39;</span><span class="p">)</span>
-</span><span id="import_dobs_string-418"><a href="#import_dobs_string-418"><span class="linenos">418</span></a>    <span class="n">file_origin</span> <span class="o">=</span> <span class="n">_etree_to_dict</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">])[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span>
-</span><span id="import_dobs_string-419"><a href="#import_dobs_string-419"><span class="linenos">419</span></a>
-</span><span id="import_dobs_string-420"><a href="#import_dobs_string-420"><span class="linenos">420</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;dobs&#39;</span><span class="p">)</span>
-</span><span id="import_dobs_string-421"><a href="#import_dobs_string-421"><span class="linenos">421</span></a>
-</span><span id="import_dobs_string-422"><a href="#import_dobs_string-422"><span class="linenos">422</span></a>    <span class="n">dobs</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="import_dobs_string-423"><a href="#import_dobs_string-423"><span class="linenos">423</span></a>
-</span><span id="import_dobs_string-424"><a href="#import_dobs_string-424"><span class="linenos">424</span></a>    <span class="n">descriptiond</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="import_dobs_string-425"><a href="#import_dobs_string-425"><span class="linenos">425</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">3</span><span class="p">):</span>
-</span><span id="import_dobs_string-426"><a href="#import_dobs_string-426"><span class="linenos">426</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="n">dobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span> <span class="o">=</span> <span class="n">dobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="import_dobs_string-427"><a href="#import_dobs_string-427"><span class="linenos">427</span></a>
-</span><span id="import_dobs_string-428"><a href="#import_dobs_string-428"><span class="linenos">428</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;array&#39;</span><span class="p">)</span>
-</span><span id="import_dobs_string-429"><a href="#import_dobs_string-429"><span class="linenos">429</span></a>
-</span><span id="import_dobs_string-430"><a href="#import_dobs_string-430"><span class="linenos">430</span></a>    <span class="n">symbol</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="import_dobs_string-431"><a href="#import_dobs_string-431"><span class="linenos">431</span></a>    <span class="k">if</span> <span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;symbol&#39;</span><span class="p">:</span>
-</span><span id="import_dobs_string-432"><a href="#import_dobs_string-432"><span class="linenos">432</span></a>        <span class="n">symbol</span> <span class="o">=</span> <span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="import_dobs_string-433"><a href="#import_dobs_string-433"><span class="linenos">433</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">symbol</span>
-</span><span id="import_dobs_string-434"><a href="#import_dobs_string-434"><span class="linenos">434</span></a>    <span class="n">mean</span> <span class="o">=</span> <span class="n">_import_array</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">])[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="import_dobs_string-435"><a href="#import_dobs_string-435"><span class="linenos">435</span></a>
-</span><span id="import_dobs_string-436"><a href="#import_dobs_string-436"><span class="linenos">436</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;ne&quot;</span><span class="p">)</span>
-</span><span id="import_dobs_string-437"><a href="#import_dobs_string-437"><span class="linenos">437</span></a>    <span class="n">ne</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
-</span><span id="import_dobs_string-438"><a href="#import_dobs_string-438"><span class="linenos">438</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;nc&quot;</span><span class="p">)</span>
-</span><span id="import_dobs_string-439"><a href="#import_dobs_string-439"><span class="linenos">439</span></a>    <span class="n">nc</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
-</span><span id="import_dobs_string-440"><a href="#import_dobs_string-440"><span class="linenos">440</span></a>
-</span><span id="import_dobs_string-441"><a href="#import_dobs_string-441"><span class="linenos">441</span></a>    <span class="n">idld</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="import_dobs_string-442"><a href="#import_dobs_string-442"><span class="linenos">442</span></a>    <span class="n">deltad</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="import_dobs_string-443"><a href="#import_dobs_string-443"><span class="linenos">443</span></a>    <span class="n">covd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="import_dobs_string-444"><a href="#import_dobs_string-444"><span class="linenos">444</span></a>    <span class="n">gradd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="import_dobs_string-445"><a href="#import_dobs_string-445"><span class="linenos">445</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="import_dobs_string-446"><a href="#import_dobs_string-446"><span class="linenos">446</span></a>    <span class="n">e_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="import_dobs_string-447"><a href="#import_dobs_string-447"><span class="linenos">447</span></a>    <span class="n">enstags</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="import_dobs_string-448"><a href="#import_dobs_string-448"><span class="linenos">448</span></a>    <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">6</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">dobs</span><span class="p">))):</span>
-</span><span id="import_dobs_string-449"><a href="#import_dobs_string-449"><span class="linenos">449</span></a>        <span class="k">if</span> <span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;edata&quot;</span><span class="p">:</span>
-</span><span id="import_dobs_string-450"><a href="#import_dobs_string-450"><span class="linenos">450</span></a>            <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;enstag&quot;</span><span class="p">)</span>
-</span><span id="import_dobs_string-451"><a href="#import_dobs_string-451"><span class="linenos">451</span></a>            <span class="n">ename</span> <span class="o">=</span> <span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="import_dobs_string-452"><a href="#import_dobs_string-452"><span class="linenos">452</span></a>            <span class="n">e_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ename</span><span class="p">)</span>
-</span><span id="import_dobs_string-453"><a href="#import_dobs_string-453"><span class="linenos">453</span></a>            <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;nr&quot;</span><span class="p">)</span>
-</span><span id="import_dobs_string-454"><a href="#import_dobs_string-454"><span class="linenos">454</span></a>            <span class="n">R</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
-</span><span id="import_dobs_string-455"><a href="#import_dobs_string-455"><span class="linenos">455</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">R</span><span class="p">):</span>
-</span><span id="import_dobs_string-456"><a href="#import_dobs_string-456"><span class="linenos">456</span></a>                <span class="n">deltas</span><span class="p">,</span> <span class="n">rname</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_import_rdata</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
-</span><span id="import_dobs_string-457"><a href="#import_dobs_string-457"><span class="linenos">457</span></a>                <span class="k">if</span> <span class="n">separator_insertion</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="kc">False</span><span class="p">:</span>
-</span><span id="import_dobs_string-458"><a href="#import_dobs_string-458"><span class="linenos">458</span></a>                    <span class="k">pass</span>
-</span><span id="import_dobs_string-459"><a href="#import_dobs_string-459"><span class="linenos">459</span></a>                <span class="k">elif</span> <span class="n">separator_insertion</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="import_dobs_string-460"><a href="#import_dobs_string-460"><span class="linenos">460</span></a>                    <span class="k">if</span> <span class="n">rname</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">ename</span><span class="p">):</span>
-</span><span id="import_dobs_string-461"><a href="#import_dobs_string-461"><span class="linenos">461</span></a>                        <span class="n">rname</span> <span class="o">=</span> <span class="n">rname</span><span class="p">[:</span><span class="nb">len</span><span class="p">(</span><span class="n">ename</span><span class="p">)]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">rname</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">ename</span><span class="p">):]</span>
-</span><span id="import_dobs_string-462"><a href="#import_dobs_string-462"><span class="linenos">462</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
-</span><span id="import_dobs_string-463"><a href="#import_dobs_string-463"><span class="linenos">463</span></a>                    <span class="n">rname</span> <span class="o">=</span> <span class="n">rname</span><span class="p">[:</span><span class="n">separator_insertion</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">rname</span><span class="p">[</span><span class="n">separator_insertion</span><span class="p">:]</span>
-</span><span id="import_dobs_string-464"><a href="#import_dobs_string-464"><span class="linenos">464</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="import_dobs_string-465"><a href="#import_dobs_string-465"><span class="linenos">465</span></a>                    <span class="n">rname</span> <span class="o">=</span> <span class="n">rname</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="s2">&quot;|</span><span class="si">%s</span><span class="s2">&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
-</span><span id="import_dobs_string-466"><a href="#import_dobs_string-466"><span class="linenos">466</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="import_dobs_string-467"><a href="#import_dobs_string-467"><span class="linenos">467</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;separator_insertion has to be string or int, is &quot;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
-</span><span id="import_dobs_string-468"><a href="#import_dobs_string-468"><span class="linenos">468</span></a>                <span class="k">if</span> <span class="s1">&#39;|&#39;</span> <span class="ow">in</span> <span class="n">rname</span><span class="p">:</span>
-</span><span id="import_dobs_string-469"><a href="#import_dobs_string-469"><span class="linenos">469</span></a>                    <span class="n">new_ename</span> <span class="o">=</span> <span class="n">rname</span><span class="p">[:</span><span class="n">rname</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)]</span>
-</span><span id="import_dobs_string-470"><a href="#import_dobs_string-470"><span class="linenos">470</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="import_dobs_string-471"><a href="#import_dobs_string-471"><span class="linenos">471</span></a>                    <span class="n">new_ename</span> <span class="o">=</span> <span class="n">ename</span>
-</span><span id="import_dobs_string-472"><a href="#import_dobs_string-472"><span class="linenos">472</span></a>                <span class="n">enstags</span><span class="p">[</span><span class="n">new_ename</span><span class="p">]</span> <span class="o">=</span> <span class="n">ename</span>
-</span><span id="import_dobs_string-473"><a href="#import_dobs_string-473"><span class="linenos">473</span></a>                <span class="n">idld</span><span class="p">[</span><span class="n">rname</span><span class="p">]</span> <span class="o">=</span> <span class="n">idx</span>
-</span><span id="import_dobs_string-474"><a href="#import_dobs_string-474"><span class="linenos">474</span></a>                <span class="n">deltad</span><span class="p">[</span><span class="n">rname</span><span class="p">]</span> <span class="o">=</span> <span class="n">deltas</span>
-</span><span id="import_dobs_string-475"><a href="#import_dobs_string-475"><span class="linenos">475</span></a>                <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rname</span><span class="p">)</span>
-</span><span id="import_dobs_string-476"><a href="#import_dobs_string-476"><span class="linenos">476</span></a>        <span class="k">elif</span> <span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;cdata&quot;</span><span class="p">:</span>
-</span><span id="import_dobs_string-477"><a href="#import_dobs_string-477"><span class="linenos">477</span></a>            <span class="n">cname</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">grad</span> <span class="o">=</span> <span class="n">_import_cdata</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">])</span>
-</span><span id="import_dobs_string-478"><a href="#import_dobs_string-478"><span class="linenos">478</span></a>            <span class="n">covd</span><span class="p">[</span><span class="n">cname</span><span class="p">]</span> <span class="o">=</span> <span class="n">cov</span>
-</span><span id="import_dobs_string-479"><a href="#import_dobs_string-479"><span class="linenos">479</span></a>            <span class="k">if</span> <span class="n">grad</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="import_dobs_string-480"><a href="#import_dobs_string-480"><span class="linenos">480</span></a>                <span class="n">gradd</span><span class="p">[</span><span class="n">cname</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">grad</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">mean</span><span class="p">))]</span>
-</span><span id="import_dobs_string-481"><a href="#import_dobs_string-481"><span class="linenos">481</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="import_dobs_string-482"><a href="#import_dobs_string-482"><span class="linenos">482</span></a>                <span class="n">gradd</span><span class="p">[</span><span class="n">cname</span><span class="p">]</span> <span class="o">=</span> <span class="n">grad</span><span class="o">.</span><span class="n">T</span>
-</span><span id="import_dobs_string-483"><a href="#import_dobs_string-483"><span class="linenos">483</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="import_dobs_string-484"><a href="#import_dobs_string-484"><span class="linenos">484</span></a>            <span class="n">_check</span><span class="p">(</span><span class="kc">False</span><span class="p">)</span>
-</span><span id="import_dobs_string-485"><a href="#import_dobs_string-485"><span class="linenos">485</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">names</span><span class="p">))</span>
-</span><span id="import_dobs_string-486"><a href="#import_dobs_string-486"><span class="linenos">486</span></a>
-</span><span id="import_dobs_string-487"><a href="#import_dobs_string-487"><span class="linenos">487</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">:</span>
-</span><span id="import_dobs_string-488"><a href="#import_dobs_string-488"><span class="linenos">488</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">])):</span>
-</span><span id="import_dobs_string-489"><a href="#import_dobs_string-489"><span class="linenos">489</span></a>            <span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span> <span class="o">+</span> <span class="n">mean</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="import_dobs_string-490"><a href="#import_dobs_string-490"><span class="linenos">490</span></a>
-</span><span id="import_dobs_string-491"><a href="#import_dobs_string-491"><span class="linenos">491</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="import_dobs_string-492"><a href="#import_dobs_string-492"><span class="linenos">492</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">mean</span><span class="p">)):</span>
-</span><span id="import_dobs_string-493"><a href="#import_dobs_string-493"><span class="linenos">493</span></a>        <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="import_dobs_string-494"><a href="#import_dobs_string-494"><span class="linenos">494</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="import_dobs_string-495"><a href="#import_dobs_string-495"><span class="linenos">495</span></a>        <span class="n">obs_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="import_dobs_string-496"><a href="#import_dobs_string-496"><span class="linenos">496</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">:</span>
-</span><span id="import_dobs_string-497"><a href="#import_dobs_string-497"><span class="linenos">497</span></a>            <span class="n">h</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
-</span><span id="import_dobs_string-498"><a href="#import_dobs_string-498"><span class="linenos">498</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">h</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">h</span> <span class="o">==</span> <span class="n">mean</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="ow">and</span> <span class="n">noempty</span><span class="p">:</span>
-</span><span id="import_dobs_string-499"><a href="#import_dobs_string-499"><span class="linenos">499</span></a>                <span class="k">continue</span>
-</span><span id="import_dobs_string-500"><a href="#import_dobs_string-500"><span class="linenos">500</span></a>            <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
-</span><span id="import_dobs_string-501"><a href="#import_dobs_string-501"><span class="linenos">501</span></a>            <span class="n">obs_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="import_dobs_string-502"><a href="#import_dobs_string-502"><span class="linenos">502</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">idld</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="import_dobs_string-503"><a href="#import_dobs_string-503"><span class="linenos">503</span></a>        <span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">obs_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
-</span><span id="import_dobs_string-504"><a href="#import_dobs_string-504"><span class="linenos">504</span></a>    <span class="nb">print</span><span class="p">(</span><span class="n">mean</span><span class="p">,</span> <span class="s1">&#39;vs&#39;</span><span class="p">,</span> <span class="n">res</span><span class="p">)</span>
-</span><span id="import_dobs_string-505"><a href="#import_dobs_string-505"><span class="linenos">505</span></a>    <span class="n">_check</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">e_names</span><span class="p">)</span> <span class="o">==</span> <span class="n">ne</span><span class="p">)</span>
-</span><span id="import_dobs_string-506"><a href="#import_dobs_string-506"><span class="linenos">506</span></a>
-</span><span id="import_dobs_string-507"><a href="#import_dobs_string-507"><span class="linenos">507</span></a>    <span class="n">cnames</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">covd</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
-</span><span id="import_dobs_string-508"><a href="#import_dobs_string-508"><span class="linenos">508</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">)):</span>
-</span><span id="import_dobs_string-509"><a href="#import_dobs_string-509"><span class="linenos">509</span></a>        <span class="n">new_covobs</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">Covobs</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="n">covd</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">name</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="n">gradd</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cnames</span><span class="p">}</span>
-</span><span id="import_dobs_string-510"><a href="#import_dobs_string-510"><span class="linenos">510</span></a>        <span class="k">if</span> <span class="n">noempty</span><span class="p">:</span>
-</span><span id="import_dobs_string-511"><a href="#import_dobs_string-511"><span class="linenos">511</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cnames</span><span class="p">:</span>
-</span><span id="import_dobs_string-512"><a href="#import_dobs_string-512"><span class="linenos">512</span></a>                <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">new_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span> <span class="o">==</span> <span class="mi">0</span><span class="p">):</span>
-</span><span id="import_dobs_string-513"><a href="#import_dobs_string-513"><span class="linenos">513</span></a>                    <span class="k">del</span> <span class="n">new_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="import_dobs_string-514"><a href="#import_dobs_string-514"><span class="linenos">514</span></a>            <span class="n">cnames_loc</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">new_covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
-</span><span id="import_dobs_string-515"><a href="#import_dobs_string-515"><span class="linenos">515</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="import_dobs_string-516"><a href="#import_dobs_string-516"><span class="linenos">516</span></a>            <span class="n">cnames_loc</span> <span class="o">=</span> <span class="n">cnames</span>
-</span><span id="import_dobs_string-517"><a href="#import_dobs_string-517"><span class="linenos">517</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cnames_loc</span><span class="p">:</span>
-</span><span id="import_dobs_string-518"><a href="#import_dobs_string-518"><span class="linenos">518</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="import_dobs_string-519"><a href="#import_dobs_string-519"><span class="linenos">519</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="import_dobs_string-520"><a href="#import_dobs_string-520"><span class="linenos">520</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="import_dobs_string-521"><a href="#import_dobs_string-521"><span class="linenos">521</span></a>        <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="n">new_covobs</span>
-</span><span id="import_dobs_string-522"><a href="#import_dobs_string-522"><span class="linenos">522</span></a>
-</span><span id="import_dobs_string-523"><a href="#import_dobs_string-523"><span class="linenos">523</span></a>    <span class="k">if</span> <span class="n">symbol</span><span class="p">:</span>
-</span><span id="import_dobs_string-524"><a href="#import_dobs_string-524"><span class="linenos">524</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">)):</span>
-</span><span id="import_dobs_string-525"><a href="#import_dobs_string-525"><span class="linenos">525</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">symbol</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="import_dobs_string-526"><a href="#import_dobs_string-526"><span class="linenos">526</span></a>            <span class="k">if</span> <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;None&#39;</span><span class="p">:</span>
-</span><span id="import_dobs_string-527"><a href="#import_dobs_string-527"><span class="linenos">527</span></a>                <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="import_dobs_string-528"><a href="#import_dobs_string-528"><span class="linenos">528</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">noempty</span><span class="p">:</span>
-</span><span id="import_dobs_string-529"><a href="#import_dobs_string-529"><span class="linenos">529</span></a>        <span class="n">_check</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span> <span class="o">==</span> <span class="n">nc</span><span class="p">)</span>
-</span><span id="import_dobs_string-530"><a href="#import_dobs_string-530"><span class="linenos">530</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
-</span><span id="import_dobs_string-531"><a href="#import_dobs_string-531"><span class="linenos">531</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="import_dobs_string-532"><a href="#import_dobs_string-532"><span class="linenos">532</span></a>        <span class="n">tool</span> <span class="o">=</span> <span class="n">file_origin</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tool&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="import_dobs_string-533"><a href="#import_dobs_string-533"><span class="linenos">533</span></a>        <span class="k">if</span> <span class="n">tool</span><span class="p">:</span>
-</span><span id="import_dobs_string-534"><a href="#import_dobs_string-534"><span class="linenos">534</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">+</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span>
-</span><span id="import_dobs_string-535"><a href="#import_dobs_string-535"><span class="linenos">535</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="import_dobs_string-536"><a href="#import_dobs_string-536"><span class="linenos">536</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="import_dobs_string-537"><a href="#import_dobs_string-537"><span class="linenos">537</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">program</span>
-</span><span id="import_dobs_string-538"><a href="#import_dobs_string-538"><span class="linenos">538</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">version</span>
-</span><span id="import_dobs_string-539"><a href="#import_dobs_string-539"><span class="linenos">539</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span>
-</span><span id="import_dobs_string-540"><a href="#import_dobs_string-540"><span class="linenos">540</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span>
-</span><span id="import_dobs_string-541"><a href="#import_dobs_string-541"><span class="linenos">541</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span>
-</span><span id="import_dobs_string-542"><a href="#import_dobs_string-542"><span class="linenos">542</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">descriptiond</span>
-</span><span id="import_dobs_string-543"><a href="#import_dobs_string-543"><span class="linenos">543</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;enstags&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">enstags</span>
-</span><span id="import_dobs_string-544"><a href="#import_dobs_string-544"><span class="linenos">544</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">res</span>
-</span><span id="import_dobs_string-545"><a href="#import_dobs_string-545"><span class="linenos">545</span></a>        <span class="k">return</span> <span class="n">retd</span>
-</span><span id="import_dobs_string-546"><a href="#import_dobs_string-546"><span class="linenos">546</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="import_dobs_string-547"><a href="#import_dobs_string-547"><span class="linenos">547</span></a>        <span class="k">return</span> <span class="n">res</span>
+    <a class="headerlink" href="#import_dobs_string"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="import_dobs_string-388"><a href="#import_dobs_string-388"><span class="linenos">388</span></a><span class="k">def</span> <span class="nf">import_dobs_string</span><span class="p">(</span><span class="n">content</span><span class="p">,</span> <span class="n">noempty</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="import_dobs_string-389"><a href="#import_dobs_string-389"><span class="linenos">389</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs from a string in the Zeuthen dobs format.</span>
+</span><span id="import_dobs_string-390"><a href="#import_dobs_string-390"><span class="linenos">390</span></a>
+</span><span id="import_dobs_string-391"><a href="#import_dobs_string-391"><span class="linenos">391</span></a><span class="sd">    Tags are not written or recovered automatically.</span>
+</span><span id="import_dobs_string-392"><a href="#import_dobs_string-392"><span class="linenos">392</span></a>
+</span><span id="import_dobs_string-393"><a href="#import_dobs_string-393"><span class="linenos">393</span></a><span class="sd">    Parameters</span>
+</span><span id="import_dobs_string-394"><a href="#import_dobs_string-394"><span class="linenos">394</span></a><span class="sd">    ----------</span>
+</span><span id="import_dobs_string-395"><a href="#import_dobs_string-395"><span class="linenos">395</span></a><span class="sd">    content : str</span>
+</span><span id="import_dobs_string-396"><a href="#import_dobs_string-396"><span class="linenos">396</span></a><span class="sd">        XML string containing the data</span>
+</span><span id="import_dobs_string-397"><a href="#import_dobs_string-397"><span class="linenos">397</span></a><span class="sd">    noemtpy : bool</span>
+</span><span id="import_dobs_string-398"><a href="#import_dobs_string-398"><span class="linenos">398</span></a><span class="sd">        If True, ensembles with no contribution to the Obs are not included.</span>
+</span><span id="import_dobs_string-399"><a href="#import_dobs_string-399"><span class="linenos">399</span></a><span class="sd">        If False, ensembles are included as written in the file, possibly with vanishing entries.</span>
+</span><span id="import_dobs_string-400"><a href="#import_dobs_string-400"><span class="linenos">400</span></a><span class="sd">    full_output : bool</span>
+</span><span id="import_dobs_string-401"><a href="#import_dobs_string-401"><span class="linenos">401</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="import_dobs_string-402"><a href="#import_dobs_string-402"><span class="linenos">402</span></a><span class="sd">        If False, only the data is returned as list.</span>
+</span><span id="import_dobs_string-403"><a href="#import_dobs_string-403"><span class="linenos">403</span></a><span class="sd">    separatior_insertion: str, int or bool</span>
+</span><span id="import_dobs_string-404"><a href="#import_dobs_string-404"><span class="linenos">404</span></a><span class="sd">        str: replace all occurences of &quot;separator_insertion&quot; within the replica names</span>
+</span><span id="import_dobs_string-405"><a href="#import_dobs_string-405"><span class="linenos">405</span></a><span class="sd">        by &quot;|%s&quot; % (separator_insertion) when constructing the names of the replica.</span>
+</span><span id="import_dobs_string-406"><a href="#import_dobs_string-406"><span class="linenos">406</span></a><span class="sd">        int: Insert the separator &quot;|&quot; at the position given by separator_insertion.</span>
+</span><span id="import_dobs_string-407"><a href="#import_dobs_string-407"><span class="linenos">407</span></a><span class="sd">        True (default): separator &quot;|&quot; is inserted after len(ensname), assuming that the</span>
+</span><span id="import_dobs_string-408"><a href="#import_dobs_string-408"><span class="linenos">408</span></a><span class="sd">        ensemble name is a prefix to the replica name.</span>
+</span><span id="import_dobs_string-409"><a href="#import_dobs_string-409"><span class="linenos">409</span></a><span class="sd">        None or False: No separator is inserted.</span>
+</span><span id="import_dobs_string-410"><a href="#import_dobs_string-410"><span class="linenos">410</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="import_dobs_string-411"><a href="#import_dobs_string-411"><span class="linenos">411</span></a>
+</span><span id="import_dobs_string-412"><a href="#import_dobs_string-412"><span class="linenos">412</span></a>    <span class="n">root</span> <span class="o">=</span> <span class="n">et</span><span class="o">.</span><span class="n">fromstring</span><span class="p">(</span><span class="n">content</span><span class="p">)</span>
+</span><span id="import_dobs_string-413"><a href="#import_dobs_string-413"><span class="linenos">413</span></a>
+</span><span id="import_dobs_string-414"><a href="#import_dobs_string-414"><span class="linenos">414</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">)</span>
+</span><span id="import_dobs_string-415"><a href="#import_dobs_string-415"><span class="linenos">415</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;SCHEMA&#39;</span><span class="p">)</span>
+</span><span id="import_dobs_string-416"><a href="#import_dobs_string-416"><span class="linenos">416</span></a>    <span class="n">version</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="import_dobs_string-417"><a href="#import_dobs_string-417"><span class="linenos">417</span></a>
+</span><span id="import_dobs_string-418"><a href="#import_dobs_string-418"><span class="linenos">418</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;origin&#39;</span><span class="p">)</span>
+</span><span id="import_dobs_string-419"><a href="#import_dobs_string-419"><span class="linenos">419</span></a>    <span class="n">file_origin</span> <span class="o">=</span> <span class="n">_etree_to_dict</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">1</span><span class="p">])[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span>
+</span><span id="import_dobs_string-420"><a href="#import_dobs_string-420"><span class="linenos">420</span></a>
+</span><span id="import_dobs_string-421"><a href="#import_dobs_string-421"><span class="linenos">421</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;dobs&#39;</span><span class="p">)</span>
+</span><span id="import_dobs_string-422"><a href="#import_dobs_string-422"><span class="linenos">422</span></a>
+</span><span id="import_dobs_string-423"><a href="#import_dobs_string-423"><span class="linenos">423</span></a>    <span class="n">dobs</span> <span class="o">=</span> <span class="n">root</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="import_dobs_string-424"><a href="#import_dobs_string-424"><span class="linenos">424</span></a>
+</span><span id="import_dobs_string-425"><a href="#import_dobs_string-425"><span class="linenos">425</span></a>    <span class="n">descriptiond</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="import_dobs_string-426"><a href="#import_dobs_string-426"><span class="linenos">426</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">3</span><span class="p">):</span>
+</span><span id="import_dobs_string-427"><a href="#import_dobs_string-427"><span class="linenos">427</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="n">dobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span> <span class="o">=</span> <span class="n">dobs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="import_dobs_string-428"><a href="#import_dobs_string-428"><span class="linenos">428</span></a>
+</span><span id="import_dobs_string-429"><a href="#import_dobs_string-429"><span class="linenos">429</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;array&#39;</span><span class="p">)</span>
+</span><span id="import_dobs_string-430"><a href="#import_dobs_string-430"><span class="linenos">430</span></a>
+</span><span id="import_dobs_string-431"><a href="#import_dobs_string-431"><span class="linenos">431</span></a>    <span class="n">symbol</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="import_dobs_string-432"><a href="#import_dobs_string-432"><span class="linenos">432</span></a>    <span class="k">if</span> <span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;symbol&#39;</span><span class="p">:</span>
+</span><span id="import_dobs_string-433"><a href="#import_dobs_string-433"><span class="linenos">433</span></a>        <span class="n">symbol</span> <span class="o">=</span> <span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="import_dobs_string-434"><a href="#import_dobs_string-434"><span class="linenos">434</span></a>        <span class="n">descriptiond</span><span class="p">[</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">symbol</span>
+</span><span id="import_dobs_string-435"><a href="#import_dobs_string-435"><span class="linenos">435</span></a>    <span class="n">mean</span> <span class="o">=</span> <span class="n">_import_array</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">3</span><span class="p">])[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="import_dobs_string-436"><a href="#import_dobs_string-436"><span class="linenos">436</span></a>
+</span><span id="import_dobs_string-437"><a href="#import_dobs_string-437"><span class="linenos">437</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;ne&quot;</span><span class="p">)</span>
+</span><span id="import_dobs_string-438"><a href="#import_dobs_string-438"><span class="linenos">438</span></a>    <span class="n">ne</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">4</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
+</span><span id="import_dobs_string-439"><a href="#import_dobs_string-439"><span class="linenos">439</span></a>    <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;nc&quot;</span><span class="p">)</span>
+</span><span id="import_dobs_string-440"><a href="#import_dobs_string-440"><span class="linenos">440</span></a>    <span class="n">nc</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="mi">5</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
+</span><span id="import_dobs_string-441"><a href="#import_dobs_string-441"><span class="linenos">441</span></a>
+</span><span id="import_dobs_string-442"><a href="#import_dobs_string-442"><span class="linenos">442</span></a>    <span class="n">idld</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="import_dobs_string-443"><a href="#import_dobs_string-443"><span class="linenos">443</span></a>    <span class="n">deltad</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="import_dobs_string-444"><a href="#import_dobs_string-444"><span class="linenos">444</span></a>    <span class="n">covd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="import_dobs_string-445"><a href="#import_dobs_string-445"><span class="linenos">445</span></a>    <span class="n">gradd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="import_dobs_string-446"><a href="#import_dobs_string-446"><span class="linenos">446</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="import_dobs_string-447"><a href="#import_dobs_string-447"><span class="linenos">447</span></a>    <span class="n">e_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="import_dobs_string-448"><a href="#import_dobs_string-448"><span class="linenos">448</span></a>    <span class="n">enstags</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="import_dobs_string-449"><a href="#import_dobs_string-449"><span class="linenos">449</span></a>    <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">6</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">dobs</span><span class="p">))):</span>
+</span><span id="import_dobs_string-450"><a href="#import_dobs_string-450"><span class="linenos">450</span></a>        <span class="k">if</span> <span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;edata&quot;</span><span class="p">:</span>
+</span><span id="import_dobs_string-451"><a href="#import_dobs_string-451"><span class="linenos">451</span></a>            <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;enstag&quot;</span><span class="p">)</span>
+</span><span id="import_dobs_string-452"><a href="#import_dobs_string-452"><span class="linenos">452</span></a>            <span class="n">ename</span> <span class="o">=</span> <span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="import_dobs_string-453"><a href="#import_dobs_string-453"><span class="linenos">453</span></a>            <span class="n">e_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ename</span><span class="p">)</span>
+</span><span id="import_dobs_string-454"><a href="#import_dobs_string-454"><span class="linenos">454</span></a>            <span class="n">_check</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;nr&quot;</span><span class="p">)</span>
+</span><span id="import_dobs_string-455"><a href="#import_dobs_string-455"><span class="linenos">455</span></a>            <span class="n">R</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">text</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
+</span><span id="import_dobs_string-456"><a href="#import_dobs_string-456"><span class="linenos">456</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">R</span><span class="p">):</span>
+</span><span id="import_dobs_string-457"><a href="#import_dobs_string-457"><span class="linenos">457</span></a>                <span class="n">deltas</span><span class="p">,</span> <span class="n">rname</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_import_rdata</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
+</span><span id="import_dobs_string-458"><a href="#import_dobs_string-458"><span class="linenos">458</span></a>                <span class="k">if</span> <span class="n">separator_insertion</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="kc">False</span><span class="p">:</span>
+</span><span id="import_dobs_string-459"><a href="#import_dobs_string-459"><span class="linenos">459</span></a>                    <span class="k">pass</span>
+</span><span id="import_dobs_string-460"><a href="#import_dobs_string-460"><span class="linenos">460</span></a>                <span class="k">elif</span> <span class="n">separator_insertion</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="import_dobs_string-461"><a href="#import_dobs_string-461"><span class="linenos">461</span></a>                    <span class="k">if</span> <span class="n">rname</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">ename</span><span class="p">):</span>
+</span><span id="import_dobs_string-462"><a href="#import_dobs_string-462"><span class="linenos">462</span></a>                        <span class="n">rname</span> <span class="o">=</span> <span class="n">rname</span><span class="p">[:</span><span class="nb">len</span><span class="p">(</span><span class="n">ename</span><span class="p">)]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">rname</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">ename</span><span class="p">):]</span>
+</span><span id="import_dobs_string-463"><a href="#import_dobs_string-463"><span class="linenos">463</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
+</span><span id="import_dobs_string-464"><a href="#import_dobs_string-464"><span class="linenos">464</span></a>                    <span class="n">rname</span> <span class="o">=</span> <span class="n">rname</span><span class="p">[:</span><span class="n">separator_insertion</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">rname</span><span class="p">[</span><span class="n">separator_insertion</span><span class="p">:]</span>
+</span><span id="import_dobs_string-465"><a href="#import_dobs_string-465"><span class="linenos">465</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="import_dobs_string-466"><a href="#import_dobs_string-466"><span class="linenos">466</span></a>                    <span class="n">rname</span> <span class="o">=</span> <span class="n">rname</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">,</span> <span class="s2">&quot;|</span><span class="si">%s</span><span class="s2">&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
+</span><span id="import_dobs_string-467"><a href="#import_dobs_string-467"><span class="linenos">467</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="import_dobs_string-468"><a href="#import_dobs_string-468"><span class="linenos">468</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;separator_insertion has to be string or int, is &quot;</span><span class="p">,</span> <span class="nb">type</span><span class="p">(</span><span class="n">separator_insertion</span><span class="p">))</span>
+</span><span id="import_dobs_string-469"><a href="#import_dobs_string-469"><span class="linenos">469</span></a>                <span class="k">if</span> <span class="s1">&#39;|&#39;</span> <span class="ow">in</span> <span class="n">rname</span><span class="p">:</span>
+</span><span id="import_dobs_string-470"><a href="#import_dobs_string-470"><span class="linenos">470</span></a>                    <span class="n">new_ename</span> <span class="o">=</span> <span class="n">rname</span><span class="p">[:</span><span class="n">rname</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)]</span>
+</span><span id="import_dobs_string-471"><a href="#import_dobs_string-471"><span class="linenos">471</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="import_dobs_string-472"><a href="#import_dobs_string-472"><span class="linenos">472</span></a>                    <span class="n">new_ename</span> <span class="o">=</span> <span class="n">ename</span>
+</span><span id="import_dobs_string-473"><a href="#import_dobs_string-473"><span class="linenos">473</span></a>                <span class="n">enstags</span><span class="p">[</span><span class="n">new_ename</span><span class="p">]</span> <span class="o">=</span> <span class="n">ename</span>
+</span><span id="import_dobs_string-474"><a href="#import_dobs_string-474"><span class="linenos">474</span></a>                <span class="n">idld</span><span class="p">[</span><span class="n">rname</span><span class="p">]</span> <span class="o">=</span> <span class="n">idx</span>
+</span><span id="import_dobs_string-475"><a href="#import_dobs_string-475"><span class="linenos">475</span></a>                <span class="n">deltad</span><span class="p">[</span><span class="n">rname</span><span class="p">]</span> <span class="o">=</span> <span class="n">deltas</span>
+</span><span id="import_dobs_string-476"><a href="#import_dobs_string-476"><span class="linenos">476</span></a>                <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rname</span><span class="p">)</span>
+</span><span id="import_dobs_string-477"><a href="#import_dobs_string-477"><span class="linenos">477</span></a>        <span class="k">elif</span> <span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s2">&quot;cdata&quot;</span><span class="p">:</span>
+</span><span id="import_dobs_string-478"><a href="#import_dobs_string-478"><span class="linenos">478</span></a>            <span class="n">cname</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">grad</span> <span class="o">=</span> <span class="n">_import_cdata</span><span class="p">(</span><span class="n">dobs</span><span class="p">[</span><span class="n">k</span><span class="p">])</span>
+</span><span id="import_dobs_string-479"><a href="#import_dobs_string-479"><span class="linenos">479</span></a>            <span class="n">covd</span><span class="p">[</span><span class="n">cname</span><span class="p">]</span> <span class="o">=</span> <span class="n">cov</span>
+</span><span id="import_dobs_string-480"><a href="#import_dobs_string-480"><span class="linenos">480</span></a>            <span class="k">if</span> <span class="n">grad</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="import_dobs_string-481"><a href="#import_dobs_string-481"><span class="linenos">481</span></a>                <span class="n">gradd</span><span class="p">[</span><span class="n">cname</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">grad</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">mean</span><span class="p">))]</span>
+</span><span id="import_dobs_string-482"><a href="#import_dobs_string-482"><span class="linenos">482</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="import_dobs_string-483"><a href="#import_dobs_string-483"><span class="linenos">483</span></a>                <span class="n">gradd</span><span class="p">[</span><span class="n">cname</span><span class="p">]</span> <span class="o">=</span> <span class="n">grad</span><span class="o">.</span><span class="n">T</span>
+</span><span id="import_dobs_string-484"><a href="#import_dobs_string-484"><span class="linenos">484</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="import_dobs_string-485"><a href="#import_dobs_string-485"><span class="linenos">485</span></a>            <span class="n">_check</span><span class="p">(</span><span class="kc">False</span><span class="p">)</span>
+</span><span id="import_dobs_string-486"><a href="#import_dobs_string-486"><span class="linenos">486</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">names</span><span class="p">))</span>
+</span><span id="import_dobs_string-487"><a href="#import_dobs_string-487"><span class="linenos">487</span></a>
+</span><span id="import_dobs_string-488"><a href="#import_dobs_string-488"><span class="linenos">488</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">:</span>
+</span><span id="import_dobs_string-489"><a href="#import_dobs_string-489"><span class="linenos">489</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">])):</span>
+</span><span id="import_dobs_string-490"><a href="#import_dobs_string-490"><span class="linenos">490</span></a>            <span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span> <span class="o">+</span> <span class="n">mean</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="import_dobs_string-491"><a href="#import_dobs_string-491"><span class="linenos">491</span></a>
+</span><span id="import_dobs_string-492"><a href="#import_dobs_string-492"><span class="linenos">492</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="import_dobs_string-493"><a href="#import_dobs_string-493"><span class="linenos">493</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">mean</span><span class="p">)):</span>
+</span><span id="import_dobs_string-494"><a href="#import_dobs_string-494"><span class="linenos">494</span></a>        <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="import_dobs_string-495"><a href="#import_dobs_string-495"><span class="linenos">495</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="import_dobs_string-496"><a href="#import_dobs_string-496"><span class="linenos">496</span></a>        <span class="n">obs_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="import_dobs_string-497"><a href="#import_dobs_string-497"><span class="linenos">497</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">:</span>
+</span><span id="import_dobs_string-498"><a href="#import_dobs_string-498"><span class="linenos">498</span></a>            <span class="n">h</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
+</span><span id="import_dobs_string-499"><a href="#import_dobs_string-499"><span class="linenos">499</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">h</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">h</span> <span class="o">==</span> <span class="n">mean</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="ow">and</span> <span class="n">noempty</span><span class="p">:</span>
+</span><span id="import_dobs_string-500"><a href="#import_dobs_string-500"><span class="linenos">500</span></a>                <span class="k">continue</span>
+</span><span id="import_dobs_string-501"><a href="#import_dobs_string-501"><span class="linenos">501</span></a>            <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">deltad</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
+</span><span id="import_dobs_string-502"><a href="#import_dobs_string-502"><span class="linenos">502</span></a>            <span class="n">obs_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="import_dobs_string-503"><a href="#import_dobs_string-503"><span class="linenos">503</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">idld</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="import_dobs_string-504"><a href="#import_dobs_string-504"><span class="linenos">504</span></a>        <span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">obs_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
+</span><span id="import_dobs_string-505"><a href="#import_dobs_string-505"><span class="linenos">505</span></a>    <span class="nb">print</span><span class="p">(</span><span class="n">mean</span><span class="p">,</span> <span class="s1">&#39;vs&#39;</span><span class="p">,</span> <span class="n">res</span><span class="p">)</span>
+</span><span id="import_dobs_string-506"><a href="#import_dobs_string-506"><span class="linenos">506</span></a>    <span class="n">_check</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">e_names</span><span class="p">)</span> <span class="o">==</span> <span class="n">ne</span><span class="p">)</span>
+</span><span id="import_dobs_string-507"><a href="#import_dobs_string-507"><span class="linenos">507</span></a>
+</span><span id="import_dobs_string-508"><a href="#import_dobs_string-508"><span class="linenos">508</span></a>    <span class="n">cnames</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">covd</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
+</span><span id="import_dobs_string-509"><a href="#import_dobs_string-509"><span class="linenos">509</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">)):</span>
+</span><span id="import_dobs_string-510"><a href="#import_dobs_string-510"><span class="linenos">510</span></a>        <span class="n">new_covobs</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">Covobs</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="n">covd</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">name</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="n">gradd</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cnames</span><span class="p">}</span>
+</span><span id="import_dobs_string-511"><a href="#import_dobs_string-511"><span class="linenos">511</span></a>        <span class="k">if</span> <span class="n">noempty</span><span class="p">:</span>
+</span><span id="import_dobs_string-512"><a href="#import_dobs_string-512"><span class="linenos">512</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cnames</span><span class="p">:</span>
+</span><span id="import_dobs_string-513"><a href="#import_dobs_string-513"><span class="linenos">513</span></a>                <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">new_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span> <span class="o">==</span> <span class="mi">0</span><span class="p">):</span>
+</span><span id="import_dobs_string-514"><a href="#import_dobs_string-514"><span class="linenos">514</span></a>                    <span class="k">del</span> <span class="n">new_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="import_dobs_string-515"><a href="#import_dobs_string-515"><span class="linenos">515</span></a>            <span class="n">cnames_loc</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">new_covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
+</span><span id="import_dobs_string-516"><a href="#import_dobs_string-516"><span class="linenos">516</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="import_dobs_string-517"><a href="#import_dobs_string-517"><span class="linenos">517</span></a>            <span class="n">cnames_loc</span> <span class="o">=</span> <span class="n">cnames</span>
+</span><span id="import_dobs_string-518"><a href="#import_dobs_string-518"><span class="linenos">518</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cnames_loc</span><span class="p">:</span>
+</span><span id="import_dobs_string-519"><a href="#import_dobs_string-519"><span class="linenos">519</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="import_dobs_string-520"><a href="#import_dobs_string-520"><span class="linenos">520</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="import_dobs_string-521"><a href="#import_dobs_string-521"><span class="linenos">521</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="import_dobs_string-522"><a href="#import_dobs_string-522"><span class="linenos">522</span></a>        <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="n">new_covobs</span>
+</span><span id="import_dobs_string-523"><a href="#import_dobs_string-523"><span class="linenos">523</span></a>
+</span><span id="import_dobs_string-524"><a href="#import_dobs_string-524"><span class="linenos">524</span></a>    <span class="k">if</span> <span class="n">symbol</span><span class="p">:</span>
+</span><span id="import_dobs_string-525"><a href="#import_dobs_string-525"><span class="linenos">525</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">)):</span>
+</span><span id="import_dobs_string-526"><a href="#import_dobs_string-526"><span class="linenos">526</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">symbol</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="import_dobs_string-527"><a href="#import_dobs_string-527"><span class="linenos">527</span></a>            <span class="k">if</span> <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">==</span> <span class="s1">&#39;None&#39;</span><span class="p">:</span>
+</span><span id="import_dobs_string-528"><a href="#import_dobs_string-528"><span class="linenos">528</span></a>                <span class="n">res</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="import_dobs_string-529"><a href="#import_dobs_string-529"><span class="linenos">529</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">noempty</span><span class="p">:</span>
+</span><span id="import_dobs_string-530"><a href="#import_dobs_string-530"><span class="linenos">530</span></a>        <span class="n">_check</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span> <span class="o">==</span> <span class="n">nc</span><span class="p">)</span>
+</span><span id="import_dobs_string-531"><a href="#import_dobs_string-531"><span class="linenos">531</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
+</span><span id="import_dobs_string-532"><a href="#import_dobs_string-532"><span class="linenos">532</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="import_dobs_string-533"><a href="#import_dobs_string-533"><span class="linenos">533</span></a>        <span class="n">tool</span> <span class="o">=</span> <span class="n">file_origin</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tool&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="import_dobs_string-534"><a href="#import_dobs_string-534"><span class="linenos">534</span></a>        <span class="k">if</span> <span class="n">tool</span><span class="p">:</span>
+</span><span id="import_dobs_string-535"><a href="#import_dobs_string-535"><span class="linenos">535</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39; &#39;</span> <span class="o">+</span> <span class="n">tool</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span>
+</span><span id="import_dobs_string-536"><a href="#import_dobs_string-536"><span class="linenos">536</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="import_dobs_string-537"><a href="#import_dobs_string-537"><span class="linenos">537</span></a>            <span class="n">program</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="import_dobs_string-538"><a href="#import_dobs_string-538"><span class="linenos">538</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">program</span>
+</span><span id="import_dobs_string-539"><a href="#import_dobs_string-539"><span class="linenos">539</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">version</span>
+</span><span id="import_dobs_string-540"><a href="#import_dobs_string-540"><span class="linenos">540</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span>
+</span><span id="import_dobs_string-541"><a href="#import_dobs_string-541"><span class="linenos">541</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span>
+</span><span id="import_dobs_string-542"><a href="#import_dobs_string-542"><span class="linenos">542</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">file_origin</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span>
+</span><span id="import_dobs_string-543"><a href="#import_dobs_string-543"><span class="linenos">543</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">descriptiond</span>
+</span><span id="import_dobs_string-544"><a href="#import_dobs_string-544"><span class="linenos">544</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;enstags&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">enstags</span>
+</span><span id="import_dobs_string-545"><a href="#import_dobs_string-545"><span class="linenos">545</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">res</span>
+</span><span id="import_dobs_string-546"><a href="#import_dobs_string-546"><span class="linenos">546</span></a>        <span class="k">return</span> <span class="n">retd</span>
+</span><span id="import_dobs_string-547"><a href="#import_dobs_string-547"><span class="linenos">547</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="import_dobs_string-548"><a href="#import_dobs_string-548"><span class="linenos">548</span></a>        <span class="k">return</span> <span class="n">res</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Import a list of Obs from a string in the Zeuthen dobs format.</p>
 
@@ -1511,68 +1503,62 @@ None or False: No separator is inserted.</li>
 
                 </section>
                 <section id="read_dobs">
-                            <div class="attr function"><a class="headerlink" href="#read_dobs">#&nbsp;&nbsp</a>
+                            <input id="read_dobs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_dobs</span><span class="signature pdoc-code multiline">(<span class="param">	<span class="n">fname</span>,</span><span class="param">	<span class="n">noempty</span><span class="o">=</span><span class="kc">False</span>,</span><span class="param">	<span class="n">full_output</span><span class="o">=</span><span class="kc">False</span>,</span><span class="param">	<span class="n">gz</span><span class="o">=</span><span class="kc">True</span>,</span><span class="param">	<span class="n">separator_insertion</span><span class="o">=</span><span class="kc">True</span></span>)</span>
+
+                <label class="view-source-button" for="read_dobs-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_dobs</span><span class="signature">(
-    fname,
-    noempty=False,
-    full_output=False,
-    gz=True,
-    separator_insertion=True
-)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_dobs-550"><a href="#read_dobs-550"><span class="linenos">550</span></a><span class="k">def</span> <span class="nf">read_dobs</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">noempty</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="read_dobs-551"><a href="#read_dobs-551"><span class="linenos">551</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs from an xml.gz file in the Zeuthen dobs format.</span>
-</span><span id="read_dobs-552"><a href="#read_dobs-552"><span class="linenos">552</span></a>
-</span><span id="read_dobs-553"><a href="#read_dobs-553"><span class="linenos">553</span></a><span class="sd">    Tags are not written or recovered automatically.</span>
-</span><span id="read_dobs-554"><a href="#read_dobs-554"><span class="linenos">554</span></a>
-</span><span id="read_dobs-555"><a href="#read_dobs-555"><span class="linenos">555</span></a><span class="sd">    Parameters</span>
-</span><span id="read_dobs-556"><a href="#read_dobs-556"><span class="linenos">556</span></a><span class="sd">    ----------</span>
-</span><span id="read_dobs-557"><a href="#read_dobs-557"><span class="linenos">557</span></a><span class="sd">    fname : str</span>
-</span><span id="read_dobs-558"><a href="#read_dobs-558"><span class="linenos">558</span></a><span class="sd">        Filename of the input file.</span>
-</span><span id="read_dobs-559"><a href="#read_dobs-559"><span class="linenos">559</span></a><span class="sd">    noemtpy : bool</span>
-</span><span id="read_dobs-560"><a href="#read_dobs-560"><span class="linenos">560</span></a><span class="sd">        If True, ensembles with no contribution to the Obs are not included.</span>
-</span><span id="read_dobs-561"><a href="#read_dobs-561"><span class="linenos">561</span></a><span class="sd">        If False, ensembles are included as written in the file.</span>
-</span><span id="read_dobs-562"><a href="#read_dobs-562"><span class="linenos">562</span></a><span class="sd">    full_output : bool</span>
-</span><span id="read_dobs-563"><a href="#read_dobs-563"><span class="linenos">563</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="read_dobs-564"><a href="#read_dobs-564"><span class="linenos">564</span></a><span class="sd">        If False, only the data is returned as list.</span>
-</span><span id="read_dobs-565"><a href="#read_dobs-565"><span class="linenos">565</span></a><span class="sd">    gz : bool</span>
-</span><span id="read_dobs-566"><a href="#read_dobs-566"><span class="linenos">566</span></a><span class="sd">        If True, assumes that data is gzipped. If False, assumes XML file.</span>
-</span><span id="read_dobs-567"><a href="#read_dobs-567"><span class="linenos">567</span></a><span class="sd">    separatior_insertion: str, int or bool</span>
-</span><span id="read_dobs-568"><a href="#read_dobs-568"><span class="linenos">568</span></a><span class="sd">        str: replace all occurences of &quot;separator_insertion&quot; within the replica names</span>
-</span><span id="read_dobs-569"><a href="#read_dobs-569"><span class="linenos">569</span></a><span class="sd">        by &quot;|%s&quot; % (separator_insertion) when constructing the names of the replica.</span>
-</span><span id="read_dobs-570"><a href="#read_dobs-570"><span class="linenos">570</span></a><span class="sd">        int: Insert the separator &quot;|&quot; at the position given by separator_insertion.</span>
-</span><span id="read_dobs-571"><a href="#read_dobs-571"><span class="linenos">571</span></a><span class="sd">        True (default): separator &quot;|&quot; is inserted after len(ensname), assuming that the</span>
-</span><span id="read_dobs-572"><a href="#read_dobs-572"><span class="linenos">572</span></a><span class="sd">        ensemble name is a prefix to the replica name.</span>
-</span><span id="read_dobs-573"><a href="#read_dobs-573"><span class="linenos">573</span></a><span class="sd">        None or False: No separator is inserted.</span>
-</span><span id="read_dobs-574"><a href="#read_dobs-574"><span class="linenos">574</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_dobs-575"><a href="#read_dobs-575"><span class="linenos">575</span></a>
-</span><span id="read_dobs-576"><a href="#read_dobs-576"><span class="linenos">576</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="read_dobs-577"><a href="#read_dobs-577"><span class="linenos">577</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
-</span><span id="read_dobs-578"><a href="#read_dobs-578"><span class="linenos">578</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
-</span><span id="read_dobs-579"><a href="#read_dobs-579"><span class="linenos">579</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="read_dobs-580"><a href="#read_dobs-580"><span class="linenos">580</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
-</span><span id="read_dobs-581"><a href="#read_dobs-581"><span class="linenos">581</span></a>        <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
-</span><span id="read_dobs-582"><a href="#read_dobs-582"><span class="linenos">582</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="read_dobs-583"><a href="#read_dobs-583"><span class="linenos">583</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_dobs-584"><a href="#read_dobs-584"><span class="linenos">584</span></a>        <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="read_dobs-585"><a href="#read_dobs-585"><span class="linenos">585</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!&quot;</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
-</span><span id="read_dobs-586"><a href="#read_dobs-586"><span class="linenos">586</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
-</span><span id="read_dobs-587"><a href="#read_dobs-587"><span class="linenos">587</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
-</span><span id="read_dobs-588"><a href="#read_dobs-588"><span class="linenos">588</span></a>
-</span><span id="read_dobs-589"><a href="#read_dobs-589"><span class="linenos">589</span></a>    <span class="c1"># open and read gzipped xml file</span>
-</span><span id="read_dobs-590"><a href="#read_dobs-590"><span class="linenos">590</span></a>    <span class="n">infile</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">)</span>
-</span><span id="read_dobs-591"><a href="#read_dobs-591"><span class="linenos">591</span></a>    <span class="n">content</span> <span class="o">=</span> <span class="n">infile</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
-</span><span id="read_dobs-592"><a href="#read_dobs-592"><span class="linenos">592</span></a>
-</span><span id="read_dobs-593"><a href="#read_dobs-593"><span class="linenos">593</span></a>    <span class="k">return</span> <span class="n">import_dobs_string</span><span class="p">(</span><span class="n">content</span><span class="p">,</span> <span class="n">noempty</span><span class="p">,</span> <span class="n">full_output</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="n">separator_insertion</span><span class="p">)</span>
+    <a class="headerlink" href="#read_dobs"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_dobs-551"><a href="#read_dobs-551"><span class="linenos">551</span></a><span class="k">def</span> <span class="nf">read_dobs</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">noempty</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="read_dobs-552"><a href="#read_dobs-552"><span class="linenos">552</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs from an xml.gz file in the Zeuthen dobs format.</span>
+</span><span id="read_dobs-553"><a href="#read_dobs-553"><span class="linenos">553</span></a>
+</span><span id="read_dobs-554"><a href="#read_dobs-554"><span class="linenos">554</span></a><span class="sd">    Tags are not written or recovered automatically.</span>
+</span><span id="read_dobs-555"><a href="#read_dobs-555"><span class="linenos">555</span></a>
+</span><span id="read_dobs-556"><a href="#read_dobs-556"><span class="linenos">556</span></a><span class="sd">    Parameters</span>
+</span><span id="read_dobs-557"><a href="#read_dobs-557"><span class="linenos">557</span></a><span class="sd">    ----------</span>
+</span><span id="read_dobs-558"><a href="#read_dobs-558"><span class="linenos">558</span></a><span class="sd">    fname : str</span>
+</span><span id="read_dobs-559"><a href="#read_dobs-559"><span class="linenos">559</span></a><span class="sd">        Filename of the input file.</span>
+</span><span id="read_dobs-560"><a href="#read_dobs-560"><span class="linenos">560</span></a><span class="sd">    noemtpy : bool</span>
+</span><span id="read_dobs-561"><a href="#read_dobs-561"><span class="linenos">561</span></a><span class="sd">        If True, ensembles with no contribution to the Obs are not included.</span>
+</span><span id="read_dobs-562"><a href="#read_dobs-562"><span class="linenos">562</span></a><span class="sd">        If False, ensembles are included as written in the file.</span>
+</span><span id="read_dobs-563"><a href="#read_dobs-563"><span class="linenos">563</span></a><span class="sd">    full_output : bool</span>
+</span><span id="read_dobs-564"><a href="#read_dobs-564"><span class="linenos">564</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="read_dobs-565"><a href="#read_dobs-565"><span class="linenos">565</span></a><span class="sd">        If False, only the data is returned as list.</span>
+</span><span id="read_dobs-566"><a href="#read_dobs-566"><span class="linenos">566</span></a><span class="sd">    gz : bool</span>
+</span><span id="read_dobs-567"><a href="#read_dobs-567"><span class="linenos">567</span></a><span class="sd">        If True, assumes that data is gzipped. If False, assumes XML file.</span>
+</span><span id="read_dobs-568"><a href="#read_dobs-568"><span class="linenos">568</span></a><span class="sd">    separatior_insertion: str, int or bool</span>
+</span><span id="read_dobs-569"><a href="#read_dobs-569"><span class="linenos">569</span></a><span class="sd">        str: replace all occurences of &quot;separator_insertion&quot; within the replica names</span>
+</span><span id="read_dobs-570"><a href="#read_dobs-570"><span class="linenos">570</span></a><span class="sd">        by &quot;|%s&quot; % (separator_insertion) when constructing the names of the replica.</span>
+</span><span id="read_dobs-571"><a href="#read_dobs-571"><span class="linenos">571</span></a><span class="sd">        int: Insert the separator &quot;|&quot; at the position given by separator_insertion.</span>
+</span><span id="read_dobs-572"><a href="#read_dobs-572"><span class="linenos">572</span></a><span class="sd">        True (default): separator &quot;|&quot; is inserted after len(ensname), assuming that the</span>
+</span><span id="read_dobs-573"><a href="#read_dobs-573"><span class="linenos">573</span></a><span class="sd">        ensemble name is a prefix to the replica name.</span>
+</span><span id="read_dobs-574"><a href="#read_dobs-574"><span class="linenos">574</span></a><span class="sd">        None or False: No separator is inserted.</span>
+</span><span id="read_dobs-575"><a href="#read_dobs-575"><span class="linenos">575</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_dobs-576"><a href="#read_dobs-576"><span class="linenos">576</span></a>
+</span><span id="read_dobs-577"><a href="#read_dobs-577"><span class="linenos">577</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="read_dobs-578"><a href="#read_dobs-578"><span class="linenos">578</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
+</span><span id="read_dobs-579"><a href="#read_dobs-579"><span class="linenos">579</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
+</span><span id="read_dobs-580"><a href="#read_dobs-580"><span class="linenos">580</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="read_dobs-581"><a href="#read_dobs-581"><span class="linenos">581</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
+</span><span id="read_dobs-582"><a href="#read_dobs-582"><span class="linenos">582</span></a>        <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+</span><span id="read_dobs-583"><a href="#read_dobs-583"><span class="linenos">583</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="read_dobs-584"><a href="#read_dobs-584"><span class="linenos">584</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_dobs-585"><a href="#read_dobs-585"><span class="linenos">585</span></a>        <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="read_dobs-586"><a href="#read_dobs-586"><span class="linenos">586</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!&quot;</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
+</span><span id="read_dobs-587"><a href="#read_dobs-587"><span class="linenos">587</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+</span><span id="read_dobs-588"><a href="#read_dobs-588"><span class="linenos">588</span></a>            <span class="n">content</span> <span class="o">=</span> <span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
+</span><span id="read_dobs-589"><a href="#read_dobs-589"><span class="linenos">589</span></a>
+</span><span id="read_dobs-590"><a href="#read_dobs-590"><span class="linenos">590</span></a>    <span class="c1"># open and read gzipped xml file</span>
+</span><span id="read_dobs-591"><a href="#read_dobs-591"><span class="linenos">591</span></a>    <span class="n">infile</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">)</span>
+</span><span id="read_dobs-592"><a href="#read_dobs-592"><span class="linenos">592</span></a>    <span class="n">content</span> <span class="o">=</span> <span class="n">infile</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
+</span><span id="read_dobs-593"><a href="#read_dobs-593"><span class="linenos">593</span></a>
+</span><span id="read_dobs-594"><a href="#read_dobs-594"><span class="linenos">594</span></a>    <span class="k">return</span> <span class="n">import_dobs_string</span><span class="p">(</span><span class="n">content</span><span class="p">,</span> <span class="n">noempty</span><span class="p">,</span> <span class="n">full_output</span><span class="p">,</span> <span class="n">separator_insertion</span><span class="o">=</span><span class="n">separator_insertion</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Import a list of Obs from an xml.gz file in the Zeuthen dobs format.</p>
 
@@ -1604,197 +1590,189 @@ None or False: No separator is inserted.</li>
 
                 </section>
                 <section id="create_dobs_string">
-                            <div class="attr function"><a class="headerlink" href="#create_dobs_string">#&nbsp;&nbsp</a>
+                            <input id="create_dobs_string-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">create_dobs_string</span><span class="signature pdoc-code multiline">(<span class="param">	<span class="n">obsl</span>,</span><span class="param">	<span class="n">name</span>,</span><span class="param">	<span class="n">spec</span><span class="o">=</span><span class="s1">&#39;dobs v1.0&#39;</span>,</span><span class="param">	<span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span>,</span><span class="param">	<span class="n">symbol</span><span class="o">=</span><span class="p">[]</span>,</span><span class="param">	<span class="n">who</span><span class="o">=</span><span class="kc">None</span>,</span><span class="param">	<span class="n">enstags</span><span class="o">=</span><span class="p">{}</span></span>)</span>
+
+                <label class="view-source-button" for="create_dobs_string-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">create_dobs_string</span><span class="signature">(
-    obsl,
-    name,
-    spec=&#39;dobs v1.0&#39;,
-    origin=&#39;&#39;,
-    symbol=[],
-    who=None,
-    enstags={}
-)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="create_dobs_string-655"><a href="#create_dobs_string-655"><span class="linenos">655</span></a><span class="k">def</span> <span class="nf">create_dobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;dobs v1.0&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">who</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">enstags</span><span class="o">=</span><span class="p">{}):</span>
-</span><span id="create_dobs_string-656"><a href="#create_dobs_string-656"><span class="linenos">656</span></a>    <span class="sd">&quot;&quot;&quot;Generate the string for the export of a list of Obs or structures containing Obs</span>
-</span><span id="create_dobs_string-657"><a href="#create_dobs_string-657"><span class="linenos">657</span></a><span class="sd">    to a .xml.gz file according to the Zeuthen dobs format.</span>
-</span><span id="create_dobs_string-658"><a href="#create_dobs_string-658"><span class="linenos">658</span></a>
-</span><span id="create_dobs_string-659"><a href="#create_dobs_string-659"><span class="linenos">659</span></a><span class="sd">    Tags are not written or recovered automatically. The separator |is removed from the replica names.</span>
-</span><span id="create_dobs_string-660"><a href="#create_dobs_string-660"><span class="linenos">660</span></a>
-</span><span id="create_dobs_string-661"><a href="#create_dobs_string-661"><span class="linenos">661</span></a><span class="sd">    Parameters</span>
-</span><span id="create_dobs_string-662"><a href="#create_dobs_string-662"><span class="linenos">662</span></a><span class="sd">    ----------</span>
-</span><span id="create_dobs_string-663"><a href="#create_dobs_string-663"><span class="linenos">663</span></a><span class="sd">    obsl : list</span>
-</span><span id="create_dobs_string-664"><a href="#create_dobs_string-664"><span class="linenos">664</span></a><span class="sd">        List of Obs that will be exported.</span>
-</span><span id="create_dobs_string-665"><a href="#create_dobs_string-665"><span class="linenos">665</span></a><span class="sd">        The Obs inside a structure do not have to be defined on the same set of configurations,</span>
-</span><span id="create_dobs_string-666"><a href="#create_dobs_string-666"><span class="linenos">666</span></a><span class="sd">        but the storage requirement is increased, if this is not the case.</span>
-</span><span id="create_dobs_string-667"><a href="#create_dobs_string-667"><span class="linenos">667</span></a><span class="sd">    name : str</span>
-</span><span id="create_dobs_string-668"><a href="#create_dobs_string-668"><span class="linenos">668</span></a><span class="sd">        The name of the observable.</span>
-</span><span id="create_dobs_string-669"><a href="#create_dobs_string-669"><span class="linenos">669</span></a><span class="sd">    spec : str</span>
-</span><span id="create_dobs_string-670"><a href="#create_dobs_string-670"><span class="linenos">670</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
-</span><span id="create_dobs_string-671"><a href="#create_dobs_string-671"><span class="linenos">671</span></a><span class="sd">    origin : str</span>
-</span><span id="create_dobs_string-672"><a href="#create_dobs_string-672"><span class="linenos">672</span></a><span class="sd">        Specify where the data has its origin.</span>
-</span><span id="create_dobs_string-673"><a href="#create_dobs_string-673"><span class="linenos">673</span></a><span class="sd">    symbol : list</span>
-</span><span id="create_dobs_string-674"><a href="#create_dobs_string-674"><span class="linenos">674</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
-</span><span id="create_dobs_string-675"><a href="#create_dobs_string-675"><span class="linenos">675</span></a><span class="sd">    who : str</span>
-</span><span id="create_dobs_string-676"><a href="#create_dobs_string-676"><span class="linenos">676</span></a><span class="sd">        Provide the name of the person that exports the data.</span>
-</span><span id="create_dobs_string-677"><a href="#create_dobs_string-677"><span class="linenos">677</span></a><span class="sd">    enstags : dict</span>
-</span><span id="create_dobs_string-678"><a href="#create_dobs_string-678"><span class="linenos">678</span></a><span class="sd">        Provide alternative enstag for ensembles in the form enstags = {ename: enstag}</span>
-</span><span id="create_dobs_string-679"><a href="#create_dobs_string-679"><span class="linenos">679</span></a><span class="sd">        Otherwise, the ensemble name is used.</span>
-</span><span id="create_dobs_string-680"><a href="#create_dobs_string-680"><span class="linenos">680</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="create_dobs_string-681"><a href="#create_dobs_string-681"><span class="linenos">681</span></a>    <span class="n">od</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_dobs_string-682"><a href="#create_dobs_string-682"><span class="linenos">682</span></a>    <span class="n">r_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_dobs_string-683"><a href="#create_dobs_string-683"><span class="linenos">683</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
-</span><span id="create_dobs_string-684"><a href="#create_dobs_string-684"><span class="linenos">684</span></a>        <span class="n">r_names</span> <span class="o">+=</span> <span class="p">[</span><span class="n">name</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">names</span> <span class="k">if</span> <span class="n">name</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">mc_names</span><span class="p">]</span>
-</span><span id="create_dobs_string-685"><a href="#create_dobs_string-685"><span class="linenos">685</span></a>    <span class="n">r_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">r_names</span><span class="p">))</span>
-</span><span id="create_dobs_string-686"><a href="#create_dobs_string-686"><span class="linenos">686</span></a>    <span class="n">mc_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">n</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">r_names</span><span class="p">]))</span>
-</span><span id="create_dobs_string-687"><a href="#create_dobs_string-687"><span class="linenos">687</span></a>    <span class="k">for</span> <span class="n">tmpname</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
-</span><span id="create_dobs_string-688"><a href="#create_dobs_string-688"><span class="linenos">688</span></a>        <span class="k">if</span> <span class="n">tmpname</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">enstags</span><span class="p">:</span>
-</span><span id="create_dobs_string-689"><a href="#create_dobs_string-689"><span class="linenos">689</span></a>            <span class="n">enstags</span><span class="p">[</span><span class="n">tmpname</span><span class="p">]</span> <span class="o">=</span> <span class="n">tmpname</span>
-</span><span id="create_dobs_string-690"><a href="#create_dobs_string-690"><span class="linenos">690</span></a>    <span class="n">ne</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">mc_names</span><span class="p">))</span>
-</span><span id="create_dobs_string-691"><a href="#create_dobs_string-691"><span class="linenos">691</span></a>    <span class="n">cov_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_dobs_string-692"><a href="#create_dobs_string-692"><span class="linenos">692</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
-</span><span id="create_dobs_string-693"><a href="#create_dobs_string-693"><span class="linenos">693</span></a>        <span class="n">cov_names</span> <span class="o">+=</span> <span class="nb">list</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">)</span>
-</span><span id="create_dobs_string-694"><a href="#create_dobs_string-694"><span class="linenos">694</span></a>    <span class="n">cov_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">cov_names</span><span class="p">))</span>
-</span><span id="create_dobs_string-695"><a href="#create_dobs_string-695"><span class="linenos">695</span></a>    <span class="n">nc</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">cov_names</span><span class="p">))</span>
-</span><span id="create_dobs_string-696"><a href="#create_dobs_string-696"><span class="linenos">696</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_dobs_string-697"><a href="#create_dobs_string-697"><span class="linenos">697</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;SCHEMA&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;NAME&#39;</span><span class="p">:</span> <span class="s1">&#39;lattobs&#39;</span><span class="p">,</span> <span class="s1">&#39;VERSION&#39;</span><span class="p">:</span> <span class="s1">&#39;1.0&#39;</span><span class="p">}</span>
-</span><span id="create_dobs_string-698"><a href="#create_dobs_string-698"><span class="linenos">698</span></a>    <span class="k">if</span> <span class="n">who</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="create_dobs_string-699"><a href="#create_dobs_string-699"><span class="linenos">699</span></a>        <span class="n">who</span> <span class="o">=</span> <span class="n">getpass</span><span class="o">.</span><span class="n">getuser</span><span class="p">()</span>
-</span><span id="create_dobs_string-700"><a href="#create_dobs_string-700"><span class="linenos">700</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span>
-</span><span id="create_dobs_string-701"><a href="#create_dobs_string-701"><span class="linenos">701</span></a>        <span class="s1">&#39;who&#39;</span><span class="p">:</span> <span class="n">who</span><span class="p">,</span>
-</span><span id="create_dobs_string-702"><a href="#create_dobs_string-702"><span class="linenos">702</span></a>        <span class="s1">&#39;date&#39;</span><span class="p">:</span> <span class="nb">str</span><span class="p">(</span><span class="n">datetime</span><span class="o">.</span><span class="n">datetime</span><span class="o">.</span><span class="n">now</span><span class="p">())[:</span><span class="o">-</span><span class="mi">7</span><span class="p">],</span>
-</span><span id="create_dobs_string-703"><a href="#create_dobs_string-703"><span class="linenos">703</span></a>        <span class="s1">&#39;host&#39;</span><span class="p">:</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">(),</span>
-</span><span id="create_dobs_string-704"><a href="#create_dobs_string-704"><span class="linenos">704</span></a>        <span class="s1">&#39;tool&#39;</span><span class="p">:</span> <span class="p">{</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="s1">&#39;pyerrors&#39;</span><span class="p">,</span> <span class="s1">&#39;version&#39;</span><span class="p">:</span> <span class="n">pyerrorsversion</span><span class="o">.</span><span class="n">__version__</span><span class="p">}}</span>
-</span><span id="create_dobs_string-705"><a href="#create_dobs_string-705"><span class="linenos">705</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;dobs&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_dobs_string-706"><a href="#create_dobs_string-706"><span class="linenos">706</span></a>    <span class="n">pd</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;dobs&#39;</span><span class="p">]</span>
-</span><span id="create_dobs_string-707"><a href="#create_dobs_string-707"><span class="linenos">707</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;spec&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">spec</span>
-</span><span id="create_dobs_string-708"><a href="#create_dobs_string-708"><span class="linenos">708</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">origin</span>
-</span><span id="create_dobs_string-709"><a href="#create_dobs_string-709"><span class="linenos">709</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="create_dobs_string-710"><a href="#create_dobs_string-710"><span class="linenos">710</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_dobs_string-711"><a href="#create_dobs_string-711"><span class="linenos">711</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;val&#39;</span>
-</span><span id="create_dobs_string-712"><a href="#create_dobs_string-712"><span class="linenos">712</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1 f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
-</span><span id="create_dobs_string-713"><a href="#create_dobs_string-713"><span class="linenos">713</span></a>    <span class="n">osymbol</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="create_dobs_string-714"><a href="#create_dobs_string-714"><span class="linenos">714</span></a>    <span class="k">if</span> <span class="n">symbol</span><span class="p">:</span>
-</span><span id="create_dobs_string-715"><a href="#create_dobs_string-715"><span class="linenos">715</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">symbol</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="create_dobs_string-716"><a href="#create_dobs_string-716"><span class="linenos">716</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list!&#39;</span><span class="p">)</span>
-</span><span id="create_dobs_string-717"><a href="#create_dobs_string-717"><span class="linenos">717</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)):</span>
-</span><span id="create_dobs_string-718"><a href="#create_dobs_string-718"><span class="linenos">718</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list of lenght 0 or </span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)))</span>
-</span><span id="create_dobs_string-719"><a href="#create_dobs_string-719"><span class="linenos">719</span></a>        <span class="n">osymbol</span> <span class="o">=</span> <span class="n">symbol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="create_dobs_string-720"><a href="#create_dobs_string-720"><span class="linenos">720</span></a>        <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">symbol</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
-</span><span id="create_dobs_string-721"><a href="#create_dobs_string-721"><span class="linenos">721</span></a>            <span class="n">osymbol</span> <span class="o">+=</span> <span class="s1">&#39; </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="n">s</span>
-</span><span id="create_dobs_string-722"><a href="#create_dobs_string-722"><span class="linenos">722</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">osymbol</span>
-</span><span id="create_dobs_string-723"><a href="#create_dobs_string-723"><span class="linenos">723</span></a>
-</span><span id="create_dobs_string-724"><a href="#create_dobs_string-724"><span class="linenos">724</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;#values&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;  &#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="s1">&#39;</span><span class="si">%1.16e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">])]</span>
-</span><span id="create_dobs_string-725"><a href="#create_dobs_string-725"><span class="linenos">725</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;ne&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ne</span><span class="p">)</span>
-</span><span id="create_dobs_string-726"><a href="#create_dobs_string-726"><span class="linenos">726</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;nc&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">nc</span><span class="p">)</span>
-</span><span id="create_dobs_string-727"><a href="#create_dobs_string-727"><span class="linenos">727</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;edata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_dobs_string-728"><a href="#create_dobs_string-728"><span class="linenos">728</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
-</span><span id="create_dobs_string-729"><a href="#create_dobs_string-729"><span class="linenos">729</span></a>        <span class="n">ed</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_dobs_string-730"><a href="#create_dobs_string-730"><span class="linenos">730</span></a>        <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;enstag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">enstags</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="create_dobs_string-731"><a href="#create_dobs_string-731"><span class="linenos">731</span></a>        <span class="n">onames</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">([</span><span class="n">n</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">r_names</span> <span class="k">if</span> <span class="p">(</span><span class="n">n</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span><span class="p">)</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">==</span> <span class="n">name</span><span class="p">)])</span>
-</span><span id="create_dobs_string-732"><a href="#create_dobs_string-732"><span class="linenos">732</span></a>        <span class="n">nr</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">onames</span><span class="p">)</span>
-</span><span id="create_dobs_string-733"><a href="#create_dobs_string-733"><span class="linenos">733</span></a>        <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;nr&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">nr</span>
-</span><span id="create_dobs_string-734"><a href="#create_dobs_string-734"><span class="linenos">734</span></a>        <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_dobs_string-735"><a href="#create_dobs_string-735"><span class="linenos">735</span></a>
-</span><span id="create_dobs_string-736"><a href="#create_dobs_string-736"><span class="linenos">736</span></a>        <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nr</span><span class="p">):</span>
-</span><span id="create_dobs_string-737"><a href="#create_dobs_string-737"><span class="linenos">737</span></a>            <span class="n">ad</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_dobs_string-738"><a href="#create_dobs_string-738"><span class="linenos">738</span></a>            <span class="n">repname</span> <span class="o">=</span> <span class="n">onames</span><span class="p">[</span><span class="n">r</span><span class="p">]</span>
-</span><span id="create_dobs_string-739"><a href="#create_dobs_string-739"><span class="linenos">739</span></a>            <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">repname</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="create_dobs_string-740"><a href="#create_dobs_string-740"><span class="linenos">740</span></a>            <span class="n">idx</span> <span class="o">=</span> <span class="n">_merge_idx</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">repname</span><span class="p">,</span> <span class="p">[])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">])</span>
-</span><span id="create_dobs_string-741"><a href="#create_dobs_string-741"><span class="linenos">741</span></a>            <span class="n">Nconf</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
-</span><span id="create_dobs_string-742"><a href="#create_dobs_string-742"><span class="linenos">742</span></a>            <span class="n">layout</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> i f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">Nconf</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
-</span><span id="create_dobs_string-743"><a href="#create_dobs_string-743"><span class="linenos">743</span></a>            <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">layout</span>
-</span><span id="create_dobs_string-744"><a href="#create_dobs_string-744"><span class="linenos">744</span></a>            <span class="n">data</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="create_dobs_string-745"><a href="#create_dobs_string-745"><span class="linenos">745</span></a>            <span class="n">counters</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">]</span>
-</span><span id="create_dobs_string-746"><a href="#create_dobs_string-746"><span class="linenos">746</span></a>            <span class="k">for</span> <span class="n">ci</span> <span class="ow">in</span> <span class="n">idx</span><span class="p">:</span>
-</span><span id="create_dobs_string-747"><a href="#create_dobs_string-747"><span class="linenos">747</span></a>                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="n">ci</span>
-</span><span id="create_dobs_string-748"><a href="#create_dobs_string-748"><span class="linenos">748</span></a>                <span class="k">for</span> <span class="n">oi</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)):</span>
-</span><span id="create_dobs_string-749"><a href="#create_dobs_string-749"><span class="linenos">749</span></a>                    <span class="n">o</span> <span class="o">=</span> <span class="n">obsl</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span>
-</span><span id="create_dobs_string-750"><a href="#create_dobs_string-750"><span class="linenos">750</span></a>                    <span class="k">if</span> <span class="n">repname</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">:</span>
-</span><span id="create_dobs_string-751"><a href="#create_dobs_string-751"><span class="linenos">751</span></a>                        <span class="k">if</span> <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="create_dobs_string-752"><a href="#create_dobs_string-752"><span class="linenos">752</span></a>                            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="create_dobs_string-753"><a href="#create_dobs_string-753"><span class="linenos">753</span></a>                            <span class="k">continue</span>
-</span><span id="create_dobs_string-754"><a href="#create_dobs_string-754"><span class="linenos">754</span></a>                        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">repname</span><span class="p">][</span><span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]]</span> <span class="o">==</span> <span class="n">ci</span><span class="p">:</span>
-</span><span id="create_dobs_string-755"><a href="#create_dobs_string-755"><span class="linenos">755</span></a>                            <span class="n">num</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">repname</span><span class="p">][</span><span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]]</span>
-</span><span id="create_dobs_string-756"><a href="#create_dobs_string-756"><span class="linenos">756</span></a>                            <span class="k">if</span> <span class="n">num</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="create_dobs_string-757"><a href="#create_dobs_string-757"><span class="linenos">757</span></a>                                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="create_dobs_string-758"><a href="#create_dobs_string-758"><span class="linenos">758</span></a>                            <span class="k">else</span><span class="p">:</span>
-</span><span id="create_dobs_string-759"><a href="#create_dobs_string-759"><span class="linenos">759</span></a>                                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.16e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">num</span><span class="p">)</span>
-</span><span id="create_dobs_string-760"><a href="#create_dobs_string-760"><span class="linenos">760</span></a>                            <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="create_dobs_string-761"><a href="#create_dobs_string-761"><span class="linenos">761</span></a>                            <span class="k">if</span> <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">&gt;=</span> <span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">repname</span><span class="p">]):</span>
-</span><span id="create_dobs_string-762"><a href="#create_dobs_string-762"><span class="linenos">762</span></a>                                <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
-</span><span id="create_dobs_string-763"><a href="#create_dobs_string-763"><span class="linenos">763</span></a>                        <span class="k">else</span><span class="p">:</span>
-</span><span id="create_dobs_string-764"><a href="#create_dobs_string-764"><span class="linenos">764</span></a>                            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="create_dobs_string-765"><a href="#create_dobs_string-765"><span class="linenos">765</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="create_dobs_string-766"><a href="#create_dobs_string-766"><span class="linenos">766</span></a>                        <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="create_dobs_string-767"><a href="#create_dobs_string-767"><span class="linenos">767</span></a>                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="create_dobs_string-768"><a href="#create_dobs_string-768"><span class="linenos">768</span></a>            <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
-</span><span id="create_dobs_string-769"><a href="#create_dobs_string-769"><span class="linenos">769</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ad</span><span class="p">)</span>
-</span><span id="create_dobs_string-770"><a href="#create_dobs_string-770"><span class="linenos">770</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;edata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ed</span><span class="p">)</span>
-</span><span id="create_dobs_string-771"><a href="#create_dobs_string-771"><span class="linenos">771</span></a>
-</span><span id="create_dobs_string-772"><a href="#create_dobs_string-772"><span class="linenos">772</span></a>        <span class="n">allcov</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_dobs_string-773"><a href="#create_dobs_string-773"><span class="linenos">773</span></a>        <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
-</span><span id="create_dobs_string-774"><a href="#create_dobs_string-774"><span class="linenos">774</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="create_dobs_string-775"><a href="#create_dobs_string-775"><span class="linenos">775</span></a>                <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">allcov</span><span class="p">:</span>
-</span><span id="create_dobs_string-776"><a href="#create_dobs_string-776"><span class="linenos">776</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">array_equal</span><span class="p">(</span><span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">):</span>
-</span><span id="create_dobs_string-777"><a href="#create_dobs_string-777"><span class="linenos">777</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Inconsistent covariance matrices for </span><span class="si">%s</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
-</span><span id="create_dobs_string-778"><a href="#create_dobs_string-778"><span class="linenos">778</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="create_dobs_string-779"><a href="#create_dobs_string-779"><span class="linenos">779</span></a>                    <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span>
-</span><span id="create_dobs_string-780"><a href="#create_dobs_string-780"><span class="linenos">780</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_dobs_string-781"><a href="#create_dobs_string-781"><span class="linenos">781</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cov_names</span><span class="p">:</span>
-</span><span id="create_dobs_string-782"><a href="#create_dobs_string-782"><span class="linenos">782</span></a>            <span class="n">cd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_dobs_string-783"><a href="#create_dobs_string-783"><span class="linenos">783</span></a>            <span class="n">cd</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="create_dobs_string-784"><a href="#create_dobs_string-784"><span class="linenos">784</span></a>
-</span><span id="create_dobs_string-785"><a href="#create_dobs_string-785"><span class="linenos">785</span></a>            <span class="n">covd</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;id&#39;</span><span class="p">:</span> <span class="s1">&#39;cov&#39;</span><span class="p">}</span>
-</span><span id="create_dobs_string-786"><a href="#create_dobs_string-786"><span class="linenos">786</span></a>            <span class="k">if</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">():</span>
-</span><span id="create_dobs_string-787"><a href="#create_dobs_string-787"><span class="linenos">787</span></a>                <span class="n">ncov</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="create_dobs_string-788"><a href="#create_dobs_string-788"><span class="linenos">788</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1 1 f&#39;</span>
-</span><span id="create_dobs_string-789"><a href="#create_dobs_string-789"><span class="linenos">789</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%1.14e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="create_dobs_string-790"><a href="#create_dobs_string-790"><span class="linenos">790</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="create_dobs_string-791"><a href="#create_dobs_string-791"><span class="linenos">791</span></a>                <span class="n">shape</span> <span class="o">=</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span>
-</span><span id="create_dobs_string-792"><a href="#create_dobs_string-792"><span class="linenos">792</span></a>                <span class="k">assert</span> <span class="p">(</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="create_dobs_string-793"><a href="#create_dobs_string-793"><span class="linenos">793</span></a>                <span class="n">ncov</span> <span class="o">=</span> <span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="create_dobs_string-794"><a href="#create_dobs_string-794"><span class="linenos">794</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> </span><span class="si">%d</span><span class="s1"> f&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ncov</span><span class="p">,</span> <span class="n">ncov</span><span class="p">)</span>
-</span><span id="create_dobs_string-795"><a href="#create_dobs_string-795"><span class="linenos">795</span></a>                <span class="n">ds</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="create_dobs_string-796"><a href="#create_dobs_string-796"><span class="linenos">796</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
-</span><span id="create_dobs_string-797"><a href="#create_dobs_string-797"><span class="linenos">797</span></a>                    <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
-</span><span id="create_dobs_string-798"><a href="#create_dobs_string-798"><span class="linenos">798</span></a>                        <span class="n">val</span> <span class="o">=</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span>
-</span><span id="create_dobs_string-799"><a href="#create_dobs_string-799"><span class="linenos">799</span></a>                        <span class="k">if</span> <span class="n">val</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="create_dobs_string-800"><a href="#create_dobs_string-800"><span class="linenos">800</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="create_dobs_string-801"><a href="#create_dobs_string-801"><span class="linenos">801</span></a>                        <span class="k">else</span><span class="p">:</span>
-</span><span id="create_dobs_string-802"><a href="#create_dobs_string-802"><span class="linenos">802</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.14e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">val</span><span class="p">)</span>
-</span><span id="create_dobs_string-803"><a href="#create_dobs_string-803"><span class="linenos">803</span></a>                    <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
-</span><span id="create_dobs_string-804"><a href="#create_dobs_string-804"><span class="linenos">804</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ds</span>
-</span><span id="create_dobs_string-805"><a href="#create_dobs_string-805"><span class="linenos">805</span></a>
-</span><span id="create_dobs_string-806"><a href="#create_dobs_string-806"><span class="linenos">806</span></a>            <span class="n">gradd</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;id&#39;</span><span class="p">:</span> <span class="s1">&#39;grad&#39;</span><span class="p">}</span>
-</span><span id="create_dobs_string-807"><a href="#create_dobs_string-807"><span class="linenos">807</span></a>            <span class="n">gradd</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ncov</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
-</span><span id="create_dobs_string-808"><a href="#create_dobs_string-808"><span class="linenos">808</span></a>            <span class="n">ds</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="create_dobs_string-809"><a href="#create_dobs_string-809"><span class="linenos">809</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
-</span><span id="create_dobs_string-810"><a href="#create_dobs_string-810"><span class="linenos">810</span></a>                <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
-</span><span id="create_dobs_string-811"><a href="#create_dobs_string-811"><span class="linenos">811</span></a>                    <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">:</span>
-</span><span id="create_dobs_string-812"><a href="#create_dobs_string-812"><span class="linenos">812</span></a>                        <span class="n">val</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="create_dobs_string-813"><a href="#create_dobs_string-813"><span class="linenos">813</span></a>                        <span class="k">if</span> <span class="n">val</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="create_dobs_string-814"><a href="#create_dobs_string-814"><span class="linenos">814</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.14e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">val</span><span class="p">)</span>
-</span><span id="create_dobs_string-815"><a href="#create_dobs_string-815"><span class="linenos">815</span></a>                        <span class="k">else</span><span class="p">:</span>
-</span><span id="create_dobs_string-816"><a href="#create_dobs_string-816"><span class="linenos">816</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="create_dobs_string-817"><a href="#create_dobs_string-817"><span class="linenos">817</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="create_dobs_string-818"><a href="#create_dobs_string-818"><span class="linenos">818</span></a>                        <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
-</span><span id="create_dobs_string-819"><a href="#create_dobs_string-819"><span class="linenos">819</span></a>            <span class="n">gradd</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ds</span>
-</span><span id="create_dobs_string-820"><a href="#create_dobs_string-820"><span class="linenos">820</span></a>            <span class="n">cd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">covd</span><span class="p">,</span> <span class="n">gradd</span><span class="p">]</span>
-</span><span id="create_dobs_string-821"><a href="#create_dobs_string-821"><span class="linenos">821</span></a>            <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cd</span><span class="p">)</span>
-</span><span id="create_dobs_string-822"><a href="#create_dobs_string-822"><span class="linenos">822</span></a>
-</span><span id="create_dobs_string-823"><a href="#create_dobs_string-823"><span class="linenos">823</span></a>    <span class="n">rs</span> <span class="o">=</span> <span class="s1">&#39;&lt;?xml version=&quot;1.0&quot; encoding=&quot;utf-8&quot;?&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">_dobsdict_to_xmlstring_spaces</span><span class="p">(</span><span class="n">od</span><span class="p">)</span>
-</span><span id="create_dobs_string-824"><a href="#create_dobs_string-824"><span class="linenos">824</span></a>
-</span><span id="create_dobs_string-825"><a href="#create_dobs_string-825"><span class="linenos">825</span></a>    <span class="k">return</span> <span class="n">rs</span>
+    <a class="headerlink" href="#create_dobs_string"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="create_dobs_string-656"><a href="#create_dobs_string-656"><span class="linenos">656</span></a><span class="k">def</span> <span class="nf">create_dobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;dobs v1.0&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">who</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">enstags</span><span class="o">=</span><span class="p">{}):</span>
+</span><span id="create_dobs_string-657"><a href="#create_dobs_string-657"><span class="linenos">657</span></a>    <span class="sd">&quot;&quot;&quot;Generate the string for the export of a list of Obs or structures containing Obs</span>
+</span><span id="create_dobs_string-658"><a href="#create_dobs_string-658"><span class="linenos">658</span></a><span class="sd">    to a .xml.gz file according to the Zeuthen dobs format.</span>
+</span><span id="create_dobs_string-659"><a href="#create_dobs_string-659"><span class="linenos">659</span></a>
+</span><span id="create_dobs_string-660"><a href="#create_dobs_string-660"><span class="linenos">660</span></a><span class="sd">    Tags are not written or recovered automatically. The separator |is removed from the replica names.</span>
+</span><span id="create_dobs_string-661"><a href="#create_dobs_string-661"><span class="linenos">661</span></a>
+</span><span id="create_dobs_string-662"><a href="#create_dobs_string-662"><span class="linenos">662</span></a><span class="sd">    Parameters</span>
+</span><span id="create_dobs_string-663"><a href="#create_dobs_string-663"><span class="linenos">663</span></a><span class="sd">    ----------</span>
+</span><span id="create_dobs_string-664"><a href="#create_dobs_string-664"><span class="linenos">664</span></a><span class="sd">    obsl : list</span>
+</span><span id="create_dobs_string-665"><a href="#create_dobs_string-665"><span class="linenos">665</span></a><span class="sd">        List of Obs that will be exported.</span>
+</span><span id="create_dobs_string-666"><a href="#create_dobs_string-666"><span class="linenos">666</span></a><span class="sd">        The Obs inside a structure do not have to be defined on the same set of configurations,</span>
+</span><span id="create_dobs_string-667"><a href="#create_dobs_string-667"><span class="linenos">667</span></a><span class="sd">        but the storage requirement is increased, if this is not the case.</span>
+</span><span id="create_dobs_string-668"><a href="#create_dobs_string-668"><span class="linenos">668</span></a><span class="sd">    name : str</span>
+</span><span id="create_dobs_string-669"><a href="#create_dobs_string-669"><span class="linenos">669</span></a><span class="sd">        The name of the observable.</span>
+</span><span id="create_dobs_string-670"><a href="#create_dobs_string-670"><span class="linenos">670</span></a><span class="sd">    spec : str</span>
+</span><span id="create_dobs_string-671"><a href="#create_dobs_string-671"><span class="linenos">671</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
+</span><span id="create_dobs_string-672"><a href="#create_dobs_string-672"><span class="linenos">672</span></a><span class="sd">    origin : str</span>
+</span><span id="create_dobs_string-673"><a href="#create_dobs_string-673"><span class="linenos">673</span></a><span class="sd">        Specify where the data has its origin.</span>
+</span><span id="create_dobs_string-674"><a href="#create_dobs_string-674"><span class="linenos">674</span></a><span class="sd">    symbol : list</span>
+</span><span id="create_dobs_string-675"><a href="#create_dobs_string-675"><span class="linenos">675</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
+</span><span id="create_dobs_string-676"><a href="#create_dobs_string-676"><span class="linenos">676</span></a><span class="sd">    who : str</span>
+</span><span id="create_dobs_string-677"><a href="#create_dobs_string-677"><span class="linenos">677</span></a><span class="sd">        Provide the name of the person that exports the data.</span>
+</span><span id="create_dobs_string-678"><a href="#create_dobs_string-678"><span class="linenos">678</span></a><span class="sd">    enstags : dict</span>
+</span><span id="create_dobs_string-679"><a href="#create_dobs_string-679"><span class="linenos">679</span></a><span class="sd">        Provide alternative enstag for ensembles in the form enstags = {ename: enstag}</span>
+</span><span id="create_dobs_string-680"><a href="#create_dobs_string-680"><span class="linenos">680</span></a><span class="sd">        Otherwise, the ensemble name is used.</span>
+</span><span id="create_dobs_string-681"><a href="#create_dobs_string-681"><span class="linenos">681</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="create_dobs_string-682"><a href="#create_dobs_string-682"><span class="linenos">682</span></a>    <span class="n">od</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_dobs_string-683"><a href="#create_dobs_string-683"><span class="linenos">683</span></a>    <span class="n">r_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_dobs_string-684"><a href="#create_dobs_string-684"><span class="linenos">684</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
+</span><span id="create_dobs_string-685"><a href="#create_dobs_string-685"><span class="linenos">685</span></a>        <span class="n">r_names</span> <span class="o">+=</span> <span class="p">[</span><span class="n">name</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">names</span> <span class="k">if</span> <span class="n">name</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">mc_names</span><span class="p">]</span>
+</span><span id="create_dobs_string-686"><a href="#create_dobs_string-686"><span class="linenos">686</span></a>    <span class="n">r_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">r_names</span><span class="p">))</span>
+</span><span id="create_dobs_string-687"><a href="#create_dobs_string-687"><span class="linenos">687</span></a>    <span class="n">mc_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">n</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">r_names</span><span class="p">]))</span>
+</span><span id="create_dobs_string-688"><a href="#create_dobs_string-688"><span class="linenos">688</span></a>    <span class="k">for</span> <span class="n">tmpname</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
+</span><span id="create_dobs_string-689"><a href="#create_dobs_string-689"><span class="linenos">689</span></a>        <span class="k">if</span> <span class="n">tmpname</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">enstags</span><span class="p">:</span>
+</span><span id="create_dobs_string-690"><a href="#create_dobs_string-690"><span class="linenos">690</span></a>            <span class="n">enstags</span><span class="p">[</span><span class="n">tmpname</span><span class="p">]</span> <span class="o">=</span> <span class="n">tmpname</span>
+</span><span id="create_dobs_string-691"><a href="#create_dobs_string-691"><span class="linenos">691</span></a>    <span class="n">ne</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">mc_names</span><span class="p">))</span>
+</span><span id="create_dobs_string-692"><a href="#create_dobs_string-692"><span class="linenos">692</span></a>    <span class="n">cov_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_dobs_string-693"><a href="#create_dobs_string-693"><span class="linenos">693</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
+</span><span id="create_dobs_string-694"><a href="#create_dobs_string-694"><span class="linenos">694</span></a>        <span class="n">cov_names</span> <span class="o">+=</span> <span class="nb">list</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">)</span>
+</span><span id="create_dobs_string-695"><a href="#create_dobs_string-695"><span class="linenos">695</span></a>    <span class="n">cov_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">cov_names</span><span class="p">))</span>
+</span><span id="create_dobs_string-696"><a href="#create_dobs_string-696"><span class="linenos">696</span></a>    <span class="n">nc</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">cov_names</span><span class="p">))</span>
+</span><span id="create_dobs_string-697"><a href="#create_dobs_string-697"><span class="linenos">697</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_dobs_string-698"><a href="#create_dobs_string-698"><span class="linenos">698</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;SCHEMA&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;NAME&#39;</span><span class="p">:</span> <span class="s1">&#39;lattobs&#39;</span><span class="p">,</span> <span class="s1">&#39;VERSION&#39;</span><span class="p">:</span> <span class="s1">&#39;1.0&#39;</span><span class="p">}</span>
+</span><span id="create_dobs_string-699"><a href="#create_dobs_string-699"><span class="linenos">699</span></a>    <span class="k">if</span> <span class="n">who</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="create_dobs_string-700"><a href="#create_dobs_string-700"><span class="linenos">700</span></a>        <span class="n">who</span> <span class="o">=</span> <span class="n">getpass</span><span class="o">.</span><span class="n">getuser</span><span class="p">()</span>
+</span><span id="create_dobs_string-701"><a href="#create_dobs_string-701"><span class="linenos">701</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{</span>
+</span><span id="create_dobs_string-702"><a href="#create_dobs_string-702"><span class="linenos">702</span></a>        <span class="s1">&#39;who&#39;</span><span class="p">:</span> <span class="n">who</span><span class="p">,</span>
+</span><span id="create_dobs_string-703"><a href="#create_dobs_string-703"><span class="linenos">703</span></a>        <span class="s1">&#39;date&#39;</span><span class="p">:</span> <span class="nb">str</span><span class="p">(</span><span class="n">datetime</span><span class="o">.</span><span class="n">datetime</span><span class="o">.</span><span class="n">now</span><span class="p">())[:</span><span class="o">-</span><span class="mi">7</span><span class="p">],</span>
+</span><span id="create_dobs_string-704"><a href="#create_dobs_string-704"><span class="linenos">704</span></a>        <span class="s1">&#39;host&#39;</span><span class="p">:</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">(),</span>
+</span><span id="create_dobs_string-705"><a href="#create_dobs_string-705"><span class="linenos">705</span></a>        <span class="s1">&#39;tool&#39;</span><span class="p">:</span> <span class="p">{</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="s1">&#39;pyerrors&#39;</span><span class="p">,</span> <span class="s1">&#39;version&#39;</span><span class="p">:</span> <span class="n">pyerrorsversion</span><span class="o">.</span><span class="n">__version__</span><span class="p">}}</span>
+</span><span id="create_dobs_string-706"><a href="#create_dobs_string-706"><span class="linenos">706</span></a>    <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;dobs&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_dobs_string-707"><a href="#create_dobs_string-707"><span class="linenos">707</span></a>    <span class="n">pd</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;OBSERVABLES&#39;</span><span class="p">][</span><span class="s1">&#39;dobs&#39;</span><span class="p">]</span>
+</span><span id="create_dobs_string-708"><a href="#create_dobs_string-708"><span class="linenos">708</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;spec&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">spec</span>
+</span><span id="create_dobs_string-709"><a href="#create_dobs_string-709"><span class="linenos">709</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;origin&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">origin</span>
+</span><span id="create_dobs_string-710"><a href="#create_dobs_string-710"><span class="linenos">710</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="create_dobs_string-711"><a href="#create_dobs_string-711"><span class="linenos">711</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_dobs_string-712"><a href="#create_dobs_string-712"><span class="linenos">712</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;val&#39;</span>
+</span><span id="create_dobs_string-713"><a href="#create_dobs_string-713"><span class="linenos">713</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1 f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
+</span><span id="create_dobs_string-714"><a href="#create_dobs_string-714"><span class="linenos">714</span></a>    <span class="n">osymbol</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="create_dobs_string-715"><a href="#create_dobs_string-715"><span class="linenos">715</span></a>    <span class="k">if</span> <span class="n">symbol</span><span class="p">:</span>
+</span><span id="create_dobs_string-716"><a href="#create_dobs_string-716"><span class="linenos">716</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">symbol</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="create_dobs_string-717"><a href="#create_dobs_string-717"><span class="linenos">717</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list!&#39;</span><span class="p">)</span>
+</span><span id="create_dobs_string-718"><a href="#create_dobs_string-718"><span class="linenos">718</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">symbol</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)):</span>
+</span><span id="create_dobs_string-719"><a href="#create_dobs_string-719"><span class="linenos">719</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Symbol has to be a list of lenght 0 or </span><span class="si">%d</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)))</span>
+</span><span id="create_dobs_string-720"><a href="#create_dobs_string-720"><span class="linenos">720</span></a>        <span class="n">osymbol</span> <span class="o">=</span> <span class="n">symbol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="create_dobs_string-721"><a href="#create_dobs_string-721"><span class="linenos">721</span></a>        <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">symbol</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
+</span><span id="create_dobs_string-722"><a href="#create_dobs_string-722"><span class="linenos">722</span></a>            <span class="n">osymbol</span> <span class="o">+=</span> <span class="s1">&#39; </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="n">s</span>
+</span><span id="create_dobs_string-723"><a href="#create_dobs_string-723"><span class="linenos">723</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;symbol&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">osymbol</span>
+</span><span id="create_dobs_string-724"><a href="#create_dobs_string-724"><span class="linenos">724</span></a>
+</span><span id="create_dobs_string-725"><a href="#create_dobs_string-725"><span class="linenos">725</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">][</span><span class="s1">&#39;#values&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;  &#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="s1">&#39;</span><span class="si">%1.16e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">])]</span>
+</span><span id="create_dobs_string-726"><a href="#create_dobs_string-726"><span class="linenos">726</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;ne&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ne</span><span class="p">)</span>
+</span><span id="create_dobs_string-727"><a href="#create_dobs_string-727"><span class="linenos">727</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;nc&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">nc</span><span class="p">)</span>
+</span><span id="create_dobs_string-728"><a href="#create_dobs_string-728"><span class="linenos">728</span></a>    <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;edata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_dobs_string-729"><a href="#create_dobs_string-729"><span class="linenos">729</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">mc_names</span><span class="p">:</span>
+</span><span id="create_dobs_string-730"><a href="#create_dobs_string-730"><span class="linenos">730</span></a>        <span class="n">ed</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_dobs_string-731"><a href="#create_dobs_string-731"><span class="linenos">731</span></a>        <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;enstag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">enstags</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="create_dobs_string-732"><a href="#create_dobs_string-732"><span class="linenos">732</span></a>        <span class="n">onames</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">([</span><span class="n">n</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">r_names</span> <span class="k">if</span> <span class="p">(</span><span class="n">n</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span><span class="p">)</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">==</span> <span class="n">name</span><span class="p">)])</span>
+</span><span id="create_dobs_string-733"><a href="#create_dobs_string-733"><span class="linenos">733</span></a>        <span class="n">nr</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">onames</span><span class="p">)</span>
+</span><span id="create_dobs_string-734"><a href="#create_dobs_string-734"><span class="linenos">734</span></a>        <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;nr&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">nr</span>
+</span><span id="create_dobs_string-735"><a href="#create_dobs_string-735"><span class="linenos">735</span></a>        <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_dobs_string-736"><a href="#create_dobs_string-736"><span class="linenos">736</span></a>
+</span><span id="create_dobs_string-737"><a href="#create_dobs_string-737"><span class="linenos">737</span></a>        <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nr</span><span class="p">):</span>
+</span><span id="create_dobs_string-738"><a href="#create_dobs_string-738"><span class="linenos">738</span></a>            <span class="n">ad</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_dobs_string-739"><a href="#create_dobs_string-739"><span class="linenos">739</span></a>            <span class="n">repname</span> <span class="o">=</span> <span class="n">onames</span><span class="p">[</span><span class="n">r</span><span class="p">]</span>
+</span><span id="create_dobs_string-740"><a href="#create_dobs_string-740"><span class="linenos">740</span></a>            <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">repname</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="create_dobs_string-741"><a href="#create_dobs_string-741"><span class="linenos">741</span></a>            <span class="n">idx</span> <span class="o">=</span> <span class="n">_merge_idx</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">repname</span><span class="p">,</span> <span class="p">[])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">])</span>
+</span><span id="create_dobs_string-742"><a href="#create_dobs_string-742"><span class="linenos">742</span></a>            <span class="n">Nconf</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
+</span><span id="create_dobs_string-743"><a href="#create_dobs_string-743"><span class="linenos">743</span></a>            <span class="n">layout</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> i f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">Nconf</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
+</span><span id="create_dobs_string-744"><a href="#create_dobs_string-744"><span class="linenos">744</span></a>            <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">layout</span>
+</span><span id="create_dobs_string-745"><a href="#create_dobs_string-745"><span class="linenos">745</span></a>            <span class="n">data</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="create_dobs_string-746"><a href="#create_dobs_string-746"><span class="linenos">746</span></a>            <span class="n">counters</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">]</span>
+</span><span id="create_dobs_string-747"><a href="#create_dobs_string-747"><span class="linenos">747</span></a>            <span class="k">for</span> <span class="n">ci</span> <span class="ow">in</span> <span class="n">idx</span><span class="p">:</span>
+</span><span id="create_dobs_string-748"><a href="#create_dobs_string-748"><span class="linenos">748</span></a>                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="n">ci</span>
+</span><span id="create_dobs_string-749"><a href="#create_dobs_string-749"><span class="linenos">749</span></a>                <span class="k">for</span> <span class="n">oi</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">)):</span>
+</span><span id="create_dobs_string-750"><a href="#create_dobs_string-750"><span class="linenos">750</span></a>                    <span class="n">o</span> <span class="o">=</span> <span class="n">obsl</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span>
+</span><span id="create_dobs_string-751"><a href="#create_dobs_string-751"><span class="linenos">751</span></a>                    <span class="k">if</span> <span class="n">repname</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">:</span>
+</span><span id="create_dobs_string-752"><a href="#create_dobs_string-752"><span class="linenos">752</span></a>                        <span class="k">if</span> <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="create_dobs_string-753"><a href="#create_dobs_string-753"><span class="linenos">753</span></a>                            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="create_dobs_string-754"><a href="#create_dobs_string-754"><span class="linenos">754</span></a>                            <span class="k">continue</span>
+</span><span id="create_dobs_string-755"><a href="#create_dobs_string-755"><span class="linenos">755</span></a>                        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">repname</span><span class="p">][</span><span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]]</span> <span class="o">==</span> <span class="n">ci</span><span class="p">:</span>
+</span><span id="create_dobs_string-756"><a href="#create_dobs_string-756"><span class="linenos">756</span></a>                            <span class="n">num</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">repname</span><span class="p">][</span><span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]]</span>
+</span><span id="create_dobs_string-757"><a href="#create_dobs_string-757"><span class="linenos">757</span></a>                            <span class="k">if</span> <span class="n">num</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="create_dobs_string-758"><a href="#create_dobs_string-758"><span class="linenos">758</span></a>                                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="create_dobs_string-759"><a href="#create_dobs_string-759"><span class="linenos">759</span></a>                            <span class="k">else</span><span class="p">:</span>
+</span><span id="create_dobs_string-760"><a href="#create_dobs_string-760"><span class="linenos">760</span></a>                                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.16e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">num</span><span class="p">)</span>
+</span><span id="create_dobs_string-761"><a href="#create_dobs_string-761"><span class="linenos">761</span></a>                            <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="create_dobs_string-762"><a href="#create_dobs_string-762"><span class="linenos">762</span></a>                            <span class="k">if</span> <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">&gt;=</span> <span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">repname</span><span class="p">]):</span>
+</span><span id="create_dobs_string-763"><a href="#create_dobs_string-763"><span class="linenos">763</span></a>                                <span class="n">counters</span><span class="p">[</span><span class="n">oi</span><span class="p">]</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
+</span><span id="create_dobs_string-764"><a href="#create_dobs_string-764"><span class="linenos">764</span></a>                        <span class="k">else</span><span class="p">:</span>
+</span><span id="create_dobs_string-765"><a href="#create_dobs_string-765"><span class="linenos">765</span></a>                            <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="create_dobs_string-766"><a href="#create_dobs_string-766"><span class="linenos">766</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="create_dobs_string-767"><a href="#create_dobs_string-767"><span class="linenos">767</span></a>                        <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="create_dobs_string-768"><a href="#create_dobs_string-768"><span class="linenos">768</span></a>                <span class="n">data</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="create_dobs_string-769"><a href="#create_dobs_string-769"><span class="linenos">769</span></a>            <span class="n">ad</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
+</span><span id="create_dobs_string-770"><a href="#create_dobs_string-770"><span class="linenos">770</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ad</span><span class="p">)</span>
+</span><span id="create_dobs_string-771"><a href="#create_dobs_string-771"><span class="linenos">771</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;edata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ed</span><span class="p">)</span>
+</span><span id="create_dobs_string-772"><a href="#create_dobs_string-772"><span class="linenos">772</span></a>
+</span><span id="create_dobs_string-773"><a href="#create_dobs_string-773"><span class="linenos">773</span></a>        <span class="n">allcov</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_dobs_string-774"><a href="#create_dobs_string-774"><span class="linenos">774</span></a>        <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
+</span><span id="create_dobs_string-775"><a href="#create_dobs_string-775"><span class="linenos">775</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="create_dobs_string-776"><a href="#create_dobs_string-776"><span class="linenos">776</span></a>                <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">allcov</span><span class="p">:</span>
+</span><span id="create_dobs_string-777"><a href="#create_dobs_string-777"><span class="linenos">777</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">array_equal</span><span class="p">(</span><span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">):</span>
+</span><span id="create_dobs_string-778"><a href="#create_dobs_string-778"><span class="linenos">778</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Inconsistent covariance matrices for </span><span class="si">%s</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
+</span><span id="create_dobs_string-779"><a href="#create_dobs_string-779"><span class="linenos">779</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="create_dobs_string-780"><a href="#create_dobs_string-780"><span class="linenos">780</span></a>                    <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span>
+</span><span id="create_dobs_string-781"><a href="#create_dobs_string-781"><span class="linenos">781</span></a>        <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_dobs_string-782"><a href="#create_dobs_string-782"><span class="linenos">782</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cov_names</span><span class="p">:</span>
+</span><span id="create_dobs_string-783"><a href="#create_dobs_string-783"><span class="linenos">783</span></a>            <span class="n">cd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_dobs_string-784"><a href="#create_dobs_string-784"><span class="linenos">784</span></a>            <span class="n">cd</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="create_dobs_string-785"><a href="#create_dobs_string-785"><span class="linenos">785</span></a>
+</span><span id="create_dobs_string-786"><a href="#create_dobs_string-786"><span class="linenos">786</span></a>            <span class="n">covd</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;id&#39;</span><span class="p">:</span> <span class="s1">&#39;cov&#39;</span><span class="p">}</span>
+</span><span id="create_dobs_string-787"><a href="#create_dobs_string-787"><span class="linenos">787</span></a>            <span class="k">if</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">():</span>
+</span><span id="create_dobs_string-788"><a href="#create_dobs_string-788"><span class="linenos">788</span></a>                <span class="n">ncov</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="create_dobs_string-789"><a href="#create_dobs_string-789"><span class="linenos">789</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1 1 f&#39;</span>
+</span><span id="create_dobs_string-790"><a href="#create_dobs_string-790"><span class="linenos">790</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%1.14e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="create_dobs_string-791"><a href="#create_dobs_string-791"><span class="linenos">791</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="create_dobs_string-792"><a href="#create_dobs_string-792"><span class="linenos">792</span></a>                <span class="n">shape</span> <span class="o">=</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span>
+</span><span id="create_dobs_string-793"><a href="#create_dobs_string-793"><span class="linenos">793</span></a>                <span class="k">assert</span> <span class="p">(</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">shape</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="create_dobs_string-794"><a href="#create_dobs_string-794"><span class="linenos">794</span></a>                <span class="n">ncov</span> <span class="o">=</span> <span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="create_dobs_string-795"><a href="#create_dobs_string-795"><span class="linenos">795</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> </span><span class="si">%d</span><span class="s1"> f&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ncov</span><span class="p">,</span> <span class="n">ncov</span><span class="p">)</span>
+</span><span id="create_dobs_string-796"><a href="#create_dobs_string-796"><span class="linenos">796</span></a>                <span class="n">ds</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="create_dobs_string-797"><a href="#create_dobs_string-797"><span class="linenos">797</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
+</span><span id="create_dobs_string-798"><a href="#create_dobs_string-798"><span class="linenos">798</span></a>                    <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
+</span><span id="create_dobs_string-799"><a href="#create_dobs_string-799"><span class="linenos">799</span></a>                        <span class="n">val</span> <span class="o">=</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">j</span><span class="p">]</span>
+</span><span id="create_dobs_string-800"><a href="#create_dobs_string-800"><span class="linenos">800</span></a>                        <span class="k">if</span> <span class="n">val</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="create_dobs_string-801"><a href="#create_dobs_string-801"><span class="linenos">801</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="create_dobs_string-802"><a href="#create_dobs_string-802"><span class="linenos">802</span></a>                        <span class="k">else</span><span class="p">:</span>
+</span><span id="create_dobs_string-803"><a href="#create_dobs_string-803"><span class="linenos">803</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.14e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">val</span><span class="p">)</span>
+</span><span id="create_dobs_string-804"><a href="#create_dobs_string-804"><span class="linenos">804</span></a>                    <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span>
+</span><span id="create_dobs_string-805"><a href="#create_dobs_string-805"><span class="linenos">805</span></a>                <span class="n">covd</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ds</span>
+</span><span id="create_dobs_string-806"><a href="#create_dobs_string-806"><span class="linenos">806</span></a>
+</span><span id="create_dobs_string-807"><a href="#create_dobs_string-807"><span class="linenos">807</span></a>            <span class="n">gradd</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;id&#39;</span><span class="p">:</span> <span class="s1">&#39;grad&#39;</span><span class="p">}</span>
+</span><span id="create_dobs_string-808"><a href="#create_dobs_string-808"><span class="linenos">808</span></a>            <span class="n">gradd</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1"> f</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ncov</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsl</span><span class="p">))</span>
+</span><span id="create_dobs_string-809"><a href="#create_dobs_string-809"><span class="linenos">809</span></a>            <span class="n">ds</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="create_dobs_string-810"><a href="#create_dobs_string-810"><span class="linenos">810</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
+</span><span id="create_dobs_string-811"><a href="#create_dobs_string-811"><span class="linenos">811</span></a>                <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obsl</span><span class="p">:</span>
+</span><span id="create_dobs_string-812"><a href="#create_dobs_string-812"><span class="linenos">812</span></a>                    <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">:</span>
+</span><span id="create_dobs_string-813"><a href="#create_dobs_string-813"><span class="linenos">813</span></a>                        <span class="n">val</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="create_dobs_string-814"><a href="#create_dobs_string-814"><span class="linenos">814</span></a>                        <span class="k">if</span> <span class="n">val</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="create_dobs_string-815"><a href="#create_dobs_string-815"><span class="linenos">815</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="si">%1.14e</span><span class="s1"> &#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">val</span><span class="p">)</span>
+</span><span id="create_dobs_string-816"><a href="#create_dobs_string-816"><span class="linenos">816</span></a>                        <span class="k">else</span><span class="p">:</span>
+</span><span id="create_dobs_string-817"><a href="#create_dobs_string-817"><span class="linenos">817</span></a>                            <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="create_dobs_string-818"><a href="#create_dobs_string-818"><span class="linenos">818</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="create_dobs_string-819"><a href="#create_dobs_string-819"><span class="linenos">819</span></a>                        <span class="n">ds</span> <span class="o">+=</span> <span class="s1">&#39;0 &#39;</span>
+</span><span id="create_dobs_string-820"><a href="#create_dobs_string-820"><span class="linenos">820</span></a>            <span class="n">gradd</span><span class="p">[</span><span class="s1">&#39;#data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ds</span>
+</span><span id="create_dobs_string-821"><a href="#create_dobs_string-821"><span class="linenos">821</span></a>            <span class="n">cd</span><span class="p">[</span><span class="s1">&#39;array&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">covd</span><span class="p">,</span> <span class="n">gradd</span><span class="p">]</span>
+</span><span id="create_dobs_string-822"><a href="#create_dobs_string-822"><span class="linenos">822</span></a>            <span class="n">pd</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cd</span><span class="p">)</span>
+</span><span id="create_dobs_string-823"><a href="#create_dobs_string-823"><span class="linenos">823</span></a>
+</span><span id="create_dobs_string-824"><a href="#create_dobs_string-824"><span class="linenos">824</span></a>    <span class="n">rs</span> <span class="o">=</span> <span class="s1">&#39;&lt;?xml version=&quot;1.0&quot; encoding=&quot;utf-8&quot;?&gt;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">_dobsdict_to_xmlstring_spaces</span><span class="p">(</span><span class="n">od</span><span class="p">)</span>
+</span><span id="create_dobs_string-825"><a href="#create_dobs_string-825"><span class="linenos">825</span></a>
+</span><span id="create_dobs_string-826"><a href="#create_dobs_string-826"><span class="linenos">826</span></a>    <span class="k">return</span> <span class="n">rs</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Generate the string for the export of a list of Obs or structures containing Obs
 to a .xml.gz file according to the Zeuthen dobs format.</p>
@@ -1827,74 +1805,64 @@ Otherwise, the ensemble name is used.</li>
 
                 </section>
                 <section id="write_dobs">
-                            <div class="attr function"><a class="headerlink" href="#write_dobs">#&nbsp;&nbsp</a>
+                            <input id="write_dobs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">write_dobs</span><span class="signature pdoc-code multiline">(<span class="param">	<span class="n">obsl</span>,</span><span class="param">	<span class="n">fname</span>,</span><span class="param">	<span class="n">name</span>,</span><span class="param">	<span class="n">spec</span><span class="o">=</span><span class="s1">&#39;dobs v1.0&#39;</span>,</span><span class="param">	<span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span>,</span><span class="param">	<span class="n">symbol</span><span class="o">=</span><span class="p">[]</span>,</span><span class="param">	<span class="n">who</span><span class="o">=</span><span class="kc">None</span>,</span><span class="param">	<span class="n">enstags</span><span class="o">=</span><span class="p">{}</span>,</span><span class="param">	<span class="n">gz</span><span class="o">=</span><span class="kc">True</span></span>)</span>
+
+                <label class="view-source-button" for="write_dobs-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">write_dobs</span><span class="signature">(
-    obsl,
-    fname,
-    name,
-    spec=&#39;dobs v1.0&#39;,
-    origin=&#39;&#39;,
-    symbol=[],
-    who=None,
-    enstags={},
-    gz=True
-)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="write_dobs-828"><a href="#write_dobs-828"><span class="linenos">828</span></a><span class="k">def</span> <span class="nf">write_dobs</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;dobs v1.0&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">who</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">enstags</span><span class="o">=</span><span class="p">{},</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="write_dobs-829"><a href="#write_dobs-829"><span class="linenos">829</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to a .xml.gz file</span>
-</span><span id="write_dobs-830"><a href="#write_dobs-830"><span class="linenos">830</span></a><span class="sd">    according to the Zeuthen dobs format.</span>
-</span><span id="write_dobs-831"><a href="#write_dobs-831"><span class="linenos">831</span></a>
-</span><span id="write_dobs-832"><a href="#write_dobs-832"><span class="linenos">832</span></a><span class="sd">    Tags are not written or recovered automatically. The separator | is removed from the replica names.</span>
-</span><span id="write_dobs-833"><a href="#write_dobs-833"><span class="linenos">833</span></a>
-</span><span id="write_dobs-834"><a href="#write_dobs-834"><span class="linenos">834</span></a><span class="sd">    Parameters</span>
-</span><span id="write_dobs-835"><a href="#write_dobs-835"><span class="linenos">835</span></a><span class="sd">    ----------</span>
-</span><span id="write_dobs-836"><a href="#write_dobs-836"><span class="linenos">836</span></a><span class="sd">    obsl : list</span>
-</span><span id="write_dobs-837"><a href="#write_dobs-837"><span class="linenos">837</span></a><span class="sd">        List of Obs that will be exported.</span>
-</span><span id="write_dobs-838"><a href="#write_dobs-838"><span class="linenos">838</span></a><span class="sd">        The Obs inside a structure do not have to be defined on the same set of configurations,</span>
-</span><span id="write_dobs-839"><a href="#write_dobs-839"><span class="linenos">839</span></a><span class="sd">        but the storage requirement is increased, if this is not the case.</span>
-</span><span id="write_dobs-840"><a href="#write_dobs-840"><span class="linenos">840</span></a><span class="sd">    fname : str</span>
-</span><span id="write_dobs-841"><a href="#write_dobs-841"><span class="linenos">841</span></a><span class="sd">        Filename of the output file.</span>
-</span><span id="write_dobs-842"><a href="#write_dobs-842"><span class="linenos">842</span></a><span class="sd">    name : str</span>
-</span><span id="write_dobs-843"><a href="#write_dobs-843"><span class="linenos">843</span></a><span class="sd">        The name of the observable.</span>
-</span><span id="write_dobs-844"><a href="#write_dobs-844"><span class="linenos">844</span></a><span class="sd">    spec : str</span>
-</span><span id="write_dobs-845"><a href="#write_dobs-845"><span class="linenos">845</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
-</span><span id="write_dobs-846"><a href="#write_dobs-846"><span class="linenos">846</span></a><span class="sd">    origin : str</span>
-</span><span id="write_dobs-847"><a href="#write_dobs-847"><span class="linenos">847</span></a><span class="sd">        Specify where the data has its origin.</span>
-</span><span id="write_dobs-848"><a href="#write_dobs-848"><span class="linenos">848</span></a><span class="sd">    symbol : list</span>
-</span><span id="write_dobs-849"><a href="#write_dobs-849"><span class="linenos">849</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
-</span><span id="write_dobs-850"><a href="#write_dobs-850"><span class="linenos">850</span></a><span class="sd">    who : str</span>
-</span><span id="write_dobs-851"><a href="#write_dobs-851"><span class="linenos">851</span></a><span class="sd">        Provide the name of the person that exports the data.</span>
-</span><span id="write_dobs-852"><a href="#write_dobs-852"><span class="linenos">852</span></a><span class="sd">    enstags : dict</span>
-</span><span id="write_dobs-853"><a href="#write_dobs-853"><span class="linenos">853</span></a><span class="sd">        Provide alternative enstag for ensembles in the form enstags = {ename: enstag}</span>
-</span><span id="write_dobs-854"><a href="#write_dobs-854"><span class="linenos">854</span></a><span class="sd">        Otherwise, the ensemble name is used.</span>
-</span><span id="write_dobs-855"><a href="#write_dobs-855"><span class="linenos">855</span></a><span class="sd">    gz : bool</span>
-</span><span id="write_dobs-856"><a href="#write_dobs-856"><span class="linenos">856</span></a><span class="sd">        If True, the output is a gzipped XML. If False, the output is a XML file.</span>
-</span><span id="write_dobs-857"><a href="#write_dobs-857"><span class="linenos">857</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="write_dobs-858"><a href="#write_dobs-858"><span class="linenos">858</span></a>
-</span><span id="write_dobs-859"><a href="#write_dobs-859"><span class="linenos">859</span></a>    <span class="n">dobsstring</span> <span class="o">=</span> <span class="n">create_dobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="p">,</span> <span class="n">origin</span><span class="p">,</span> <span class="n">symbol</span><span class="p">,</span> <span class="n">who</span><span class="p">,</span> <span class="n">enstags</span><span class="o">=</span><span class="n">enstags</span><span class="p">)</span>
-</span><span id="write_dobs-860"><a href="#write_dobs-860"><span class="linenos">860</span></a>
-</span><span id="write_dobs-861"><a href="#write_dobs-861"><span class="linenos">861</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="write_dobs-862"><a href="#write_dobs-862"><span class="linenos">862</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
-</span><span id="write_dobs-863"><a href="#write_dobs-863"><span class="linenos">863</span></a>
-</span><span id="write_dobs-864"><a href="#write_dobs-864"><span class="linenos">864</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
-</span><span id="write_dobs-865"><a href="#write_dobs-865"><span class="linenos">865</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="write_dobs-866"><a href="#write_dobs-866"><span class="linenos">866</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
-</span><span id="write_dobs-867"><a href="#write_dobs-867"><span class="linenos">867</span></a>
-</span><span id="write_dobs-868"><a href="#write_dobs-868"><span class="linenos">868</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
-</span><span id="write_dobs-869"><a href="#write_dobs-869"><span class="linenos">869</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">dobsstring</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span>
-</span><span id="write_dobs-870"><a href="#write_dobs-870"><span class="linenos">870</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="write_dobs-871"><a href="#write_dobs-871"><span class="linenos">871</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="write_dobs-872"><a href="#write_dobs-872"><span class="linenos">872</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">dobsstring</span><span class="p">)</span>
-</span><span id="write_dobs-873"><a href="#write_dobs-873"><span class="linenos">873</span></a>    <span class="n">fp</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+    <a class="headerlink" href="#write_dobs"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="write_dobs-829"><a href="#write_dobs-829"><span class="linenos">829</span></a><span class="k">def</span> <span class="nf">write_dobs</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="o">=</span><span class="s1">&#39;dobs v1.0&#39;</span><span class="p">,</span> <span class="n">origin</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">symbol</span><span class="o">=</span><span class="p">[],</span> <span class="n">who</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">enstags</span><span class="o">=</span><span class="p">{},</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="write_dobs-830"><a href="#write_dobs-830"><span class="linenos">830</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to a .xml.gz file</span>
+</span><span id="write_dobs-831"><a href="#write_dobs-831"><span class="linenos">831</span></a><span class="sd">    according to the Zeuthen dobs format.</span>
+</span><span id="write_dobs-832"><a href="#write_dobs-832"><span class="linenos">832</span></a>
+</span><span id="write_dobs-833"><a href="#write_dobs-833"><span class="linenos">833</span></a><span class="sd">    Tags are not written or recovered automatically. The separator | is removed from the replica names.</span>
+</span><span id="write_dobs-834"><a href="#write_dobs-834"><span class="linenos">834</span></a>
+</span><span id="write_dobs-835"><a href="#write_dobs-835"><span class="linenos">835</span></a><span class="sd">    Parameters</span>
+</span><span id="write_dobs-836"><a href="#write_dobs-836"><span class="linenos">836</span></a><span class="sd">    ----------</span>
+</span><span id="write_dobs-837"><a href="#write_dobs-837"><span class="linenos">837</span></a><span class="sd">    obsl : list</span>
+</span><span id="write_dobs-838"><a href="#write_dobs-838"><span class="linenos">838</span></a><span class="sd">        List of Obs that will be exported.</span>
+</span><span id="write_dobs-839"><a href="#write_dobs-839"><span class="linenos">839</span></a><span class="sd">        The Obs inside a structure do not have to be defined on the same set of configurations,</span>
+</span><span id="write_dobs-840"><a href="#write_dobs-840"><span class="linenos">840</span></a><span class="sd">        but the storage requirement is increased, if this is not the case.</span>
+</span><span id="write_dobs-841"><a href="#write_dobs-841"><span class="linenos">841</span></a><span class="sd">    fname : str</span>
+</span><span id="write_dobs-842"><a href="#write_dobs-842"><span class="linenos">842</span></a><span class="sd">        Filename of the output file.</span>
+</span><span id="write_dobs-843"><a href="#write_dobs-843"><span class="linenos">843</span></a><span class="sd">    name : str</span>
+</span><span id="write_dobs-844"><a href="#write_dobs-844"><span class="linenos">844</span></a><span class="sd">        The name of the observable.</span>
+</span><span id="write_dobs-845"><a href="#write_dobs-845"><span class="linenos">845</span></a><span class="sd">    spec : str</span>
+</span><span id="write_dobs-846"><a href="#write_dobs-846"><span class="linenos">846</span></a><span class="sd">        Optional string that describes the contents of the file.</span>
+</span><span id="write_dobs-847"><a href="#write_dobs-847"><span class="linenos">847</span></a><span class="sd">    origin : str</span>
+</span><span id="write_dobs-848"><a href="#write_dobs-848"><span class="linenos">848</span></a><span class="sd">        Specify where the data has its origin.</span>
+</span><span id="write_dobs-849"><a href="#write_dobs-849"><span class="linenos">849</span></a><span class="sd">    symbol : list</span>
+</span><span id="write_dobs-850"><a href="#write_dobs-850"><span class="linenos">850</span></a><span class="sd">        A list of symbols that describe the observables to be written. May be empty.</span>
+</span><span id="write_dobs-851"><a href="#write_dobs-851"><span class="linenos">851</span></a><span class="sd">    who : str</span>
+</span><span id="write_dobs-852"><a href="#write_dobs-852"><span class="linenos">852</span></a><span class="sd">        Provide the name of the person that exports the data.</span>
+</span><span id="write_dobs-853"><a href="#write_dobs-853"><span class="linenos">853</span></a><span class="sd">    enstags : dict</span>
+</span><span id="write_dobs-854"><a href="#write_dobs-854"><span class="linenos">854</span></a><span class="sd">        Provide alternative enstag for ensembles in the form enstags = {ename: enstag}</span>
+</span><span id="write_dobs-855"><a href="#write_dobs-855"><span class="linenos">855</span></a><span class="sd">        Otherwise, the ensemble name is used.</span>
+</span><span id="write_dobs-856"><a href="#write_dobs-856"><span class="linenos">856</span></a><span class="sd">    gz : bool</span>
+</span><span id="write_dobs-857"><a href="#write_dobs-857"><span class="linenos">857</span></a><span class="sd">        If True, the output is a gzipped XML. If False, the output is a XML file.</span>
+</span><span id="write_dobs-858"><a href="#write_dobs-858"><span class="linenos">858</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="write_dobs-859"><a href="#write_dobs-859"><span class="linenos">859</span></a>
+</span><span id="write_dobs-860"><a href="#write_dobs-860"><span class="linenos">860</span></a>    <span class="n">dobsstring</span> <span class="o">=</span> <span class="n">create_dobs_string</span><span class="p">(</span><span class="n">obsl</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">spec</span><span class="p">,</span> <span class="n">origin</span><span class="p">,</span> <span class="n">symbol</span><span class="p">,</span> <span class="n">who</span><span class="p">,</span> <span class="n">enstags</span><span class="o">=</span><span class="n">enstags</span><span class="p">)</span>
+</span><span id="write_dobs-861"><a href="#write_dobs-861"><span class="linenos">861</span></a>
+</span><span id="write_dobs-862"><a href="#write_dobs-862"><span class="linenos">862</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.xml&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="write_dobs-863"><a href="#write_dobs-863"><span class="linenos">863</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.xml&#39;</span>
+</span><span id="write_dobs-864"><a href="#write_dobs-864"><span class="linenos">864</span></a>
+</span><span id="write_dobs-865"><a href="#write_dobs-865"><span class="linenos">865</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
+</span><span id="write_dobs-866"><a href="#write_dobs-866"><span class="linenos">866</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="write_dobs-867"><a href="#write_dobs-867"><span class="linenos">867</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
+</span><span id="write_dobs-868"><a href="#write_dobs-868"><span class="linenos">868</span></a>
+</span><span id="write_dobs-869"><a href="#write_dobs-869"><span class="linenos">869</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
+</span><span id="write_dobs-870"><a href="#write_dobs-870"><span class="linenos">870</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">dobsstring</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span>
+</span><span id="write_dobs-871"><a href="#write_dobs-871"><span class="linenos">871</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="write_dobs-872"><a href="#write_dobs-872"><span class="linenos">872</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="write_dobs-873"><a href="#write_dobs-873"><span class="linenos">873</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">dobsstring</span><span class="p">)</span>
+</span><span id="write_dobs-874"><a href="#write_dobs-874"><span class="linenos">874</span></a>    <span class="n">fp</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Export a list of Obs or structures containing Obs to a .xml.gz file
 according to the Zeuthen dobs format.</p>
diff --git a/docs/pyerrors/input/hadrons.html b/docs/pyerrors/input/hadrons.html
index fa8fca0e..0225d595 100644
--- a/docs/pyerrors/input/hadrons.html
+++ b/docs/pyerrors/input/hadrons.html
@@ -3,14 +3,14 @@
 <head>
     <meta charset="utf-8">
     <meta name="viewport" content="width=device-width, initial-scale=1">
-    <meta name="generator" content="pdoc 11.2.0"/>
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     <title>pyerrors.input.hadrons API documentation</title>
 
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@@ -88,426 +88,427 @@
 <a href="./../../pyerrors.html">pyerrors</a><wbr>.<a href="./../input.html">input</a><wbr>.hadrons    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">  0</span></a><span class="kn">import</span> <span class="nn">os</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">warnings</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">from</span> <span class="nn">collections</span> <span class="kn">import</span> <span class="n">Counter</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">h5py</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="kn">from</span> <span class="nn">..correlators</span> <span class="kn">import</span> <span class="n">Corr</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="kn">from</span> <span class="nn">..dirac</span> <span class="kn">import</span> <span class="n">epsilon_tensor_rank4</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a>
+                        <input id="hadrons-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="hadrons-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">os</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">warnings</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">from</span> <span class="nn">collections</span> <span class="kn">import</span> <span class="n">Counter</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">h5py</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span><span class="p">,</span> <span class="n">CObs</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="kn">from</span> <span class="nn">..correlators</span> <span class="kn">import</span> <span class="n">Corr</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="kn">from</span> <span class="nn">..dirac</span> <span class="kn">import</span> <span class="n">epsilon_tensor_rank4</span>
 </span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a>
-</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="k">def</span> <span class="nf">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">listdir</span><span class="p">(</span><span class="n">path</span><span class="p">)</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a>
-</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a>    <span class="c1"># Clean up file list</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a>    <span class="n">files</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">filestem</span> <span class="o">+</span> <span class="s2">&quot;.&quot;</span><span class="p">),</span> <span class="n">ls</span><span class="p">))</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a>
-</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">files</span><span class="p">:</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No files starting with&#39;</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="s1">&#39;in folder&#39;</span><span class="p">,</span> <span class="n">path</span><span class="p">)</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a>
-</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>    <span class="k">def</span> <span class="nf">get_cnfg_number</span><span class="p">(</span><span class="n">n</span><span class="p">):</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a>        <span class="k">return</span> <span class="nb">int</span><span class="p">(</span><span class="n">n</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s2">&quot;.h5&quot;</span><span class="p">,</span> <span class="s2">&quot;&quot;</span><span class="p">)[</span><span class="nb">len</span><span class="p">(</span><span class="n">filestem</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:])</span>  <span class="c1"># From python 3.9 onward the safer &#39;removesuffix&#39; method can be used.</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a>
-</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>    <span class="c1"># Sort according to configuration number</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>    <span class="n">files</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="n">get_cnfg_number</span><span class="p">)</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>
-</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>    <span class="n">cnfg_numbers</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>    <span class="n">filtered_files</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>    <span class="k">for</span> <span class="n">line</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>        <span class="n">no</span> <span class="o">=</span> <span class="n">get_cnfg_number</span><span class="p">(</span><span class="n">line</span><span class="p">)</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>        <span class="k">if</span> <span class="n">idl</span><span class="p">:</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>            <span class="k">if</span> <span class="n">no</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">idl</span><span class="p">):</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>                <span class="n">filtered_files</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">line</span><span class="p">)</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>                <span class="n">cnfg_numbers</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">no</span><span class="p">)</span>
-</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>            <span class="n">filtered_files</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">line</span><span class="p">)</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>            <span class="n">cnfg_numbers</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">no</span><span class="p">)</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>
-</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>    <span class="k">if</span> <span class="n">idl</span><span class="p">:</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>        <span class="k">if</span> <span class="n">Counter</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">idl</span><span class="p">))</span> <span class="o">!=</span> <span class="n">Counter</span><span class="p">(</span><span class="n">cnfg_numbers</span><span class="p">):</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Not all configurations specified in idl found, configurations &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">Counter</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">idl</span><span class="p">))</span> <span class="o">-</span> <span class="n">Counter</span><span class="p">(</span><span class="n">cnfg_numbers</span><span class="p">)))</span> <span class="o">+</span> <span class="s2">&quot; are missing.&quot;</span><span class="p">)</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>
-</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>    <span class="c1"># Check that configurations are evenly spaced</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>    <span class="n">dc</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cnfg_numbers</span><span class="p">))</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">dc</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">):</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsorted files&quot;</span><span class="p">)</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">dc</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>        <span class="n">idx</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">cnfg_numbers</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">cnfg_numbers</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>    <span class="k">elif</span> <span class="n">idl</span><span class="p">:</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>        <span class="n">idx</span> <span class="o">=</span> <span class="n">idl</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Configurations are not evenly spaced.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Configurations are not evenly spaced.&quot;</span><span class="p">)</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>
-</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>    <span class="k">return</span> <span class="n">filtered_files</span><span class="p">,</span> <span class="n">idx</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>
+</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a>
+</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="k">def</span> <span class="nf">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">listdir</span><span class="p">(</span><span class="n">path</span><span class="p">)</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a>
+</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a>    <span class="c1"># Clean up file list</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a>    <span class="n">files</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">filestem</span> <span class="o">+</span> <span class="s2">&quot;.&quot;</span><span class="p">),</span> <span class="n">ls</span><span class="p">))</span>
+</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a>
+</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">files</span><span class="p">:</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No files starting with&#39;</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="s1">&#39;in folder&#39;</span><span class="p">,</span> <span class="n">path</span><span class="p">)</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>
+</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a>    <span class="k">def</span> <span class="nf">get_cnfg_number</span><span class="p">(</span><span class="n">n</span><span class="p">):</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a>        <span class="k">return</span> <span class="nb">int</span><span class="p">(</span><span class="n">n</span><span class="o">.</span><span class="n">replace</span><span class="p">(</span><span class="s2">&quot;.h5&quot;</span><span class="p">,</span> <span class="s2">&quot;&quot;</span><span class="p">)[</span><span class="nb">len</span><span class="p">(</span><span class="n">filestem</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:])</span>  <span class="c1"># From python 3.9 onward the safer &#39;removesuffix&#39; method can be used.</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>
+</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>    <span class="c1"># Sort according to configuration number</span>
+</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>    <span class="n">files</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="n">get_cnfg_number</span><span class="p">)</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>
+</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>    <span class="n">cnfg_numbers</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>    <span class="n">filtered_files</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>    <span class="k">for</span> <span class="n">line</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>        <span class="n">no</span> <span class="o">=</span> <span class="n">get_cnfg_number</span><span class="p">(</span><span class="n">line</span><span class="p">)</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>        <span class="k">if</span> <span class="n">idl</span><span class="p">:</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>            <span class="k">if</span> <span class="n">no</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">idl</span><span class="p">):</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>                <span class="n">filtered_files</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">line</span><span class="p">)</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>                <span class="n">cnfg_numbers</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">no</span><span class="p">)</span>
+</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>            <span class="n">filtered_files</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">line</span><span class="p">)</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>            <span class="n">cnfg_numbers</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">no</span><span class="p">)</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>
+</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>    <span class="k">if</span> <span class="n">idl</span><span class="p">:</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>        <span class="k">if</span> <span class="n">Counter</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">idl</span><span class="p">))</span> <span class="o">!=</span> <span class="n">Counter</span><span class="p">(</span><span class="n">cnfg_numbers</span><span class="p">):</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Not all configurations specified in idl found, configurations &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">Counter</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="n">idl</span><span class="p">))</span> <span class="o">-</span> <span class="n">Counter</span><span class="p">(</span><span class="n">cnfg_numbers</span><span class="p">)))</span> <span class="o">+</span> <span class="s2">&quot; are missing.&quot;</span><span class="p">)</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>
+</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>    <span class="c1"># Check that configurations are evenly spaced</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>    <span class="n">dc</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cnfg_numbers</span><span class="p">))</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">dc</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">):</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsorted files&quot;</span><span class="p">)</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">dc</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>        <span class="n">idx</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">cnfg_numbers</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">cnfg_numbers</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>    <span class="k">elif</span> <span class="n">idl</span><span class="p">:</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>        <span class="n">idx</span> <span class="o">=</span> <span class="n">idl</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Configurations are not evenly spaced.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Configurations are not evenly spaced.&quot;</span><span class="p">)</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>
+</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>    <span class="k">return</span> <span class="n">filtered_files</span><span class="p">,</span> <span class="n">idx</span>
 </span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>
-</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a><span class="k">def</span> <span class="nf">read_meson_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">meson</span><span class="o">=</span><span class="s1">&#39;meson_0&#39;</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons meson hdf5 file and extract the meson labeled &#39;meson&#39;</span>
-</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>
-</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a><span class="sd">    Parameters</span>
-</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a><span class="sd">    -----------------</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a><span class="sd">    path : str</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a><span class="sd">        path to the files to read</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a><span class="sd">    filestem : str</span>
-</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a><span class="sd">        namestem of the files to read</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a><span class="sd">    ens_id : str</span>
-</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a><span class="sd">    meson : str</span>
-</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a><span class="sd">        label of the meson to be extracted, standard value meson_0 which</span>
-</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a><span class="sd">        corresponds to the pseudoscalar pseudoscalar two-point function.</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a><span class="sd">    idl : range</span>
-</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>
-</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>
-</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>    <span class="n">tree</span> <span class="o">=</span> <span class="n">meson</span><span class="o">.</span><span class="n">rsplit</span><span class="p">(</span><span class="s1">&#39;_&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>    <span class="n">infos</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>        <span class="n">h5file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">tree</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">meson</span> <span class="ow">in</span> <span class="n">h5file</span><span class="p">:</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Entry &#39;&quot;</span> <span class="o">+</span> <span class="n">meson</span> <span class="o">+</span> <span class="s2">&quot;&#39; not contained in the files.&quot;</span><span class="p">)</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>        <span class="n">raw_data</span> <span class="o">=</span> <span class="n">h5file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">meson</span> <span class="o">+</span> <span class="s1">&#39;/corr&#39;</span><span class="p">]</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>        <span class="n">real_data</span> <span class="o">=</span> <span class="n">raw_data</span><span class="p">[:][</span><span class="s2">&quot;re&quot;</span><span class="p">]</span><span class="o">.</span><span class="n">astype</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">double</span><span class="p">)</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>        <span class="n">corr_data</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">real_data</span><span class="p">)</span>
-</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">infos</span><span class="p">:</span>
-</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>            <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">h5file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">meson</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>                <span class="n">infos</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">k</span> <span class="o">+</span> <span class="s1">&#39;: &#39;</span> <span class="o">+</span> <span class="n">i</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">())</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>        <span class="n">h5file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">)</span>
-</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>
-</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>    <span class="n">l_obs</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>        <span class="n">l_obs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="n">c</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">]))</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>
-</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>    <span class="n">corr</span> <span class="o">=</span> <span class="n">Corr</span><span class="p">(</span><span class="n">l_obs</span><span class="p">)</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>    <span class="n">corr</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="sa">r</span><span class="s2">&quot;, &quot;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">infos</span><span class="p">)</span>
-</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>    <span class="k">return</span> <span class="n">corr</span>
-</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>
+</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>
+</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a><span class="k">def</span> <span class="nf">read_meson_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">meson</span><span class="o">=</span><span class="s1">&#39;meson_0&#39;</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons meson hdf5 file and extract the meson labeled &#39;meson&#39;</span>
+</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>
+</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a><span class="sd">    Parameters</span>
+</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a><span class="sd">    -----------------</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a><span class="sd">    path : str</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a><span class="sd">        path to the files to read</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a><span class="sd">    filestem : str</span>
+</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a><span class="sd">        namestem of the files to read</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a><span class="sd">    ens_id : str</span>
+</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
+</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a><span class="sd">    meson : str</span>
+</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a><span class="sd">        label of the meson to be extracted, standard value meson_0 which</span>
+</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a><span class="sd">        corresponds to the pseudoscalar pseudoscalar two-point function.</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a><span class="sd">    idl : range</span>
+</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>
+</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>
+</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>    <span class="n">tree</span> <span class="o">=</span> <span class="n">meson</span><span class="o">.</span><span class="n">rsplit</span><span class="p">(</span><span class="s1">&#39;_&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>    <span class="n">infos</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>        <span class="n">h5file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">tree</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">meson</span> <span class="ow">in</span> <span class="n">h5file</span><span class="p">:</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Entry &#39;&quot;</span> <span class="o">+</span> <span class="n">meson</span> <span class="o">+</span> <span class="s2">&quot;&#39; not contained in the files.&quot;</span><span class="p">)</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>        <span class="n">raw_data</span> <span class="o">=</span> <span class="n">h5file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">meson</span> <span class="o">+</span> <span class="s1">&#39;/corr&#39;</span><span class="p">]</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>        <span class="n">real_data</span> <span class="o">=</span> <span class="n">raw_data</span><span class="p">[:][</span><span class="s2">&quot;re&quot;</span><span class="p">]</span><span class="o">.</span><span class="n">astype</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">double</span><span class="p">)</span>
+</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>        <span class="n">corr_data</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">real_data</span><span class="p">)</span>
+</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">infos</span><span class="p">:</span>
+</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>            <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">h5file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">meson</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>                <span class="n">infos</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">k</span> <span class="o">+</span> <span class="s1">&#39;: &#39;</span> <span class="o">+</span> <span class="n">i</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">())</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>        <span class="n">h5file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">)</span>
+</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>
+</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>    <span class="n">l_obs</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>        <span class="n">l_obs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="n">c</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">]))</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>
+</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>    <span class="n">corr</span> <span class="o">=</span> <span class="n">Corr</span><span class="p">(</span><span class="n">l_obs</span><span class="p">)</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>    <span class="n">corr</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="sa">r</span><span class="s2">&quot;, &quot;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">infos</span><span class="p">)</span>
+</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>    <span class="k">return</span> <span class="n">corr</span>
 </span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>
-</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a><span class="k">class</span> <span class="nc">Npr_matrix</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>
-</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>    <span class="k">def</span> <span class="fm">__new__</span><span class="p">(</span><span class="bp">cls</span><span class="p">,</span> <span class="n">input_array</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">mom_out</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>        <span class="n">obj</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">input_array</span><span class="p">)</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="bp">cls</span><span class="p">)</span>
-</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>        <span class="n">obj</span><span class="o">.</span><span class="n">mom_in</span> <span class="o">=</span> <span class="n">mom_in</span>
-</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>        <span class="n">obj</span><span class="o">.</span><span class="n">mom_out</span> <span class="o">=</span> <span class="n">mom_out</span>
-</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>        <span class="k">return</span> <span class="n">obj</span>
-</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>
-</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>    <span class="nd">@property</span>
-</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>    <span class="k">def</span> <span class="nf">g5H</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>        <span class="sd">&quot;&quot;&quot;Gamma_5 hermitean conjugate</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>
-</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a><span class="sd">        Uses the fact that the propagator is gamma5 hermitean, so just the</span>
-</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a><span class="sd">        in and out momenta of the propagator are exchanged.</span>
-</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>        <span class="k">return</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span>
-</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>                          <span class="n">mom_in</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">mom_out</span><span class="p">,</span>
-</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>                          <span class="n">mom_out</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">mom_in</span><span class="p">)</span>
-</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>
-</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>    <span class="k">def</span> <span class="nf">_propagate_mom</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">,</span> <span class="n">name</span><span class="p">):</span>
-</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>        <span class="n">s_mom</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>        <span class="n">o_mom</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>        <span class="k">if</span> <span class="n">s_mom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="ow">and</span> <span class="n">o_mom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="n">s_mom</span><span class="p">,</span> <span class="n">o_mom</span><span class="p">):</span>
-</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="n">name</span> <span class="o">+</span> <span class="s1">&#39; does not match.&#39;</span><span class="p">)</span>
-</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>        <span class="k">return</span> <span class="n">o_mom</span> <span class="k">if</span> <span class="n">o_mom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">s_mom</span>
-</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>
-</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>    <span class="k">def</span> <span class="fm">__matmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="fm">__new__</span><span class="p">(</span><span class="n">Npr_matrix</span><span class="p">,</span>
-</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>                            <span class="nb">super</span><span class="p">()</span><span class="o">.</span><span class="fm">__matmul__</span><span class="p">(</span><span class="n">other</span><span class="p">),</span>
-</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">_propagate_mom</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;mom_in&#39;</span><span class="p">),</span>
-</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">_propagate_mom</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;mom_out&#39;</span><span class="p">))</span>
-</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>
-</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>    <span class="k">def</span> <span class="nf">__array_finalize__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">obj</span><span class="p">):</span>
-</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>        <span class="k">if</span> <span class="n">obj</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>            <span class="k">return</span>
-</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">mom_in</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="s1">&#39;mom_in&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">mom_out</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="s1">&#39;mom_out&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>
+</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>
+</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a><span class="k">class</span> <span class="nc">Npr_matrix</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>
+</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>    <span class="k">def</span> <span class="fm">__new__</span><span class="p">(</span><span class="bp">cls</span><span class="p">,</span> <span class="n">input_array</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">mom_out</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>        <span class="n">obj</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">input_array</span><span class="p">)</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="bp">cls</span><span class="p">)</span>
+</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>        <span class="n">obj</span><span class="o">.</span><span class="n">mom_in</span> <span class="o">=</span> <span class="n">mom_in</span>
+</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>        <span class="n">obj</span><span class="o">.</span><span class="n">mom_out</span> <span class="o">=</span> <span class="n">mom_out</span>
+</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>        <span class="k">return</span> <span class="n">obj</span>
+</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>
+</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>    <span class="nd">@property</span>
+</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>    <span class="k">def</span> <span class="nf">g5H</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>        <span class="sd">&quot;&quot;&quot;Gamma_5 hermitean conjugate</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>
+</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a><span class="sd">        Uses the fact that the propagator is gamma5 hermitean, so just the</span>
+</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a><span class="sd">        in and out momenta of the propagator are exchanged.</span>
+</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>        <span class="k">return</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span>
+</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>                          <span class="n">mom_in</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">mom_out</span><span class="p">,</span>
+</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>                          <span class="n">mom_out</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">mom_in</span><span class="p">)</span>
+</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>
+</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>    <span class="k">def</span> <span class="nf">_propagate_mom</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">,</span> <span class="n">name</span><span class="p">):</span>
+</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>        <span class="n">s_mom</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>        <span class="n">o_mom</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>        <span class="k">if</span> <span class="n">s_mom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="ow">and</span> <span class="n">o_mom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="n">s_mom</span><span class="p">,</span> <span class="n">o_mom</span><span class="p">):</span>
+</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="n">name</span> <span class="o">+</span> <span class="s1">&#39; does not match.&#39;</span><span class="p">)</span>
+</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>        <span class="k">return</span> <span class="n">o_mom</span> <span class="k">if</span> <span class="n">o_mom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">s_mom</span>
+</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>
+</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>    <span class="k">def</span> <span class="fm">__matmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="fm">__new__</span><span class="p">(</span><span class="n">Npr_matrix</span><span class="p">,</span>
+</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>                            <span class="nb">super</span><span class="p">()</span><span class="o">.</span><span class="fm">__matmul__</span><span class="p">(</span><span class="n">other</span><span class="p">),</span>
+</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">_propagate_mom</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;mom_in&#39;</span><span class="p">),</span>
+</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">_propagate_mom</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;mom_out&#39;</span><span class="p">))</span>
+</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>
+</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>    <span class="k">def</span> <span class="nf">__array_finalize__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">obj</span><span class="p">):</span>
+</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>        <span class="k">if</span> <span class="n">obj</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>            <span class="k">return</span>
+</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">mom_in</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="s1">&#39;mom_in&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">mom_out</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="s1">&#39;mom_out&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
 </span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>
-</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a><span class="k">def</span> <span class="nf">read_ExternalLeg_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons ExternalLeg hdf5 file and output an array of CObs</span>
-</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>
-</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a><span class="sd">    Parameters</span>
-</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a><span class="sd">    ----------</span>
-</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a><span class="sd">    path : str</span>
-</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a><span class="sd">        path to the files to read</span>
-</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a><span class="sd">    filestem : str</span>
-</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a><span class="sd">        namestem of the files to read</span>
-</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a><span class="sd">    ens_id : str</span>
-</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
-</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a><span class="sd">    idl : range</span>
-</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
-</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>
-</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>
-</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>    <span class="n">mom</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>
-</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
-</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>        <span class="n">file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>        <span class="n">raw_data</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="s1">&#39;ExternalLeg/corr&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="s1">&#39;complex&#39;</span><span class="p">)</span>
-</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>        <span class="n">corr_data</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">raw_data</span><span class="p">)</span>
-</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>        <span class="k">if</span> <span class="n">mom</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>            <span class="n">mom</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="s1">&#39;ExternalLeg/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pIn&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
-</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">)</span>
-</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>
-</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>    <span class="n">rolled_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">rollaxis</span><span class="p">(</span><span class="n">corr_data</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">5</span><span class="p">)</span>
-</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>
-</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>    <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>    <span class="k">for</span> <span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>        <span class="n">real</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
-</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>        <span class="n">imag</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
-</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>        <span class="n">matrix</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="p">)</span>
-</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>
-</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>    <span class="k">return</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="n">mom</span><span class="p">)</span>
-</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>
+</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>
+</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a><span class="k">def</span> <span class="nf">read_ExternalLeg_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons ExternalLeg hdf5 file and output an array of CObs</span>
+</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>
+</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a><span class="sd">    Parameters</span>
+</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a><span class="sd">    ----------</span>
+</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a><span class="sd">    path : str</span>
+</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a><span class="sd">        path to the files to read</span>
+</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a><span class="sd">    filestem : str</span>
+</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a><span class="sd">        namestem of the files to read</span>
+</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a><span class="sd">    ens_id : str</span>
+</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
+</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a><span class="sd">    idl : range</span>
+</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
+</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>
+</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>
+</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>    <span class="n">mom</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>
+</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
+</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>        <span class="n">file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>        <span class="n">raw_data</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="s1">&#39;ExternalLeg/corr&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="s1">&#39;complex&#39;</span><span class="p">)</span>
+</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>        <span class="n">corr_data</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">raw_data</span><span class="p">)</span>
+</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>        <span class="k">if</span> <span class="n">mom</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>            <span class="n">mom</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="s1">&#39;ExternalLeg/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pIn&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
+</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">)</span>
+</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>
+</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>    <span class="n">rolled_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">rollaxis</span><span class="p">(</span><span class="n">corr_data</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">5</span><span class="p">)</span>
+</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>
+</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>    <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>    <span class="k">for</span> <span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>        <span class="n">real</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
+</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>        <span class="n">imag</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
+</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>        <span class="n">matrix</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="p">)</span>
+</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>
+</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>    <span class="k">return</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="n">mom</span><span class="p">)</span>
 </span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>
-</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a><span class="k">def</span> <span class="nf">read_Bilinear_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons Bilinear hdf5 file and output an array of CObs</span>
-</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>
-</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a><span class="sd">    Parameters</span>
-</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a><span class="sd">    ----------</span>
-</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a><span class="sd">    path : str</span>
-</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a><span class="sd">        path to the files to read</span>
-</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a><span class="sd">    filestem : str</span>
-</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a><span class="sd">        namestem of the files to read</span>
-</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a><span class="sd">    ens_id : str</span>
-</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
-</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a><span class="sd">    idl : range</span>
-</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
-</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>
-</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a>
-</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a>    <span class="n">mom_in</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>    <span class="n">mom_out</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>
-</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
-</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>        <span class="n">file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">16</span><span class="p">):</span>
-</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;gamma&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;UTF-8&#39;</span><span class="p">)</span>
-</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="p">:</span>
-</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>                <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>            <span class="n">raw_data</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/corr&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="s1">&#39;complex&#39;</span><span class="p">)</span>
-</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>            <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">raw_data</span><span class="p">)</span>
-</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>            <span class="k">if</span> <span class="n">mom_in</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>                <span class="n">mom_in</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pIn&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
-</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>            <span class="k">if</span> <span class="n">mom_out</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>                <span class="n">mom_out</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pOut&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
-</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>
-</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>
-</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>    <span class="n">result_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>
-</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>    <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">data</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
-</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>        <span class="n">local_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
-</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>
-</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>        <span class="n">rolled_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">rollaxis</span><span class="p">(</span><span class="n">local_data</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">5</span><span class="p">)</span>
-</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>
-</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>        <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>        <span class="k">for</span> <span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>            <span class="n">real</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
-</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>            <span class="n">imag</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
-</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>            <span class="n">matrix</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="p">)</span>
-</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>
-</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>        <span class="n">result_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="n">mom_in</span><span class="p">,</span> <span class="n">mom_out</span><span class="o">=</span><span class="n">mom_out</span><span class="p">)</span>
-</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>
-</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>    <span class="k">return</span> <span class="n">result_dict</span>
-</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>
+</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>
+</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a><span class="k">def</span> <span class="nf">read_Bilinear_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons Bilinear hdf5 file and output an array of CObs</span>
+</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>
+</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a><span class="sd">    Parameters</span>
+</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a><span class="sd">    ----------</span>
+</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a><span class="sd">    path : str</span>
+</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a><span class="sd">        path to the files to read</span>
+</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a><span class="sd">    filestem : str</span>
+</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a><span class="sd">        namestem of the files to read</span>
+</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a><span class="sd">    ens_id : str</span>
+</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
+</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a><span class="sd">    idl : range</span>
+</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
+</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a>
+</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a>
+</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>    <span class="n">mom_in</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>    <span class="n">mom_out</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>
+</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
+</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>        <span class="n">file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">16</span><span class="p">):</span>
+</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;gamma&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;UTF-8&#39;</span><span class="p">)</span>
+</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="p">:</span>
+</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>                <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>            <span class="n">raw_data</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/corr&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="s1">&#39;complex&#39;</span><span class="p">)</span>
+</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>            <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">raw_data</span><span class="p">)</span>
+</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>            <span class="k">if</span> <span class="n">mom_in</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>                <span class="n">mom_in</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pIn&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
+</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>            <span class="k">if</span> <span class="n">mom_out</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>                <span class="n">mom_out</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pOut&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
+</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>
+</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>
+</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>    <span class="n">result_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>
+</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>    <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">data</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>        <span class="n">local_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
+</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>
+</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>        <span class="n">rolled_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">rollaxis</span><span class="p">(</span><span class="n">local_data</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">5</span><span class="p">)</span>
+</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>
+</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>        <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>        <span class="k">for</span> <span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>            <span class="n">real</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
+</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>            <span class="n">imag</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
+</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>            <span class="n">matrix</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="p">)</span>
+</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>
+</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>        <span class="n">result_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="n">mom_in</span><span class="p">,</span> <span class="n">mom_out</span><span class="o">=</span><span class="n">mom_out</span><span class="p">)</span>
+</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>
+</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>    <span class="k">return</span> <span class="n">result_dict</span>
 </span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a>
-</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a><span class="k">def</span> <span class="nf">read_Fourquark_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">vertices</span><span class="o">=</span><span class="p">[</span><span class="s2">&quot;VA&quot;</span><span class="p">,</span> <span class="s2">&quot;AV&quot;</span><span class="p">]):</span>
-</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons FourquarkFullyConnected hdf5 file and output an array of CObs</span>
-</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a>
-</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a><span class="sd">    Parameters</span>
-</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a><span class="sd">    ----------</span>
-</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a><span class="sd">    path : str</span>
-</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a><span class="sd">        path to the files to read</span>
-</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a><span class="sd">    filestem : str</span>
-</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a><span class="sd">        namestem of the files to read</span>
-</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a><span class="sd">    ens_id : str</span>
-</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
-</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a><span class="sd">    idl : range</span>
-</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
-</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a><span class="sd">    vertices : list</span>
-</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a><span class="sd">        Vertex functions to be extracted.</span>
-</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>
-</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>
-</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>    <span class="n">mom_in</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>    <span class="n">mom_out</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>
-</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>    <span class="n">vertex_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>    <span class="k">for</span> <span class="n">vertex</span> <span class="ow">in</span> <span class="n">vertices</span><span class="p">:</span>
-</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>        <span class="n">vertex_names</span> <span class="o">+=</span> <span class="n">_get_lorentz_names</span><span class="p">(</span><span class="n">vertex</span><span class="p">)</span>
-</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>
-</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>
-</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>    <span class="n">tree</span> <span class="o">=</span> <span class="s1">&#39;FourQuarkFullyConnected/FourQuarkFullyConnected_&#39;</span>
-</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>
-</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
-</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>        <span class="n">file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>
-</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">32</span><span class="p">):</span>
-</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;gammaA&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;UTF-8&#39;</span><span class="p">),</span> <span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;gammaB&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;UTF-8&#39;</span><span class="p">))</span>
-</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">vertex_names</span><span class="p">:</span>
-</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>                <span class="k">if</span> <span class="n">name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="p">:</span>
-</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>                    <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>                <span class="n">raw_data</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/corr&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="s1">&#39;complex&#39;</span><span class="p">)</span>
-</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>                <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">raw_data</span><span class="p">)</span>
-</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>                <span class="k">if</span> <span class="n">mom_in</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>                    <span class="n">mom_in</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pIn&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
-</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>                <span class="k">if</span> <span class="n">mom_out</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a>                    <span class="n">mom_out</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pOut&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
-</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>
-</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>
-</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>    <span class="n">intermediate_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a>
-</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>    <span class="k">for</span> <span class="n">vertex</span> <span class="ow">in</span> <span class="n">vertices</span><span class="p">:</span>
-</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a>        <span class="n">lorentz_names</span> <span class="o">=</span> <span class="n">_get_lorentz_names</span><span class="p">(</span><span class="n">vertex</span><span class="p">)</span>
-</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>        <span class="k">for</span> <span class="n">v_name</span> <span class="ow">in</span> <span class="n">lorentz_names</span><span class="p">:</span>
-</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>            <span class="k">if</span> <span class="n">v_name</span> <span class="ow">in</span> <span class="p">[(</span><span class="s1">&#39;SigmaXY&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaZT&#39;</span><span class="p">),</span>
-</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>                          <span class="p">(</span><span class="s1">&#39;SigmaXT&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaYZ&#39;</span><span class="p">),</span>
-</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a>                          <span class="p">(</span><span class="s1">&#39;SigmaYZ&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaXT&#39;</span><span class="p">),</span>
-</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a>                          <span class="p">(</span><span class="s1">&#39;SigmaZT&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaXY&#39;</span><span class="p">)]:</span>
-</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>                <span class="n">sign</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
-</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a>                <span class="n">sign</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a>            <span class="k">if</span> <span class="n">vertex</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">intermediate_dict</span><span class="p">:</span>
-</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a>                <span class="n">intermediate_dict</span><span class="p">[</span><span class="n">vertex</span><span class="p">]</span> <span class="o">=</span> <span class="n">sign</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">[</span><span class="n">v_name</span><span class="p">])</span>
-</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a>                <span class="n">intermediate_dict</span><span class="p">[</span><span class="n">vertex</span><span class="p">]</span> <span class="o">+=</span> <span class="n">sign</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">[</span><span class="n">v_name</span><span class="p">])</span>
-</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a>
-</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a>    <span class="n">result_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a>
-</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a>    <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">data</span> <span class="ow">in</span> <span class="n">intermediate_dict</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
-</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a>
-</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a>        <span class="n">rolled_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">moveaxis</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">8</span><span class="p">)</span>
-</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a>
-</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a>        <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a>            <span class="n">real</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
-</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a>            <span class="n">imag</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
-</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>            <span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="p">)</span>
-</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>
-</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>        <span class="n">result_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="n">mom_in</span><span class="p">,</span> <span class="n">mom_out</span><span class="o">=</span><span class="n">mom_out</span><span class="p">)</span>
-</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>
-</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>    <span class="k">return</span> <span class="n">result_dict</span>
-</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a>
+</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a>
+</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a><span class="k">def</span> <span class="nf">read_Fourquark_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">vertices</span><span class="o">=</span><span class="p">[</span><span class="s2">&quot;VA&quot;</span><span class="p">,</span> <span class="s2">&quot;AV&quot;</span><span class="p">]):</span>
+</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons FourquarkFullyConnected hdf5 file and output an array of CObs</span>
+</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a>
+</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a><span class="sd">    Parameters</span>
+</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a><span class="sd">    ----------</span>
+</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a><span class="sd">    path : str</span>
+</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a><span class="sd">        path to the files to read</span>
+</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a><span class="sd">    filestem : str</span>
+</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a><span class="sd">        namestem of the files to read</span>
+</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a><span class="sd">    ens_id : str</span>
+</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
+</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a><span class="sd">    idl : range</span>
+</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
+</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a><span class="sd">    vertices : list</span>
+</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a><span class="sd">        Vertex functions to be extracted.</span>
+</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>
+</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>
+</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>    <span class="n">mom_in</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>    <span class="n">mom_out</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>
+</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>    <span class="n">vertex_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>    <span class="k">for</span> <span class="n">vertex</span> <span class="ow">in</span> <span class="n">vertices</span><span class="p">:</span>
+</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>        <span class="n">vertex_names</span> <span class="o">+=</span> <span class="n">_get_lorentz_names</span><span class="p">(</span><span class="n">vertex</span><span class="p">)</span>
+</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>
+</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>
+</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>    <span class="n">tree</span> <span class="o">=</span> <span class="s1">&#39;FourQuarkFullyConnected/FourQuarkFullyConnected_&#39;</span>
+</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>
+</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
+</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>        <span class="n">file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>
+</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">32</span><span class="p">):</span>
+</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;gammaA&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;UTF-8&#39;</span><span class="p">),</span> <span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;gammaB&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;UTF-8&#39;</span><span class="p">))</span>
+</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">vertex_names</span><span class="p">:</span>
+</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>                <span class="k">if</span> <span class="n">name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="p">:</span>
+</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>                    <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>                <span class="n">raw_data</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/corr&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="s1">&#39;complex&#39;</span><span class="p">)</span>
+</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>                <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">raw_data</span><span class="p">)</span>
+</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>                <span class="k">if</span> <span class="n">mom_in</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>                    <span class="n">mom_in</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pIn&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
+</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a>                <span class="k">if</span> <span class="n">mom_out</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>                    <span class="n">mom_out</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pOut&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
+</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>
+</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>
+</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a>    <span class="n">intermediate_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>
+</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a>    <span class="k">for</span> <span class="n">vertex</span> <span class="ow">in</span> <span class="n">vertices</span><span class="p">:</span>
+</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>        <span class="n">lorentz_names</span> <span class="o">=</span> <span class="n">_get_lorentz_names</span><span class="p">(</span><span class="n">vertex</span><span class="p">)</span>
+</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>        <span class="k">for</span> <span class="n">v_name</span> <span class="ow">in</span> <span class="n">lorentz_names</span><span class="p">:</span>
+</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>            <span class="k">if</span> <span class="n">v_name</span> <span class="ow">in</span> <span class="p">[(</span><span class="s1">&#39;SigmaXY&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaZT&#39;</span><span class="p">),</span>
+</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a>                          <span class="p">(</span><span class="s1">&#39;SigmaXT&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaYZ&#39;</span><span class="p">),</span>
+</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a>                          <span class="p">(</span><span class="s1">&#39;SigmaYZ&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaXT&#39;</span><span class="p">),</span>
+</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>                          <span class="p">(</span><span class="s1">&#39;SigmaZT&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaXY&#39;</span><span class="p">)]:</span>
+</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>                <span class="n">sign</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
+</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a>                <span class="n">sign</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a>            <span class="k">if</span> <span class="n">vertex</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">intermediate_dict</span><span class="p">:</span>
+</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a>                <span class="n">intermediate_dict</span><span class="p">[</span><span class="n">vertex</span><span class="p">]</span> <span class="o">=</span> <span class="n">sign</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">[</span><span class="n">v_name</span><span class="p">])</span>
+</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a>                <span class="n">intermediate_dict</span><span class="p">[</span><span class="n">vertex</span><span class="p">]</span> <span class="o">+=</span> <span class="n">sign</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">[</span><span class="n">v_name</span><span class="p">])</span>
+</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a>
+</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a>    <span class="n">result_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a>
+</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a>    <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">data</span> <span class="ow">in</span> <span class="n">intermediate_dict</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a>
+</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a>        <span class="n">rolled_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">moveaxis</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">8</span><span class="p">)</span>
+</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a>
+</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a>        <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a>            <span class="n">real</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
+</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>            <span class="n">imag</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
+</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>            <span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="p">)</span>
+</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>
+</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>        <span class="n">result_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="n">mom_in</span><span class="p">,</span> <span class="n">mom_out</span><span class="o">=</span><span class="n">mom_out</span><span class="p">)</span>
+</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>
+</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a>    <span class="k">return</span> <span class="n">result_dict</span>
 </span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a>
-</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a><span class="k">def</span> <span class="nf">_get_lorentz_names</span><span class="p">(</span><span class="n">name</span><span class="p">):</span>
-</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>    <span class="n">lorentz_index</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;X&#39;</span><span class="p">,</span> <span class="s1">&#39;Y&#39;</span><span class="p">,</span> <span class="s1">&#39;Z&#39;</span><span class="p">,</span> <span class="s1">&#39;T&#39;</span><span class="p">]</span>
-</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>
-</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>
-</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>    <span class="k">if</span> <span class="n">name</span> <span class="o">==</span> <span class="s2">&quot;TT&quot;</span><span class="p">:</span>
-</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">4</span><span class="p">):</span>
-</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>            <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">4</span><span class="p">):</span>
-</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>                <span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="s2">&quot;Sigma&quot;</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">j</span><span class="p">],</span> <span class="s2">&quot;Sigma&quot;</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">j</span><span class="p">]))</span>
-</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>        <span class="k">return</span> <span class="n">res</span>
-</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>
-</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>    <span class="k">if</span> <span class="n">name</span> <span class="o">==</span> <span class="s2">&quot;TTtilde&quot;</span><span class="p">:</span>
-</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">4</span><span class="p">):</span>
-</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>            <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">4</span><span class="p">):</span>
-</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>                <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">4</span><span class="p">):</span>
-</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>                    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">k</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">4</span><span class="p">):</span>
-</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>                        <span class="n">fac</span> <span class="o">=</span> <span class="n">epsilon_tensor_rank4</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">)</span>
-</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>                        <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="n">fac</span><span class="p">,</span> <span class="mf">0.0</span><span class="p">):</span>
-</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>                            <span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="s2">&quot;Sigma&quot;</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">j</span><span class="p">],</span> <span class="s2">&quot;Sigma&quot;</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">o</span><span class="p">]))</span>
-</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>        <span class="k">return</span> <span class="n">res</span>
-</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>
-</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>    <span class="k">assert</span> <span class="nb">len</span><span class="p">(</span><span class="n">name</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span>
-</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>
-</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>    <span class="k">if</span> <span class="s1">&#39;S&#39;</span> <span class="ow">in</span> <span class="n">name</span> <span class="ow">or</span> <span class="s1">&#39;P&#39;</span> <span class="ow">in</span> <span class="n">name</span><span class="p">:</span>
-</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">name</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">([</span><span class="s1">&#39;S&#39;</span><span class="p">,</span> <span class="s1">&#39;P&#39;</span><span class="p">]):</span>
-</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;&quot;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s2">&quot;&#39; is not a Lorentz scalar&quot;</span><span class="p">)</span>
-</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>
-</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>        <span class="n">g_names</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;S&#39;</span><span class="p">:</span> <span class="s1">&#39;Identity&#39;</span><span class="p">,</span>
-</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>                   <span class="s1">&#39;P&#39;</span><span class="p">:</span> <span class="s1">&#39;Gamma5&#39;</span><span class="p">}</span>
-</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>
-</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>        <span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">g_names</span><span class="p">[</span><span class="n">name</span><span class="p">[</span><span class="mi">0</span><span class="p">]],</span> <span class="n">g_names</span><span class="p">[</span><span class="n">name</span><span class="p">[</span><span class="mi">1</span><span class="p">]]))</span>
-</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>
-</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">name</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">([</span><span class="s1">&#39;V&#39;</span><span class="p">,</span> <span class="s1">&#39;A&#39;</span><span class="p">]):</span>
-</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;&quot;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s2">&quot;&#39; is not a Lorentz scalar&quot;</span><span class="p">)</span>
-</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>
-</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>        <span class="k">for</span> <span class="n">ind</span> <span class="ow">in</span> <span class="n">lorentz_index</span><span class="p">:</span>
-</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>            <span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="s1">&#39;Gamma&#39;</span> <span class="o">+</span> <span class="n">ind</span> <span class="o">+</span> <span class="p">(</span><span class="n">name</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;A&#39;</span><span class="p">)</span> <span class="o">*</span> <span class="s1">&#39;Gamma5&#39;</span><span class="p">,</span>
-</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>                        <span class="s1">&#39;Gamma&#39;</span> <span class="o">+</span> <span class="n">ind</span> <span class="o">+</span> <span class="p">(</span><span class="n">name</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;A&#39;</span><span class="p">)</span> <span class="o">*</span> <span class="s1">&#39;Gamma5&#39;</span><span class="p">))</span>
-</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>
-</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>    <span class="k">return</span> <span class="n">res</span>
+</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a>
+</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a><span class="k">def</span> <span class="nf">_get_lorentz_names</span><span class="p">(</span><span class="n">name</span><span class="p">):</span>
+</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>    <span class="n">lorentz_index</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;X&#39;</span><span class="p">,</span> <span class="s1">&#39;Y&#39;</span><span class="p">,</span> <span class="s1">&#39;Z&#39;</span><span class="p">,</span> <span class="s1">&#39;T&#39;</span><span class="p">]</span>
+</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>
+</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>
+</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>    <span class="k">if</span> <span class="n">name</span> <span class="o">==</span> <span class="s2">&quot;TT&quot;</span><span class="p">:</span>
+</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">4</span><span class="p">):</span>
+</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>            <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">4</span><span class="p">):</span>
+</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>                <span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="s2">&quot;Sigma&quot;</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">j</span><span class="p">],</span> <span class="s2">&quot;Sigma&quot;</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">j</span><span class="p">]))</span>
+</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>        <span class="k">return</span> <span class="n">res</span>
+</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>
+</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>    <span class="k">if</span> <span class="n">name</span> <span class="o">==</span> <span class="s2">&quot;TTtilde&quot;</span><span class="p">:</span>
+</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">4</span><span class="p">):</span>
+</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>            <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">4</span><span class="p">):</span>
+</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>                <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">4</span><span class="p">):</span>
+</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>                    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">k</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">4</span><span class="p">):</span>
+</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>                        <span class="n">fac</span> <span class="o">=</span> <span class="n">epsilon_tensor_rank4</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="n">o</span><span class="p">)</span>
+</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>                        <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="n">fac</span><span class="p">,</span> <span class="mf">0.0</span><span class="p">):</span>
+</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>                            <span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="s2">&quot;Sigma&quot;</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">j</span><span class="p">],</span> <span class="s2">&quot;Sigma&quot;</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">+</span> <span class="n">lorentz_index</span><span class="p">[</span><span class="n">o</span><span class="p">]))</span>
+</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>        <span class="k">return</span> <span class="n">res</span>
+</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>
+</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>    <span class="k">assert</span> <span class="nb">len</span><span class="p">(</span><span class="n">name</span><span class="p">)</span> <span class="o">==</span> <span class="mi">2</span>
+</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>
+</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>    <span class="k">if</span> <span class="s1">&#39;S&#39;</span> <span class="ow">in</span> <span class="n">name</span> <span class="ow">or</span> <span class="s1">&#39;P&#39;</span> <span class="ow">in</span> <span class="n">name</span><span class="p">:</span>
+</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">name</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">([</span><span class="s1">&#39;S&#39;</span><span class="p">,</span> <span class="s1">&#39;P&#39;</span><span class="p">]):</span>
+</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;&quot;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s2">&quot;&#39; is not a Lorentz scalar&quot;</span><span class="p">)</span>
+</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>
+</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>        <span class="n">g_names</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;S&#39;</span><span class="p">:</span> <span class="s1">&#39;Identity&#39;</span><span class="p">,</span>
+</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>                   <span class="s1">&#39;P&#39;</span><span class="p">:</span> <span class="s1">&#39;Gamma5&#39;</span><span class="p">}</span>
+</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>
+</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>        <span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">g_names</span><span class="p">[</span><span class="n">name</span><span class="p">[</span><span class="mi">0</span><span class="p">]],</span> <span class="n">g_names</span><span class="p">[</span><span class="n">name</span><span class="p">[</span><span class="mi">1</span><span class="p">]]))</span>
+</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>
+</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">name</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="nb">set</span><span class="p">([</span><span class="s1">&#39;V&#39;</span><span class="p">,</span> <span class="s1">&#39;A&#39;</span><span class="p">]):</span>
+</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;&quot;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s2">&quot;&#39; is not a Lorentz scalar&quot;</span><span class="p">)</span>
+</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>
+</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>        <span class="k">for</span> <span class="n">ind</span> <span class="ow">in</span> <span class="n">lorentz_index</span><span class="p">:</span>
+</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>            <span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="s1">&#39;Gamma&#39;</span> <span class="o">+</span> <span class="n">ind</span> <span class="o">+</span> <span class="p">(</span><span class="n">name</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;A&#39;</span><span class="p">)</span> <span class="o">*</span> <span class="s1">&#39;Gamma5&#39;</span><span class="p">,</span>
+</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>                        <span class="s1">&#39;Gamma&#39;</span> <span class="o">+</span> <span class="n">ind</span> <span class="o">+</span> <span class="p">(</span><span class="n">name</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;A&#39;</span><span class="p">)</span> <span class="o">*</span> <span class="s1">&#39;Gamma5&#39;</span><span class="p">))</span>
+</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>
+</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>    <span class="k">return</span> <span class="n">res</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="read_meson_hd5">
-                            <div class="attr function"><a class="headerlink" href="#read_meson_hd5">#&nbsp;&nbsp</a>
+                            <input id="read_meson_hd5-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_meson_hd5</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">filestem</span>, </span><span class="param"><span class="n">ens_id</span>, </span><span class="param"><span class="n">meson</span><span class="o">=</span><span class="s1">&#39;meson_0&#39;</span>, </span><span class="param"><span class="n">idl</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="read_meson_hd5-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_meson_hd5</span><span class="signature">(path, filestem, ens_id, meson=&#39;meson_0&#39;, idl=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_meson_hd5-57"><a href="#read_meson_hd5-57"><span class="linenos">57</span></a><span class="k">def</span> <span class="nf">read_meson_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">meson</span><span class="o">=</span><span class="s1">&#39;meson_0&#39;</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="read_meson_hd5-58"><a href="#read_meson_hd5-58"><span class="linenos">58</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons meson hdf5 file and extract the meson labeled &#39;meson&#39;</span>
-</span><span id="read_meson_hd5-59"><a href="#read_meson_hd5-59"><span class="linenos">59</span></a>
-</span><span id="read_meson_hd5-60"><a href="#read_meson_hd5-60"><span class="linenos">60</span></a><span class="sd">    Parameters</span>
-</span><span id="read_meson_hd5-61"><a href="#read_meson_hd5-61"><span class="linenos">61</span></a><span class="sd">    -----------------</span>
-</span><span id="read_meson_hd5-62"><a href="#read_meson_hd5-62"><span class="linenos">62</span></a><span class="sd">    path : str</span>
-</span><span id="read_meson_hd5-63"><a href="#read_meson_hd5-63"><span class="linenos">63</span></a><span class="sd">        path to the files to read</span>
-</span><span id="read_meson_hd5-64"><a href="#read_meson_hd5-64"><span class="linenos">64</span></a><span class="sd">    filestem : str</span>
-</span><span id="read_meson_hd5-65"><a href="#read_meson_hd5-65"><span class="linenos">65</span></a><span class="sd">        namestem of the files to read</span>
-</span><span id="read_meson_hd5-66"><a href="#read_meson_hd5-66"><span class="linenos">66</span></a><span class="sd">    ens_id : str</span>
-</span><span id="read_meson_hd5-67"><a href="#read_meson_hd5-67"><span class="linenos">67</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
-</span><span id="read_meson_hd5-68"><a href="#read_meson_hd5-68"><span class="linenos">68</span></a><span class="sd">    meson : str</span>
-</span><span id="read_meson_hd5-69"><a href="#read_meson_hd5-69"><span class="linenos">69</span></a><span class="sd">        label of the meson to be extracted, standard value meson_0 which</span>
-</span><span id="read_meson_hd5-70"><a href="#read_meson_hd5-70"><span class="linenos">70</span></a><span class="sd">        corresponds to the pseudoscalar pseudoscalar two-point function.</span>
-</span><span id="read_meson_hd5-71"><a href="#read_meson_hd5-71"><span class="linenos">71</span></a><span class="sd">    idl : range</span>
-</span><span id="read_meson_hd5-72"><a href="#read_meson_hd5-72"><span class="linenos">72</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
-</span><span id="read_meson_hd5-73"><a href="#read_meson_hd5-73"><span class="linenos">73</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_meson_hd5-74"><a href="#read_meson_hd5-74"><span class="linenos">74</span></a>
-</span><span id="read_meson_hd5-75"><a href="#read_meson_hd5-75"><span class="linenos">75</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="read_meson_hd5-76"><a href="#read_meson_hd5-76"><span class="linenos">76</span></a>
-</span><span id="read_meson_hd5-77"><a href="#read_meson_hd5-77"><span class="linenos">77</span></a>    <span class="n">tree</span> <span class="o">=</span> <span class="n">meson</span><span class="o">.</span><span class="n">rsplit</span><span class="p">(</span><span class="s1">&#39;_&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="read_meson_hd5-78"><a href="#read_meson_hd5-78"><span class="linenos">78</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_meson_hd5-79"><a href="#read_meson_hd5-79"><span class="linenos">79</span></a>    <span class="n">infos</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_meson_hd5-80"><a href="#read_meson_hd5-80"><span class="linenos">80</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
-</span><span id="read_meson_hd5-81"><a href="#read_meson_hd5-81"><span class="linenos">81</span></a>        <span class="n">h5file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="read_meson_hd5-82"><a href="#read_meson_hd5-82"><span class="linenos">82</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">tree</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">meson</span> <span class="ow">in</span> <span class="n">h5file</span><span class="p">:</span>
-</span><span id="read_meson_hd5-83"><a href="#read_meson_hd5-83"><span class="linenos">83</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Entry &#39;&quot;</span> <span class="o">+</span> <span class="n">meson</span> <span class="o">+</span> <span class="s2">&quot;&#39; not contained in the files.&quot;</span><span class="p">)</span>
-</span><span id="read_meson_hd5-84"><a href="#read_meson_hd5-84"><span class="linenos">84</span></a>        <span class="n">raw_data</span> <span class="o">=</span> <span class="n">h5file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">meson</span> <span class="o">+</span> <span class="s1">&#39;/corr&#39;</span><span class="p">]</span>
-</span><span id="read_meson_hd5-85"><a href="#read_meson_hd5-85"><span class="linenos">85</span></a>        <span class="n">real_data</span> <span class="o">=</span> <span class="n">raw_data</span><span class="p">[:][</span><span class="s2">&quot;re&quot;</span><span class="p">]</span><span class="o">.</span><span class="n">astype</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">double</span><span class="p">)</span>
-</span><span id="read_meson_hd5-86"><a href="#read_meson_hd5-86"><span class="linenos">86</span></a>        <span class="n">corr_data</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">real_data</span><span class="p">)</span>
-</span><span id="read_meson_hd5-87"><a href="#read_meson_hd5-87"><span class="linenos">87</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">infos</span><span class="p">:</span>
-</span><span id="read_meson_hd5-88"><a href="#read_meson_hd5-88"><span class="linenos">88</span></a>            <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">h5file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">meson</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
-</span><span id="read_meson_hd5-89"><a href="#read_meson_hd5-89"><span class="linenos">89</span></a>                <span class="n">infos</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">k</span> <span class="o">+</span> <span class="s1">&#39;: &#39;</span> <span class="o">+</span> <span class="n">i</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">())</span>
-</span><span id="read_meson_hd5-90"><a href="#read_meson_hd5-90"><span class="linenos">90</span></a>        <span class="n">h5file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="read_meson_hd5-91"><a href="#read_meson_hd5-91"><span class="linenos">91</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">)</span>
-</span><span id="read_meson_hd5-92"><a href="#read_meson_hd5-92"><span class="linenos">92</span></a>
-</span><span id="read_meson_hd5-93"><a href="#read_meson_hd5-93"><span class="linenos">93</span></a>    <span class="n">l_obs</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_meson_hd5-94"><a href="#read_meson_hd5-94"><span class="linenos">94</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
-</span><span id="read_meson_hd5-95"><a href="#read_meson_hd5-95"><span class="linenos">95</span></a>        <span class="n">l_obs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="n">c</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">]))</span>
-</span><span id="read_meson_hd5-96"><a href="#read_meson_hd5-96"><span class="linenos">96</span></a>
-</span><span id="read_meson_hd5-97"><a href="#read_meson_hd5-97"><span class="linenos">97</span></a>    <span class="n">corr</span> <span class="o">=</span> <span class="n">Corr</span><span class="p">(</span><span class="n">l_obs</span><span class="p">)</span>
-</span><span id="read_meson_hd5-98"><a href="#read_meson_hd5-98"><span class="linenos">98</span></a>    <span class="n">corr</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="sa">r</span><span class="s2">&quot;, &quot;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">infos</span><span class="p">)</span>
-</span><span id="read_meson_hd5-99"><a href="#read_meson_hd5-99"><span class="linenos">99</span></a>    <span class="k">return</span> <span class="n">corr</span>
+    <a class="headerlink" href="#read_meson_hd5"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_meson_hd5-58"><a href="#read_meson_hd5-58"><span class="linenos"> 58</span></a><span class="k">def</span> <span class="nf">read_meson_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">meson</span><span class="o">=</span><span class="s1">&#39;meson_0&#39;</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="read_meson_hd5-59"><a href="#read_meson_hd5-59"><span class="linenos"> 59</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons meson hdf5 file and extract the meson labeled &#39;meson&#39;</span>
+</span><span id="read_meson_hd5-60"><a href="#read_meson_hd5-60"><span class="linenos"> 60</span></a>
+</span><span id="read_meson_hd5-61"><a href="#read_meson_hd5-61"><span class="linenos"> 61</span></a><span class="sd">    Parameters</span>
+</span><span id="read_meson_hd5-62"><a href="#read_meson_hd5-62"><span class="linenos"> 62</span></a><span class="sd">    -----------------</span>
+</span><span id="read_meson_hd5-63"><a href="#read_meson_hd5-63"><span class="linenos"> 63</span></a><span class="sd">    path : str</span>
+</span><span id="read_meson_hd5-64"><a href="#read_meson_hd5-64"><span class="linenos"> 64</span></a><span class="sd">        path to the files to read</span>
+</span><span id="read_meson_hd5-65"><a href="#read_meson_hd5-65"><span class="linenos"> 65</span></a><span class="sd">    filestem : str</span>
+</span><span id="read_meson_hd5-66"><a href="#read_meson_hd5-66"><span class="linenos"> 66</span></a><span class="sd">        namestem of the files to read</span>
+</span><span id="read_meson_hd5-67"><a href="#read_meson_hd5-67"><span class="linenos"> 67</span></a><span class="sd">    ens_id : str</span>
+</span><span id="read_meson_hd5-68"><a href="#read_meson_hd5-68"><span class="linenos"> 68</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
+</span><span id="read_meson_hd5-69"><a href="#read_meson_hd5-69"><span class="linenos"> 69</span></a><span class="sd">    meson : str</span>
+</span><span id="read_meson_hd5-70"><a href="#read_meson_hd5-70"><span class="linenos"> 70</span></a><span class="sd">        label of the meson to be extracted, standard value meson_0 which</span>
+</span><span id="read_meson_hd5-71"><a href="#read_meson_hd5-71"><span class="linenos"> 71</span></a><span class="sd">        corresponds to the pseudoscalar pseudoscalar two-point function.</span>
+</span><span id="read_meson_hd5-72"><a href="#read_meson_hd5-72"><span class="linenos"> 72</span></a><span class="sd">    idl : range</span>
+</span><span id="read_meson_hd5-73"><a href="#read_meson_hd5-73"><span class="linenos"> 73</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
+</span><span id="read_meson_hd5-74"><a href="#read_meson_hd5-74"><span class="linenos"> 74</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_meson_hd5-75"><a href="#read_meson_hd5-75"><span class="linenos"> 75</span></a>
+</span><span id="read_meson_hd5-76"><a href="#read_meson_hd5-76"><span class="linenos"> 76</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="read_meson_hd5-77"><a href="#read_meson_hd5-77"><span class="linenos"> 77</span></a>
+</span><span id="read_meson_hd5-78"><a href="#read_meson_hd5-78"><span class="linenos"> 78</span></a>    <span class="n">tree</span> <span class="o">=</span> <span class="n">meson</span><span class="o">.</span><span class="n">rsplit</span><span class="p">(</span><span class="s1">&#39;_&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="read_meson_hd5-79"><a href="#read_meson_hd5-79"><span class="linenos"> 79</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_meson_hd5-80"><a href="#read_meson_hd5-80"><span class="linenos"> 80</span></a>    <span class="n">infos</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_meson_hd5-81"><a href="#read_meson_hd5-81"><span class="linenos"> 81</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
+</span><span id="read_meson_hd5-82"><a href="#read_meson_hd5-82"><span class="linenos"> 82</span></a>        <span class="n">h5file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="read_meson_hd5-83"><a href="#read_meson_hd5-83"><span class="linenos"> 83</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">tree</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">meson</span> <span class="ow">in</span> <span class="n">h5file</span><span class="p">:</span>
+</span><span id="read_meson_hd5-84"><a href="#read_meson_hd5-84"><span class="linenos"> 84</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Entry &#39;&quot;</span> <span class="o">+</span> <span class="n">meson</span> <span class="o">+</span> <span class="s2">&quot;&#39; not contained in the files.&quot;</span><span class="p">)</span>
+</span><span id="read_meson_hd5-85"><a href="#read_meson_hd5-85"><span class="linenos"> 85</span></a>        <span class="n">raw_data</span> <span class="o">=</span> <span class="n">h5file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">meson</span> <span class="o">+</span> <span class="s1">&#39;/corr&#39;</span><span class="p">]</span>
+</span><span id="read_meson_hd5-86"><a href="#read_meson_hd5-86"><span class="linenos"> 86</span></a>        <span class="n">real_data</span> <span class="o">=</span> <span class="n">raw_data</span><span class="p">[:][</span><span class="s2">&quot;re&quot;</span><span class="p">]</span><span class="o">.</span><span class="n">astype</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">double</span><span class="p">)</span>
+</span><span id="read_meson_hd5-87"><a href="#read_meson_hd5-87"><span class="linenos"> 87</span></a>        <span class="n">corr_data</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">real_data</span><span class="p">)</span>
+</span><span id="read_meson_hd5-88"><a href="#read_meson_hd5-88"><span class="linenos"> 88</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">infos</span><span class="p">:</span>
+</span><span id="read_meson_hd5-89"><a href="#read_meson_hd5-89"><span class="linenos"> 89</span></a>            <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">h5file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">meson</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+</span><span id="read_meson_hd5-90"><a href="#read_meson_hd5-90"><span class="linenos"> 90</span></a>                <span class="n">infos</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">k</span> <span class="o">+</span> <span class="s1">&#39;: &#39;</span> <span class="o">+</span> <span class="n">i</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">())</span>
+</span><span id="read_meson_hd5-91"><a href="#read_meson_hd5-91"><span class="linenos"> 91</span></a>        <span class="n">h5file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="read_meson_hd5-92"><a href="#read_meson_hd5-92"><span class="linenos"> 92</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">)</span>
+</span><span id="read_meson_hd5-93"><a href="#read_meson_hd5-93"><span class="linenos"> 93</span></a>
+</span><span id="read_meson_hd5-94"><a href="#read_meson_hd5-94"><span class="linenos"> 94</span></a>    <span class="n">l_obs</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_meson_hd5-95"><a href="#read_meson_hd5-95"><span class="linenos"> 95</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="o">.</span><span class="n">T</span><span class="p">:</span>
+</span><span id="read_meson_hd5-96"><a href="#read_meson_hd5-96"><span class="linenos"> 96</span></a>        <span class="n">l_obs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="n">c</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">]))</span>
+</span><span id="read_meson_hd5-97"><a href="#read_meson_hd5-97"><span class="linenos"> 97</span></a>
+</span><span id="read_meson_hd5-98"><a href="#read_meson_hd5-98"><span class="linenos"> 98</span></a>    <span class="n">corr</span> <span class="o">=</span> <span class="n">Corr</span><span class="p">(</span><span class="n">l_obs</span><span class="p">)</span>
+</span><span id="read_meson_hd5-99"><a href="#read_meson_hd5-99"><span class="linenos"> 99</span></a>    <span class="n">corr</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="sa">r</span><span class="s2">&quot;, &quot;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">infos</span><span class="p">)</span>
+</span><span id="read_meson_hd5-100"><a href="#read_meson_hd5-100"><span class="linenos">100</span></a>    <span class="k">return</span> <span class="n">corr</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Read hadrons meson hdf5 file and extract the meson labeled 'meson'</p>
 
@@ -531,57 +532,56 @@ If specified only configurations in the given range are read in.</li>
 
                 </section>
                 <section id="Npr_matrix">
-                                <div class="attr class">
-        <a class="headerlink" href="#Npr_matrix">#&nbsp;&nbsp</a>
+                            <input id="Npr_matrix-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr class">
+            
+    <span class="def">class</span>
+    <span class="name">Npr_matrix</span><wbr>(<span class="base">numpy.ndarray</span>):
+
+                <label class="view-source-button" for="Npr_matrix-view-source"><span>View Source</span></label>
 
-        
-        <span class="def">class</span>
-        <span class="name">Npr_matrix</span><wbr>(<span class="base">numpy.ndarray</span>):
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Npr_matrix-102"><a href="#Npr_matrix-102"><span class="linenos">102</span></a><span class="k">class</span> <span class="nc">Npr_matrix</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="Npr_matrix-103"><a href="#Npr_matrix-103"><span class="linenos">103</span></a>
-</span><span id="Npr_matrix-104"><a href="#Npr_matrix-104"><span class="linenos">104</span></a>    <span class="k">def</span> <span class="fm">__new__</span><span class="p">(</span><span class="bp">cls</span><span class="p">,</span> <span class="n">input_array</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">mom_out</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Npr_matrix-105"><a href="#Npr_matrix-105"><span class="linenos">105</span></a>        <span class="n">obj</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">input_array</span><span class="p">)</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="bp">cls</span><span class="p">)</span>
-</span><span id="Npr_matrix-106"><a href="#Npr_matrix-106"><span class="linenos">106</span></a>        <span class="n">obj</span><span class="o">.</span><span class="n">mom_in</span> <span class="o">=</span> <span class="n">mom_in</span>
-</span><span id="Npr_matrix-107"><a href="#Npr_matrix-107"><span class="linenos">107</span></a>        <span class="n">obj</span><span class="o">.</span><span class="n">mom_out</span> <span class="o">=</span> <span class="n">mom_out</span>
-</span><span id="Npr_matrix-108"><a href="#Npr_matrix-108"><span class="linenos">108</span></a>        <span class="k">return</span> <span class="n">obj</span>
-</span><span id="Npr_matrix-109"><a href="#Npr_matrix-109"><span class="linenos">109</span></a>
-</span><span id="Npr_matrix-110"><a href="#Npr_matrix-110"><span class="linenos">110</span></a>    <span class="nd">@property</span>
-</span><span id="Npr_matrix-111"><a href="#Npr_matrix-111"><span class="linenos">111</span></a>    <span class="k">def</span> <span class="nf">g5H</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Npr_matrix-112"><a href="#Npr_matrix-112"><span class="linenos">112</span></a>        <span class="sd">&quot;&quot;&quot;Gamma_5 hermitean conjugate</span>
-</span><span id="Npr_matrix-113"><a href="#Npr_matrix-113"><span class="linenos">113</span></a>
-</span><span id="Npr_matrix-114"><a href="#Npr_matrix-114"><span class="linenos">114</span></a><span class="sd">        Uses the fact that the propagator is gamma5 hermitean, so just the</span>
-</span><span id="Npr_matrix-115"><a href="#Npr_matrix-115"><span class="linenos">115</span></a><span class="sd">        in and out momenta of the propagator are exchanged.</span>
-</span><span id="Npr_matrix-116"><a href="#Npr_matrix-116"><span class="linenos">116</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Npr_matrix-117"><a href="#Npr_matrix-117"><span class="linenos">117</span></a>        <span class="k">return</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span>
-</span><span id="Npr_matrix-118"><a href="#Npr_matrix-118"><span class="linenos">118</span></a>                          <span class="n">mom_in</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">mom_out</span><span class="p">,</span>
-</span><span id="Npr_matrix-119"><a href="#Npr_matrix-119"><span class="linenos">119</span></a>                          <span class="n">mom_out</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">mom_in</span><span class="p">)</span>
-</span><span id="Npr_matrix-120"><a href="#Npr_matrix-120"><span class="linenos">120</span></a>
-</span><span id="Npr_matrix-121"><a href="#Npr_matrix-121"><span class="linenos">121</span></a>    <span class="k">def</span> <span class="nf">_propagate_mom</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">,</span> <span class="n">name</span><span class="p">):</span>
-</span><span id="Npr_matrix-122"><a href="#Npr_matrix-122"><span class="linenos">122</span></a>        <span class="n">s_mom</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="Npr_matrix-123"><a href="#Npr_matrix-123"><span class="linenos">123</span></a>        <span class="n">o_mom</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="Npr_matrix-124"><a href="#Npr_matrix-124"><span class="linenos">124</span></a>        <span class="k">if</span> <span class="n">s_mom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="ow">and</span> <span class="n">o_mom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Npr_matrix-125"><a href="#Npr_matrix-125"><span class="linenos">125</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="n">s_mom</span><span class="p">,</span> <span class="n">o_mom</span><span class="p">):</span>
-</span><span id="Npr_matrix-126"><a href="#Npr_matrix-126"><span class="linenos">126</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="n">name</span> <span class="o">+</span> <span class="s1">&#39; does not match.&#39;</span><span class="p">)</span>
-</span><span id="Npr_matrix-127"><a href="#Npr_matrix-127"><span class="linenos">127</span></a>        <span class="k">return</span> <span class="n">o_mom</span> <span class="k">if</span> <span class="n">o_mom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">s_mom</span>
-</span><span id="Npr_matrix-128"><a href="#Npr_matrix-128"><span class="linenos">128</span></a>
-</span><span id="Npr_matrix-129"><a href="#Npr_matrix-129"><span class="linenos">129</span></a>    <span class="k">def</span> <span class="fm">__matmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="Npr_matrix-130"><a href="#Npr_matrix-130"><span class="linenos">130</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="fm">__new__</span><span class="p">(</span><span class="n">Npr_matrix</span><span class="p">,</span>
-</span><span id="Npr_matrix-131"><a href="#Npr_matrix-131"><span class="linenos">131</span></a>                            <span class="nb">super</span><span class="p">()</span><span class="o">.</span><span class="fm">__matmul__</span><span class="p">(</span><span class="n">other</span><span class="p">),</span>
-</span><span id="Npr_matrix-132"><a href="#Npr_matrix-132"><span class="linenos">132</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">_propagate_mom</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;mom_in&#39;</span><span class="p">),</span>
-</span><span id="Npr_matrix-133"><a href="#Npr_matrix-133"><span class="linenos">133</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">_propagate_mom</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;mom_out&#39;</span><span class="p">))</span>
-</span><span id="Npr_matrix-134"><a href="#Npr_matrix-134"><span class="linenos">134</span></a>
-</span><span id="Npr_matrix-135"><a href="#Npr_matrix-135"><span class="linenos">135</span></a>    <span class="k">def</span> <span class="nf">__array_finalize__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">obj</span><span class="p">):</span>
-</span><span id="Npr_matrix-136"><a href="#Npr_matrix-136"><span class="linenos">136</span></a>        <span class="k">if</span> <span class="n">obj</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Npr_matrix-137"><a href="#Npr_matrix-137"><span class="linenos">137</span></a>            <span class="k">return</span>
-</span><span id="Npr_matrix-138"><a href="#Npr_matrix-138"><span class="linenos">138</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">mom_in</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="s1">&#39;mom_in&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
-</span><span id="Npr_matrix-139"><a href="#Npr_matrix-139"><span class="linenos">139</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">mom_out</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="s1">&#39;mom_out&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+    <a class="headerlink" href="#Npr_matrix"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Npr_matrix-103"><a href="#Npr_matrix-103"><span class="linenos">103</span></a><span class="k">class</span> <span class="nc">Npr_matrix</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="Npr_matrix-104"><a href="#Npr_matrix-104"><span class="linenos">104</span></a>
+</span><span id="Npr_matrix-105"><a href="#Npr_matrix-105"><span class="linenos">105</span></a>    <span class="k">def</span> <span class="fm">__new__</span><span class="p">(</span><span class="bp">cls</span><span class="p">,</span> <span class="n">input_array</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">mom_out</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Npr_matrix-106"><a href="#Npr_matrix-106"><span class="linenos">106</span></a>        <span class="n">obj</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">input_array</span><span class="p">)</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="bp">cls</span><span class="p">)</span>
+</span><span id="Npr_matrix-107"><a href="#Npr_matrix-107"><span class="linenos">107</span></a>        <span class="n">obj</span><span class="o">.</span><span class="n">mom_in</span> <span class="o">=</span> <span class="n">mom_in</span>
+</span><span id="Npr_matrix-108"><a href="#Npr_matrix-108"><span class="linenos">108</span></a>        <span class="n">obj</span><span class="o">.</span><span class="n">mom_out</span> <span class="o">=</span> <span class="n">mom_out</span>
+</span><span id="Npr_matrix-109"><a href="#Npr_matrix-109"><span class="linenos">109</span></a>        <span class="k">return</span> <span class="n">obj</span>
+</span><span id="Npr_matrix-110"><a href="#Npr_matrix-110"><span class="linenos">110</span></a>
+</span><span id="Npr_matrix-111"><a href="#Npr_matrix-111"><span class="linenos">111</span></a>    <span class="nd">@property</span>
+</span><span id="Npr_matrix-112"><a href="#Npr_matrix-112"><span class="linenos">112</span></a>    <span class="k">def</span> <span class="nf">g5H</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Npr_matrix-113"><a href="#Npr_matrix-113"><span class="linenos">113</span></a>        <span class="sd">&quot;&quot;&quot;Gamma_5 hermitean conjugate</span>
+</span><span id="Npr_matrix-114"><a href="#Npr_matrix-114"><span class="linenos">114</span></a>
+</span><span id="Npr_matrix-115"><a href="#Npr_matrix-115"><span class="linenos">115</span></a><span class="sd">        Uses the fact that the propagator is gamma5 hermitean, so just the</span>
+</span><span id="Npr_matrix-116"><a href="#Npr_matrix-116"><span class="linenos">116</span></a><span class="sd">        in and out momenta of the propagator are exchanged.</span>
+</span><span id="Npr_matrix-117"><a href="#Npr_matrix-117"><span class="linenos">117</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Npr_matrix-118"><a href="#Npr_matrix-118"><span class="linenos">118</span></a>        <span class="k">return</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span>
+</span><span id="Npr_matrix-119"><a href="#Npr_matrix-119"><span class="linenos">119</span></a>                          <span class="n">mom_in</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">mom_out</span><span class="p">,</span>
+</span><span id="Npr_matrix-120"><a href="#Npr_matrix-120"><span class="linenos">120</span></a>                          <span class="n">mom_out</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">mom_in</span><span class="p">)</span>
+</span><span id="Npr_matrix-121"><a href="#Npr_matrix-121"><span class="linenos">121</span></a>
+</span><span id="Npr_matrix-122"><a href="#Npr_matrix-122"><span class="linenos">122</span></a>    <span class="k">def</span> <span class="nf">_propagate_mom</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">,</span> <span class="n">name</span><span class="p">):</span>
+</span><span id="Npr_matrix-123"><a href="#Npr_matrix-123"><span class="linenos">123</span></a>        <span class="n">s_mom</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="Npr_matrix-124"><a href="#Npr_matrix-124"><span class="linenos">124</span></a>        <span class="n">o_mom</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="Npr_matrix-125"><a href="#Npr_matrix-125"><span class="linenos">125</span></a>        <span class="k">if</span> <span class="n">s_mom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="ow">and</span> <span class="n">o_mom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Npr_matrix-126"><a href="#Npr_matrix-126"><span class="linenos">126</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="n">s_mom</span><span class="p">,</span> <span class="n">o_mom</span><span class="p">):</span>
+</span><span id="Npr_matrix-127"><a href="#Npr_matrix-127"><span class="linenos">127</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="n">name</span> <span class="o">+</span> <span class="s1">&#39; does not match.&#39;</span><span class="p">)</span>
+</span><span id="Npr_matrix-128"><a href="#Npr_matrix-128"><span class="linenos">128</span></a>        <span class="k">return</span> <span class="n">o_mom</span> <span class="k">if</span> <span class="n">o_mom</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">s_mom</span>
+</span><span id="Npr_matrix-129"><a href="#Npr_matrix-129"><span class="linenos">129</span></a>
+</span><span id="Npr_matrix-130"><a href="#Npr_matrix-130"><span class="linenos">130</span></a>    <span class="k">def</span> <span class="fm">__matmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="Npr_matrix-131"><a href="#Npr_matrix-131"><span class="linenos">131</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="fm">__new__</span><span class="p">(</span><span class="n">Npr_matrix</span><span class="p">,</span>
+</span><span id="Npr_matrix-132"><a href="#Npr_matrix-132"><span class="linenos">132</span></a>                            <span class="nb">super</span><span class="p">()</span><span class="o">.</span><span class="fm">__matmul__</span><span class="p">(</span><span class="n">other</span><span class="p">),</span>
+</span><span id="Npr_matrix-133"><a href="#Npr_matrix-133"><span class="linenos">133</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">_propagate_mom</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;mom_in&#39;</span><span class="p">),</span>
+</span><span id="Npr_matrix-134"><a href="#Npr_matrix-134"><span class="linenos">134</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">_propagate_mom</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;mom_out&#39;</span><span class="p">))</span>
+</span><span id="Npr_matrix-135"><a href="#Npr_matrix-135"><span class="linenos">135</span></a>
+</span><span id="Npr_matrix-136"><a href="#Npr_matrix-136"><span class="linenos">136</span></a>    <span class="k">def</span> <span class="nf">__array_finalize__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">obj</span><span class="p">):</span>
+</span><span id="Npr_matrix-137"><a href="#Npr_matrix-137"><span class="linenos">137</span></a>        <span class="k">if</span> <span class="n">obj</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Npr_matrix-138"><a href="#Npr_matrix-138"><span class="linenos">138</span></a>            <span class="k">return</span>
+</span><span id="Npr_matrix-139"><a href="#Npr_matrix-139"><span class="linenos">139</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">mom_in</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="s1">&#39;mom_in&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
+</span><span id="Npr_matrix-140"><a href="#Npr_matrix-140"><span class="linenos">140</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">mom_out</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="s1">&#39;mom_out&#39;</span><span class="p">,</span> <span class="kc">None</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>ndarray(shape, dtype=float, buffer=None, offset=0,
         strides=None, order=None)</p>
@@ -712,22 +712,24 @@ ndarray.</p>
 
 
                             <div id="Npr_matrix.__init__" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Npr_matrix.__init__">#&nbsp;&nbsp</a>
+                                <div class="attr function">
+            
+        <span class="name">Npr_matrix</span><span class="signature pdoc-code condensed">()</span>
 
         
-            <span class="name">Npr_matrix</span><span class="signature">()</span>
     </div>
-
+    <a class="headerlink" href="#Npr_matrix.__init__"></a>
     
     
 
                             </div>
                             <div id="Npr_matrix.g5H" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Npr_matrix.g5H">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">g5H</span>
 
-        <span class="name">g5H</span>
+        
     </div>
-
+    <a class="headerlink" href="#Npr_matrix.g5H"></a>
     
             <div class="docstring"><p>Gamma_5 hermitean conjugate</p>
 
@@ -818,56 +820,56 @@ in and out momenta of the propagator are exchanged.</p>
                             </div>
                 </section>
                 <section id="read_ExternalLeg_hd5">
-                            <div class="attr function"><a class="headerlink" href="#read_ExternalLeg_hd5">#&nbsp;&nbsp</a>
+                            <input id="read_ExternalLeg_hd5-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_ExternalLeg_hd5</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">filestem</span>, </span><span class="param"><span class="n">ens_id</span>, </span><span class="param"><span class="n">idl</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="read_ExternalLeg_hd5-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_ExternalLeg_hd5</span><span class="signature">(path, filestem, ens_id, idl=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_ExternalLeg_hd5-142"><a href="#read_ExternalLeg_hd5-142"><span class="linenos">142</span></a><span class="k">def</span> <span class="nf">read_ExternalLeg_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="read_ExternalLeg_hd5-143"><a href="#read_ExternalLeg_hd5-143"><span class="linenos">143</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons ExternalLeg hdf5 file and output an array of CObs</span>
-</span><span id="read_ExternalLeg_hd5-144"><a href="#read_ExternalLeg_hd5-144"><span class="linenos">144</span></a>
-</span><span id="read_ExternalLeg_hd5-145"><a href="#read_ExternalLeg_hd5-145"><span class="linenos">145</span></a><span class="sd">    Parameters</span>
-</span><span id="read_ExternalLeg_hd5-146"><a href="#read_ExternalLeg_hd5-146"><span class="linenos">146</span></a><span class="sd">    ----------</span>
-</span><span id="read_ExternalLeg_hd5-147"><a href="#read_ExternalLeg_hd5-147"><span class="linenos">147</span></a><span class="sd">    path : str</span>
-</span><span id="read_ExternalLeg_hd5-148"><a href="#read_ExternalLeg_hd5-148"><span class="linenos">148</span></a><span class="sd">        path to the files to read</span>
-</span><span id="read_ExternalLeg_hd5-149"><a href="#read_ExternalLeg_hd5-149"><span class="linenos">149</span></a><span class="sd">    filestem : str</span>
-</span><span id="read_ExternalLeg_hd5-150"><a href="#read_ExternalLeg_hd5-150"><span class="linenos">150</span></a><span class="sd">        namestem of the files to read</span>
-</span><span id="read_ExternalLeg_hd5-151"><a href="#read_ExternalLeg_hd5-151"><span class="linenos">151</span></a><span class="sd">    ens_id : str</span>
-</span><span id="read_ExternalLeg_hd5-152"><a href="#read_ExternalLeg_hd5-152"><span class="linenos">152</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
-</span><span id="read_ExternalLeg_hd5-153"><a href="#read_ExternalLeg_hd5-153"><span class="linenos">153</span></a><span class="sd">    idl : range</span>
-</span><span id="read_ExternalLeg_hd5-154"><a href="#read_ExternalLeg_hd5-154"><span class="linenos">154</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
-</span><span id="read_ExternalLeg_hd5-155"><a href="#read_ExternalLeg_hd5-155"><span class="linenos">155</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_ExternalLeg_hd5-156"><a href="#read_ExternalLeg_hd5-156"><span class="linenos">156</span></a>
-</span><span id="read_ExternalLeg_hd5-157"><a href="#read_ExternalLeg_hd5-157"><span class="linenos">157</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="read_ExternalLeg_hd5-158"><a href="#read_ExternalLeg_hd5-158"><span class="linenos">158</span></a>
-</span><span id="read_ExternalLeg_hd5-159"><a href="#read_ExternalLeg_hd5-159"><span class="linenos">159</span></a>    <span class="n">mom</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="read_ExternalLeg_hd5-160"><a href="#read_ExternalLeg_hd5-160"><span class="linenos">160</span></a>
-</span><span id="read_ExternalLeg_hd5-161"><a href="#read_ExternalLeg_hd5-161"><span class="linenos">161</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_ExternalLeg_hd5-162"><a href="#read_ExternalLeg_hd5-162"><span class="linenos">162</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
-</span><span id="read_ExternalLeg_hd5-163"><a href="#read_ExternalLeg_hd5-163"><span class="linenos">163</span></a>        <span class="n">file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="read_ExternalLeg_hd5-164"><a href="#read_ExternalLeg_hd5-164"><span class="linenos">164</span></a>        <span class="n">raw_data</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="s1">&#39;ExternalLeg/corr&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="s1">&#39;complex&#39;</span><span class="p">)</span>
-</span><span id="read_ExternalLeg_hd5-165"><a href="#read_ExternalLeg_hd5-165"><span class="linenos">165</span></a>        <span class="n">corr_data</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">raw_data</span><span class="p">)</span>
-</span><span id="read_ExternalLeg_hd5-166"><a href="#read_ExternalLeg_hd5-166"><span class="linenos">166</span></a>        <span class="k">if</span> <span class="n">mom</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_ExternalLeg_hd5-167"><a href="#read_ExternalLeg_hd5-167"><span class="linenos">167</span></a>            <span class="n">mom</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="s1">&#39;ExternalLeg/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pIn&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
-</span><span id="read_ExternalLeg_hd5-168"><a href="#read_ExternalLeg_hd5-168"><span class="linenos">168</span></a>        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="read_ExternalLeg_hd5-169"><a href="#read_ExternalLeg_hd5-169"><span class="linenos">169</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">)</span>
-</span><span id="read_ExternalLeg_hd5-170"><a href="#read_ExternalLeg_hd5-170"><span class="linenos">170</span></a>
-</span><span id="read_ExternalLeg_hd5-171"><a href="#read_ExternalLeg_hd5-171"><span class="linenos">171</span></a>    <span class="n">rolled_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">rollaxis</span><span class="p">(</span><span class="n">corr_data</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">5</span><span class="p">)</span>
-</span><span id="read_ExternalLeg_hd5-172"><a href="#read_ExternalLeg_hd5-172"><span class="linenos">172</span></a>
-</span><span id="read_ExternalLeg_hd5-173"><a href="#read_ExternalLeg_hd5-173"><span class="linenos">173</span></a>    <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="read_ExternalLeg_hd5-174"><a href="#read_ExternalLeg_hd5-174"><span class="linenos">174</span></a>    <span class="k">for</span> <span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="read_ExternalLeg_hd5-175"><a href="#read_ExternalLeg_hd5-175"><span class="linenos">175</span></a>        <span class="n">real</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
-</span><span id="read_ExternalLeg_hd5-176"><a href="#read_ExternalLeg_hd5-176"><span class="linenos">176</span></a>        <span class="n">imag</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
-</span><span id="read_ExternalLeg_hd5-177"><a href="#read_ExternalLeg_hd5-177"><span class="linenos">177</span></a>        <span class="n">matrix</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="p">)</span>
-</span><span id="read_ExternalLeg_hd5-178"><a href="#read_ExternalLeg_hd5-178"><span class="linenos">178</span></a>
-</span><span id="read_ExternalLeg_hd5-179"><a href="#read_ExternalLeg_hd5-179"><span class="linenos">179</span></a>    <span class="k">return</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="n">mom</span><span class="p">)</span>
+    <a class="headerlink" href="#read_ExternalLeg_hd5"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_ExternalLeg_hd5-143"><a href="#read_ExternalLeg_hd5-143"><span class="linenos">143</span></a><span class="k">def</span> <span class="nf">read_ExternalLeg_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="read_ExternalLeg_hd5-144"><a href="#read_ExternalLeg_hd5-144"><span class="linenos">144</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons ExternalLeg hdf5 file and output an array of CObs</span>
+</span><span id="read_ExternalLeg_hd5-145"><a href="#read_ExternalLeg_hd5-145"><span class="linenos">145</span></a>
+</span><span id="read_ExternalLeg_hd5-146"><a href="#read_ExternalLeg_hd5-146"><span class="linenos">146</span></a><span class="sd">    Parameters</span>
+</span><span id="read_ExternalLeg_hd5-147"><a href="#read_ExternalLeg_hd5-147"><span class="linenos">147</span></a><span class="sd">    ----------</span>
+</span><span id="read_ExternalLeg_hd5-148"><a href="#read_ExternalLeg_hd5-148"><span class="linenos">148</span></a><span class="sd">    path : str</span>
+</span><span id="read_ExternalLeg_hd5-149"><a href="#read_ExternalLeg_hd5-149"><span class="linenos">149</span></a><span class="sd">        path to the files to read</span>
+</span><span id="read_ExternalLeg_hd5-150"><a href="#read_ExternalLeg_hd5-150"><span class="linenos">150</span></a><span class="sd">    filestem : str</span>
+</span><span id="read_ExternalLeg_hd5-151"><a href="#read_ExternalLeg_hd5-151"><span class="linenos">151</span></a><span class="sd">        namestem of the files to read</span>
+</span><span id="read_ExternalLeg_hd5-152"><a href="#read_ExternalLeg_hd5-152"><span class="linenos">152</span></a><span class="sd">    ens_id : str</span>
+</span><span id="read_ExternalLeg_hd5-153"><a href="#read_ExternalLeg_hd5-153"><span class="linenos">153</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
+</span><span id="read_ExternalLeg_hd5-154"><a href="#read_ExternalLeg_hd5-154"><span class="linenos">154</span></a><span class="sd">    idl : range</span>
+</span><span id="read_ExternalLeg_hd5-155"><a href="#read_ExternalLeg_hd5-155"><span class="linenos">155</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
+</span><span id="read_ExternalLeg_hd5-156"><a href="#read_ExternalLeg_hd5-156"><span class="linenos">156</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_ExternalLeg_hd5-157"><a href="#read_ExternalLeg_hd5-157"><span class="linenos">157</span></a>
+</span><span id="read_ExternalLeg_hd5-158"><a href="#read_ExternalLeg_hd5-158"><span class="linenos">158</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="read_ExternalLeg_hd5-159"><a href="#read_ExternalLeg_hd5-159"><span class="linenos">159</span></a>
+</span><span id="read_ExternalLeg_hd5-160"><a href="#read_ExternalLeg_hd5-160"><span class="linenos">160</span></a>    <span class="n">mom</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="read_ExternalLeg_hd5-161"><a href="#read_ExternalLeg_hd5-161"><span class="linenos">161</span></a>
+</span><span id="read_ExternalLeg_hd5-162"><a href="#read_ExternalLeg_hd5-162"><span class="linenos">162</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_ExternalLeg_hd5-163"><a href="#read_ExternalLeg_hd5-163"><span class="linenos">163</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
+</span><span id="read_ExternalLeg_hd5-164"><a href="#read_ExternalLeg_hd5-164"><span class="linenos">164</span></a>        <span class="n">file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="read_ExternalLeg_hd5-165"><a href="#read_ExternalLeg_hd5-165"><span class="linenos">165</span></a>        <span class="n">raw_data</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="s1">&#39;ExternalLeg/corr&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="s1">&#39;complex&#39;</span><span class="p">)</span>
+</span><span id="read_ExternalLeg_hd5-166"><a href="#read_ExternalLeg_hd5-166"><span class="linenos">166</span></a>        <span class="n">corr_data</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">raw_data</span><span class="p">)</span>
+</span><span id="read_ExternalLeg_hd5-167"><a href="#read_ExternalLeg_hd5-167"><span class="linenos">167</span></a>        <span class="k">if</span> <span class="n">mom</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_ExternalLeg_hd5-168"><a href="#read_ExternalLeg_hd5-168"><span class="linenos">168</span></a>            <span class="n">mom</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="s1">&#39;ExternalLeg/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pIn&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
+</span><span id="read_ExternalLeg_hd5-169"><a href="#read_ExternalLeg_hd5-169"><span class="linenos">169</span></a>        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="read_ExternalLeg_hd5-170"><a href="#read_ExternalLeg_hd5-170"><span class="linenos">170</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">)</span>
+</span><span id="read_ExternalLeg_hd5-171"><a href="#read_ExternalLeg_hd5-171"><span class="linenos">171</span></a>
+</span><span id="read_ExternalLeg_hd5-172"><a href="#read_ExternalLeg_hd5-172"><span class="linenos">172</span></a>    <span class="n">rolled_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">rollaxis</span><span class="p">(</span><span class="n">corr_data</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">5</span><span class="p">)</span>
+</span><span id="read_ExternalLeg_hd5-173"><a href="#read_ExternalLeg_hd5-173"><span class="linenos">173</span></a>
+</span><span id="read_ExternalLeg_hd5-174"><a href="#read_ExternalLeg_hd5-174"><span class="linenos">174</span></a>    <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="read_ExternalLeg_hd5-175"><a href="#read_ExternalLeg_hd5-175"><span class="linenos">175</span></a>    <span class="k">for</span> <span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="read_ExternalLeg_hd5-176"><a href="#read_ExternalLeg_hd5-176"><span class="linenos">176</span></a>        <span class="n">real</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
+</span><span id="read_ExternalLeg_hd5-177"><a href="#read_ExternalLeg_hd5-177"><span class="linenos">177</span></a>        <span class="n">imag</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
+</span><span id="read_ExternalLeg_hd5-178"><a href="#read_ExternalLeg_hd5-178"><span class="linenos">178</span></a>        <span class="n">matrix</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="p">)</span>
+</span><span id="read_ExternalLeg_hd5-179"><a href="#read_ExternalLeg_hd5-179"><span class="linenos">179</span></a>
+</span><span id="read_ExternalLeg_hd5-180"><a href="#read_ExternalLeg_hd5-180"><span class="linenos">180</span></a>    <span class="k">return</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="n">mom</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Read hadrons ExternalLeg hdf5 file and output an array of CObs</p>
 
@@ -888,70 +890,70 @@ If specified only configurations in the given range are read in.</li>
 
                 </section>
                 <section id="read_Bilinear_hd5">
-                            <div class="attr function"><a class="headerlink" href="#read_Bilinear_hd5">#&nbsp;&nbsp</a>
+                            <input id="read_Bilinear_hd5-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_Bilinear_hd5</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">filestem</span>, </span><span class="param"><span class="n">ens_id</span>, </span><span class="param"><span class="n">idl</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="read_Bilinear_hd5-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_Bilinear_hd5</span><span class="signature">(path, filestem, ens_id, idl=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_Bilinear_hd5-182"><a href="#read_Bilinear_hd5-182"><span class="linenos">182</span></a><span class="k">def</span> <span class="nf">read_Bilinear_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="read_Bilinear_hd5-183"><a href="#read_Bilinear_hd5-183"><span class="linenos">183</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons Bilinear hdf5 file and output an array of CObs</span>
-</span><span id="read_Bilinear_hd5-184"><a href="#read_Bilinear_hd5-184"><span class="linenos">184</span></a>
-</span><span id="read_Bilinear_hd5-185"><a href="#read_Bilinear_hd5-185"><span class="linenos">185</span></a><span class="sd">    Parameters</span>
-</span><span id="read_Bilinear_hd5-186"><a href="#read_Bilinear_hd5-186"><span class="linenos">186</span></a><span class="sd">    ----------</span>
-</span><span id="read_Bilinear_hd5-187"><a href="#read_Bilinear_hd5-187"><span class="linenos">187</span></a><span class="sd">    path : str</span>
-</span><span id="read_Bilinear_hd5-188"><a href="#read_Bilinear_hd5-188"><span class="linenos">188</span></a><span class="sd">        path to the files to read</span>
-</span><span id="read_Bilinear_hd5-189"><a href="#read_Bilinear_hd5-189"><span class="linenos">189</span></a><span class="sd">    filestem : str</span>
-</span><span id="read_Bilinear_hd5-190"><a href="#read_Bilinear_hd5-190"><span class="linenos">190</span></a><span class="sd">        namestem of the files to read</span>
-</span><span id="read_Bilinear_hd5-191"><a href="#read_Bilinear_hd5-191"><span class="linenos">191</span></a><span class="sd">    ens_id : str</span>
-</span><span id="read_Bilinear_hd5-192"><a href="#read_Bilinear_hd5-192"><span class="linenos">192</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
-</span><span id="read_Bilinear_hd5-193"><a href="#read_Bilinear_hd5-193"><span class="linenos">193</span></a><span class="sd">    idl : range</span>
-</span><span id="read_Bilinear_hd5-194"><a href="#read_Bilinear_hd5-194"><span class="linenos">194</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
-</span><span id="read_Bilinear_hd5-195"><a href="#read_Bilinear_hd5-195"><span class="linenos">195</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_Bilinear_hd5-196"><a href="#read_Bilinear_hd5-196"><span class="linenos">196</span></a>
-</span><span id="read_Bilinear_hd5-197"><a href="#read_Bilinear_hd5-197"><span class="linenos">197</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="read_Bilinear_hd5-198"><a href="#read_Bilinear_hd5-198"><span class="linenos">198</span></a>
-</span><span id="read_Bilinear_hd5-199"><a href="#read_Bilinear_hd5-199"><span class="linenos">199</span></a>    <span class="n">mom_in</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="read_Bilinear_hd5-200"><a href="#read_Bilinear_hd5-200"><span class="linenos">200</span></a>    <span class="n">mom_out</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="read_Bilinear_hd5-201"><a href="#read_Bilinear_hd5-201"><span class="linenos">201</span></a>
-</span><span id="read_Bilinear_hd5-202"><a href="#read_Bilinear_hd5-202"><span class="linenos">202</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="read_Bilinear_hd5-203"><a href="#read_Bilinear_hd5-203"><span class="linenos">203</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
-</span><span id="read_Bilinear_hd5-204"><a href="#read_Bilinear_hd5-204"><span class="linenos">204</span></a>        <span class="n">file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="read_Bilinear_hd5-205"><a href="#read_Bilinear_hd5-205"><span class="linenos">205</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">16</span><span class="p">):</span>
-</span><span id="read_Bilinear_hd5-206"><a href="#read_Bilinear_hd5-206"><span class="linenos">206</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;gamma&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;UTF-8&#39;</span><span class="p">)</span>
-</span><span id="read_Bilinear_hd5-207"><a href="#read_Bilinear_hd5-207"><span class="linenos">207</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="p">:</span>
-</span><span id="read_Bilinear_hd5-208"><a href="#read_Bilinear_hd5-208"><span class="linenos">208</span></a>                <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_Bilinear_hd5-209"><a href="#read_Bilinear_hd5-209"><span class="linenos">209</span></a>            <span class="n">raw_data</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/corr&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="s1">&#39;complex&#39;</span><span class="p">)</span>
-</span><span id="read_Bilinear_hd5-210"><a href="#read_Bilinear_hd5-210"><span class="linenos">210</span></a>            <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">raw_data</span><span class="p">)</span>
-</span><span id="read_Bilinear_hd5-211"><a href="#read_Bilinear_hd5-211"><span class="linenos">211</span></a>            <span class="k">if</span> <span class="n">mom_in</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_Bilinear_hd5-212"><a href="#read_Bilinear_hd5-212"><span class="linenos">212</span></a>                <span class="n">mom_in</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pIn&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
-</span><span id="read_Bilinear_hd5-213"><a href="#read_Bilinear_hd5-213"><span class="linenos">213</span></a>            <span class="k">if</span> <span class="n">mom_out</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_Bilinear_hd5-214"><a href="#read_Bilinear_hd5-214"><span class="linenos">214</span></a>                <span class="n">mom_out</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pOut&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
-</span><span id="read_Bilinear_hd5-215"><a href="#read_Bilinear_hd5-215"><span class="linenos">215</span></a>
-</span><span id="read_Bilinear_hd5-216"><a href="#read_Bilinear_hd5-216"><span class="linenos">216</span></a>        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="read_Bilinear_hd5-217"><a href="#read_Bilinear_hd5-217"><span class="linenos">217</span></a>
-</span><span id="read_Bilinear_hd5-218"><a href="#read_Bilinear_hd5-218"><span class="linenos">218</span></a>    <span class="n">result_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="read_Bilinear_hd5-219"><a href="#read_Bilinear_hd5-219"><span class="linenos">219</span></a>
-</span><span id="read_Bilinear_hd5-220"><a href="#read_Bilinear_hd5-220"><span class="linenos">220</span></a>    <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">data</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
-</span><span id="read_Bilinear_hd5-221"><a href="#read_Bilinear_hd5-221"><span class="linenos">221</span></a>        <span class="n">local_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
-</span><span id="read_Bilinear_hd5-222"><a href="#read_Bilinear_hd5-222"><span class="linenos">222</span></a>
-</span><span id="read_Bilinear_hd5-223"><a href="#read_Bilinear_hd5-223"><span class="linenos">223</span></a>        <span class="n">rolled_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">rollaxis</span><span class="p">(</span><span class="n">local_data</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">5</span><span class="p">)</span>
-</span><span id="read_Bilinear_hd5-224"><a href="#read_Bilinear_hd5-224"><span class="linenos">224</span></a>
-</span><span id="read_Bilinear_hd5-225"><a href="#read_Bilinear_hd5-225"><span class="linenos">225</span></a>        <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="read_Bilinear_hd5-226"><a href="#read_Bilinear_hd5-226"><span class="linenos">226</span></a>        <span class="k">for</span> <span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="read_Bilinear_hd5-227"><a href="#read_Bilinear_hd5-227"><span class="linenos">227</span></a>            <span class="n">real</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
-</span><span id="read_Bilinear_hd5-228"><a href="#read_Bilinear_hd5-228"><span class="linenos">228</span></a>            <span class="n">imag</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
-</span><span id="read_Bilinear_hd5-229"><a href="#read_Bilinear_hd5-229"><span class="linenos">229</span></a>            <span class="n">matrix</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="p">)</span>
-</span><span id="read_Bilinear_hd5-230"><a href="#read_Bilinear_hd5-230"><span class="linenos">230</span></a>
-</span><span id="read_Bilinear_hd5-231"><a href="#read_Bilinear_hd5-231"><span class="linenos">231</span></a>        <span class="n">result_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="n">mom_in</span><span class="p">,</span> <span class="n">mom_out</span><span class="o">=</span><span class="n">mom_out</span><span class="p">)</span>
-</span><span id="read_Bilinear_hd5-232"><a href="#read_Bilinear_hd5-232"><span class="linenos">232</span></a>
-</span><span id="read_Bilinear_hd5-233"><a href="#read_Bilinear_hd5-233"><span class="linenos">233</span></a>    <span class="k">return</span> <span class="n">result_dict</span>
+    <a class="headerlink" href="#read_Bilinear_hd5"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_Bilinear_hd5-183"><a href="#read_Bilinear_hd5-183"><span class="linenos">183</span></a><span class="k">def</span> <span class="nf">read_Bilinear_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="read_Bilinear_hd5-184"><a href="#read_Bilinear_hd5-184"><span class="linenos">184</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons Bilinear hdf5 file and output an array of CObs</span>
+</span><span id="read_Bilinear_hd5-185"><a href="#read_Bilinear_hd5-185"><span class="linenos">185</span></a>
+</span><span id="read_Bilinear_hd5-186"><a href="#read_Bilinear_hd5-186"><span class="linenos">186</span></a><span class="sd">    Parameters</span>
+</span><span id="read_Bilinear_hd5-187"><a href="#read_Bilinear_hd5-187"><span class="linenos">187</span></a><span class="sd">    ----------</span>
+</span><span id="read_Bilinear_hd5-188"><a href="#read_Bilinear_hd5-188"><span class="linenos">188</span></a><span class="sd">    path : str</span>
+</span><span id="read_Bilinear_hd5-189"><a href="#read_Bilinear_hd5-189"><span class="linenos">189</span></a><span class="sd">        path to the files to read</span>
+</span><span id="read_Bilinear_hd5-190"><a href="#read_Bilinear_hd5-190"><span class="linenos">190</span></a><span class="sd">    filestem : str</span>
+</span><span id="read_Bilinear_hd5-191"><a href="#read_Bilinear_hd5-191"><span class="linenos">191</span></a><span class="sd">        namestem of the files to read</span>
+</span><span id="read_Bilinear_hd5-192"><a href="#read_Bilinear_hd5-192"><span class="linenos">192</span></a><span class="sd">    ens_id : str</span>
+</span><span id="read_Bilinear_hd5-193"><a href="#read_Bilinear_hd5-193"><span class="linenos">193</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
+</span><span id="read_Bilinear_hd5-194"><a href="#read_Bilinear_hd5-194"><span class="linenos">194</span></a><span class="sd">    idl : range</span>
+</span><span id="read_Bilinear_hd5-195"><a href="#read_Bilinear_hd5-195"><span class="linenos">195</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
+</span><span id="read_Bilinear_hd5-196"><a href="#read_Bilinear_hd5-196"><span class="linenos">196</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_Bilinear_hd5-197"><a href="#read_Bilinear_hd5-197"><span class="linenos">197</span></a>
+</span><span id="read_Bilinear_hd5-198"><a href="#read_Bilinear_hd5-198"><span class="linenos">198</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="read_Bilinear_hd5-199"><a href="#read_Bilinear_hd5-199"><span class="linenos">199</span></a>
+</span><span id="read_Bilinear_hd5-200"><a href="#read_Bilinear_hd5-200"><span class="linenos">200</span></a>    <span class="n">mom_in</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="read_Bilinear_hd5-201"><a href="#read_Bilinear_hd5-201"><span class="linenos">201</span></a>    <span class="n">mom_out</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="read_Bilinear_hd5-202"><a href="#read_Bilinear_hd5-202"><span class="linenos">202</span></a>
+</span><span id="read_Bilinear_hd5-203"><a href="#read_Bilinear_hd5-203"><span class="linenos">203</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="read_Bilinear_hd5-204"><a href="#read_Bilinear_hd5-204"><span class="linenos">204</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
+</span><span id="read_Bilinear_hd5-205"><a href="#read_Bilinear_hd5-205"><span class="linenos">205</span></a>        <span class="n">file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="read_Bilinear_hd5-206"><a href="#read_Bilinear_hd5-206"><span class="linenos">206</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">16</span><span class="p">):</span>
+</span><span id="read_Bilinear_hd5-207"><a href="#read_Bilinear_hd5-207"><span class="linenos">207</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;gamma&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;UTF-8&#39;</span><span class="p">)</span>
+</span><span id="read_Bilinear_hd5-208"><a href="#read_Bilinear_hd5-208"><span class="linenos">208</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="p">:</span>
+</span><span id="read_Bilinear_hd5-209"><a href="#read_Bilinear_hd5-209"><span class="linenos">209</span></a>                <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_Bilinear_hd5-210"><a href="#read_Bilinear_hd5-210"><span class="linenos">210</span></a>            <span class="n">raw_data</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/corr&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="s1">&#39;complex&#39;</span><span class="p">)</span>
+</span><span id="read_Bilinear_hd5-211"><a href="#read_Bilinear_hd5-211"><span class="linenos">211</span></a>            <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">raw_data</span><span class="p">)</span>
+</span><span id="read_Bilinear_hd5-212"><a href="#read_Bilinear_hd5-212"><span class="linenos">212</span></a>            <span class="k">if</span> <span class="n">mom_in</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_Bilinear_hd5-213"><a href="#read_Bilinear_hd5-213"><span class="linenos">213</span></a>                <span class="n">mom_in</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pIn&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
+</span><span id="read_Bilinear_hd5-214"><a href="#read_Bilinear_hd5-214"><span class="linenos">214</span></a>            <span class="k">if</span> <span class="n">mom_out</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_Bilinear_hd5-215"><a href="#read_Bilinear_hd5-215"><span class="linenos">215</span></a>                <span class="n">mom_out</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="s1">&#39;Bilinear/Bilinear_&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pOut&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
+</span><span id="read_Bilinear_hd5-216"><a href="#read_Bilinear_hd5-216"><span class="linenos">216</span></a>
+</span><span id="read_Bilinear_hd5-217"><a href="#read_Bilinear_hd5-217"><span class="linenos">217</span></a>        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="read_Bilinear_hd5-218"><a href="#read_Bilinear_hd5-218"><span class="linenos">218</span></a>
+</span><span id="read_Bilinear_hd5-219"><a href="#read_Bilinear_hd5-219"><span class="linenos">219</span></a>    <span class="n">result_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="read_Bilinear_hd5-220"><a href="#read_Bilinear_hd5-220"><span class="linenos">220</span></a>
+</span><span id="read_Bilinear_hd5-221"><a href="#read_Bilinear_hd5-221"><span class="linenos">221</span></a>    <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">data</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+</span><span id="read_Bilinear_hd5-222"><a href="#read_Bilinear_hd5-222"><span class="linenos">222</span></a>        <span class="n">local_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
+</span><span id="read_Bilinear_hd5-223"><a href="#read_Bilinear_hd5-223"><span class="linenos">223</span></a>
+</span><span id="read_Bilinear_hd5-224"><a href="#read_Bilinear_hd5-224"><span class="linenos">224</span></a>        <span class="n">rolled_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">rollaxis</span><span class="p">(</span><span class="n">local_data</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">5</span><span class="p">)</span>
+</span><span id="read_Bilinear_hd5-225"><a href="#read_Bilinear_hd5-225"><span class="linenos">225</span></a>
+</span><span id="read_Bilinear_hd5-226"><a href="#read_Bilinear_hd5-226"><span class="linenos">226</span></a>        <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="read_Bilinear_hd5-227"><a href="#read_Bilinear_hd5-227"><span class="linenos">227</span></a>        <span class="k">for</span> <span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="read_Bilinear_hd5-228"><a href="#read_Bilinear_hd5-228"><span class="linenos">228</span></a>            <span class="n">real</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
+</span><span id="read_Bilinear_hd5-229"><a href="#read_Bilinear_hd5-229"><span class="linenos">229</span></a>            <span class="n">imag</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
+</span><span id="read_Bilinear_hd5-230"><a href="#read_Bilinear_hd5-230"><span class="linenos">230</span></a>            <span class="n">matrix</span><span class="p">[</span><span class="n">si</span><span class="p">,</span> <span class="n">sj</span><span class="p">,</span> <span class="n">ci</span><span class="p">,</span> <span class="n">cj</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="p">)</span>
+</span><span id="read_Bilinear_hd5-231"><a href="#read_Bilinear_hd5-231"><span class="linenos">231</span></a>
+</span><span id="read_Bilinear_hd5-232"><a href="#read_Bilinear_hd5-232"><span class="linenos">232</span></a>        <span class="n">result_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="n">mom_in</span><span class="p">,</span> <span class="n">mom_out</span><span class="o">=</span><span class="n">mom_out</span><span class="p">)</span>
+</span><span id="read_Bilinear_hd5-233"><a href="#read_Bilinear_hd5-233"><span class="linenos">233</span></a>
+</span><span id="read_Bilinear_hd5-234"><a href="#read_Bilinear_hd5-234"><span class="linenos">234</span></a>    <span class="k">return</span> <span class="n">result_dict</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Read hadrons Bilinear hdf5 file and output an array of CObs</p>
 
@@ -972,97 +974,97 @@ If specified only configurations in the given range are read in.</li>
 
                 </section>
                 <section id="read_Fourquark_hd5">
-                            <div class="attr function"><a class="headerlink" href="#read_Fourquark_hd5">#&nbsp;&nbsp</a>
+                            <input id="read_Fourquark_hd5-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_Fourquark_hd5</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">filestem</span>, </span><span class="param"><span class="n">ens_id</span>, </span><span class="param"><span class="n">idl</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="n">vertices</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;VA&#39;</span><span class="p">,</span> <span class="s1">&#39;AV&#39;</span><span class="p">]</span></span>)</span>
+
+                <label class="view-source-button" for="read_Fourquark_hd5-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_Fourquark_hd5</span><span class="signature">(path, filestem, ens_id, idl=None, vertices=[&#39;VA&#39;, &#39;AV&#39;])</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_Fourquark_hd5-236"><a href="#read_Fourquark_hd5-236"><span class="linenos">236</span></a><span class="k">def</span> <span class="nf">read_Fourquark_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">vertices</span><span class="o">=</span><span class="p">[</span><span class="s2">&quot;VA&quot;</span><span class="p">,</span> <span class="s2">&quot;AV&quot;</span><span class="p">]):</span>
-</span><span id="read_Fourquark_hd5-237"><a href="#read_Fourquark_hd5-237"><span class="linenos">237</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons FourquarkFullyConnected hdf5 file and output an array of CObs</span>
-</span><span id="read_Fourquark_hd5-238"><a href="#read_Fourquark_hd5-238"><span class="linenos">238</span></a>
-</span><span id="read_Fourquark_hd5-239"><a href="#read_Fourquark_hd5-239"><span class="linenos">239</span></a><span class="sd">    Parameters</span>
-</span><span id="read_Fourquark_hd5-240"><a href="#read_Fourquark_hd5-240"><span class="linenos">240</span></a><span class="sd">    ----------</span>
-</span><span id="read_Fourquark_hd5-241"><a href="#read_Fourquark_hd5-241"><span class="linenos">241</span></a><span class="sd">    path : str</span>
-</span><span id="read_Fourquark_hd5-242"><a href="#read_Fourquark_hd5-242"><span class="linenos">242</span></a><span class="sd">        path to the files to read</span>
-</span><span id="read_Fourquark_hd5-243"><a href="#read_Fourquark_hd5-243"><span class="linenos">243</span></a><span class="sd">    filestem : str</span>
-</span><span id="read_Fourquark_hd5-244"><a href="#read_Fourquark_hd5-244"><span class="linenos">244</span></a><span class="sd">        namestem of the files to read</span>
-</span><span id="read_Fourquark_hd5-245"><a href="#read_Fourquark_hd5-245"><span class="linenos">245</span></a><span class="sd">    ens_id : str</span>
-</span><span id="read_Fourquark_hd5-246"><a href="#read_Fourquark_hd5-246"><span class="linenos">246</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
-</span><span id="read_Fourquark_hd5-247"><a href="#read_Fourquark_hd5-247"><span class="linenos">247</span></a><span class="sd">    idl : range</span>
-</span><span id="read_Fourquark_hd5-248"><a href="#read_Fourquark_hd5-248"><span class="linenos">248</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
-</span><span id="read_Fourquark_hd5-249"><a href="#read_Fourquark_hd5-249"><span class="linenos">249</span></a><span class="sd">    vertices : list</span>
-</span><span id="read_Fourquark_hd5-250"><a href="#read_Fourquark_hd5-250"><span class="linenos">250</span></a><span class="sd">        Vertex functions to be extracted.</span>
-</span><span id="read_Fourquark_hd5-251"><a href="#read_Fourquark_hd5-251"><span class="linenos">251</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_Fourquark_hd5-252"><a href="#read_Fourquark_hd5-252"><span class="linenos">252</span></a>
-</span><span id="read_Fourquark_hd5-253"><a href="#read_Fourquark_hd5-253"><span class="linenos">253</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="read_Fourquark_hd5-254"><a href="#read_Fourquark_hd5-254"><span class="linenos">254</span></a>
-</span><span id="read_Fourquark_hd5-255"><a href="#read_Fourquark_hd5-255"><span class="linenos">255</span></a>    <span class="n">mom_in</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="read_Fourquark_hd5-256"><a href="#read_Fourquark_hd5-256"><span class="linenos">256</span></a>    <span class="n">mom_out</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="read_Fourquark_hd5-257"><a href="#read_Fourquark_hd5-257"><span class="linenos">257</span></a>
-</span><span id="read_Fourquark_hd5-258"><a href="#read_Fourquark_hd5-258"><span class="linenos">258</span></a>    <span class="n">vertex_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_Fourquark_hd5-259"><a href="#read_Fourquark_hd5-259"><span class="linenos">259</span></a>    <span class="k">for</span> <span class="n">vertex</span> <span class="ow">in</span> <span class="n">vertices</span><span class="p">:</span>
-</span><span id="read_Fourquark_hd5-260"><a href="#read_Fourquark_hd5-260"><span class="linenos">260</span></a>        <span class="n">vertex_names</span> <span class="o">+=</span> <span class="n">_get_lorentz_names</span><span class="p">(</span><span class="n">vertex</span><span class="p">)</span>
-</span><span id="read_Fourquark_hd5-261"><a href="#read_Fourquark_hd5-261"><span class="linenos">261</span></a>
-</span><span id="read_Fourquark_hd5-262"><a href="#read_Fourquark_hd5-262"><span class="linenos">262</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="read_Fourquark_hd5-263"><a href="#read_Fourquark_hd5-263"><span class="linenos">263</span></a>
-</span><span id="read_Fourquark_hd5-264"><a href="#read_Fourquark_hd5-264"><span class="linenos">264</span></a>    <span class="n">tree</span> <span class="o">=</span> <span class="s1">&#39;FourQuarkFullyConnected/FourQuarkFullyConnected_&#39;</span>
-</span><span id="read_Fourquark_hd5-265"><a href="#read_Fourquark_hd5-265"><span class="linenos">265</span></a>
-</span><span id="read_Fourquark_hd5-266"><a href="#read_Fourquark_hd5-266"><span class="linenos">266</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
-</span><span id="read_Fourquark_hd5-267"><a href="#read_Fourquark_hd5-267"><span class="linenos">267</span></a>        <span class="n">file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="read_Fourquark_hd5-268"><a href="#read_Fourquark_hd5-268"><span class="linenos">268</span></a>
-</span><span id="read_Fourquark_hd5-269"><a href="#read_Fourquark_hd5-269"><span class="linenos">269</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">32</span><span class="p">):</span>
-</span><span id="read_Fourquark_hd5-270"><a href="#read_Fourquark_hd5-270"><span class="linenos">270</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;gammaA&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;UTF-8&#39;</span><span class="p">),</span> <span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;gammaB&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;UTF-8&#39;</span><span class="p">))</span>
-</span><span id="read_Fourquark_hd5-271"><a href="#read_Fourquark_hd5-271"><span class="linenos">271</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">vertex_names</span><span class="p">:</span>
-</span><span id="read_Fourquark_hd5-272"><a href="#read_Fourquark_hd5-272"><span class="linenos">272</span></a>                <span class="k">if</span> <span class="n">name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="p">:</span>
-</span><span id="read_Fourquark_hd5-273"><a href="#read_Fourquark_hd5-273"><span class="linenos">273</span></a>                    <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_Fourquark_hd5-274"><a href="#read_Fourquark_hd5-274"><span class="linenos">274</span></a>                <span class="n">raw_data</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/corr&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="s1">&#39;complex&#39;</span><span class="p">)</span>
-</span><span id="read_Fourquark_hd5-275"><a href="#read_Fourquark_hd5-275"><span class="linenos">275</span></a>                <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">raw_data</span><span class="p">)</span>
-</span><span id="read_Fourquark_hd5-276"><a href="#read_Fourquark_hd5-276"><span class="linenos">276</span></a>                <span class="k">if</span> <span class="n">mom_in</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_Fourquark_hd5-277"><a href="#read_Fourquark_hd5-277"><span class="linenos">277</span></a>                    <span class="n">mom_in</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pIn&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
-</span><span id="read_Fourquark_hd5-278"><a href="#read_Fourquark_hd5-278"><span class="linenos">278</span></a>                <span class="k">if</span> <span class="n">mom_out</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_Fourquark_hd5-279"><a href="#read_Fourquark_hd5-279"><span class="linenos">279</span></a>                    <span class="n">mom_out</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pOut&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
-</span><span id="read_Fourquark_hd5-280"><a href="#read_Fourquark_hd5-280"><span class="linenos">280</span></a>
-</span><span id="read_Fourquark_hd5-281"><a href="#read_Fourquark_hd5-281"><span class="linenos">281</span></a>        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="read_Fourquark_hd5-282"><a href="#read_Fourquark_hd5-282"><span class="linenos">282</span></a>
-</span><span id="read_Fourquark_hd5-283"><a href="#read_Fourquark_hd5-283"><span class="linenos">283</span></a>    <span class="n">intermediate_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="read_Fourquark_hd5-284"><a href="#read_Fourquark_hd5-284"><span class="linenos">284</span></a>
-</span><span id="read_Fourquark_hd5-285"><a href="#read_Fourquark_hd5-285"><span class="linenos">285</span></a>    <span class="k">for</span> <span class="n">vertex</span> <span class="ow">in</span> <span class="n">vertices</span><span class="p">:</span>
-</span><span id="read_Fourquark_hd5-286"><a href="#read_Fourquark_hd5-286"><span class="linenos">286</span></a>        <span class="n">lorentz_names</span> <span class="o">=</span> <span class="n">_get_lorentz_names</span><span class="p">(</span><span class="n">vertex</span><span class="p">)</span>
-</span><span id="read_Fourquark_hd5-287"><a href="#read_Fourquark_hd5-287"><span class="linenos">287</span></a>        <span class="k">for</span> <span class="n">v_name</span> <span class="ow">in</span> <span class="n">lorentz_names</span><span class="p">:</span>
-</span><span id="read_Fourquark_hd5-288"><a href="#read_Fourquark_hd5-288"><span class="linenos">288</span></a>            <span class="k">if</span> <span class="n">v_name</span> <span class="ow">in</span> <span class="p">[(</span><span class="s1">&#39;SigmaXY&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaZT&#39;</span><span class="p">),</span>
-</span><span id="read_Fourquark_hd5-289"><a href="#read_Fourquark_hd5-289"><span class="linenos">289</span></a>                          <span class="p">(</span><span class="s1">&#39;SigmaXT&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaYZ&#39;</span><span class="p">),</span>
-</span><span id="read_Fourquark_hd5-290"><a href="#read_Fourquark_hd5-290"><span class="linenos">290</span></a>                          <span class="p">(</span><span class="s1">&#39;SigmaYZ&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaXT&#39;</span><span class="p">),</span>
-</span><span id="read_Fourquark_hd5-291"><a href="#read_Fourquark_hd5-291"><span class="linenos">291</span></a>                          <span class="p">(</span><span class="s1">&#39;SigmaZT&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaXY&#39;</span><span class="p">)]:</span>
-</span><span id="read_Fourquark_hd5-292"><a href="#read_Fourquark_hd5-292"><span class="linenos">292</span></a>                <span class="n">sign</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
-</span><span id="read_Fourquark_hd5-293"><a href="#read_Fourquark_hd5-293"><span class="linenos">293</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_Fourquark_hd5-294"><a href="#read_Fourquark_hd5-294"><span class="linenos">294</span></a>                <span class="n">sign</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="read_Fourquark_hd5-295"><a href="#read_Fourquark_hd5-295"><span class="linenos">295</span></a>            <span class="k">if</span> <span class="n">vertex</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">intermediate_dict</span><span class="p">:</span>
-</span><span id="read_Fourquark_hd5-296"><a href="#read_Fourquark_hd5-296"><span class="linenos">296</span></a>                <span class="n">intermediate_dict</span><span class="p">[</span><span class="n">vertex</span><span class="p">]</span> <span class="o">=</span> <span class="n">sign</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">[</span><span class="n">v_name</span><span class="p">])</span>
-</span><span id="read_Fourquark_hd5-297"><a href="#read_Fourquark_hd5-297"><span class="linenos">297</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_Fourquark_hd5-298"><a href="#read_Fourquark_hd5-298"><span class="linenos">298</span></a>                <span class="n">intermediate_dict</span><span class="p">[</span><span class="n">vertex</span><span class="p">]</span> <span class="o">+=</span> <span class="n">sign</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">[</span><span class="n">v_name</span><span class="p">])</span>
-</span><span id="read_Fourquark_hd5-299"><a href="#read_Fourquark_hd5-299"><span class="linenos">299</span></a>
-</span><span id="read_Fourquark_hd5-300"><a href="#read_Fourquark_hd5-300"><span class="linenos">300</span></a>    <span class="n">result_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="read_Fourquark_hd5-301"><a href="#read_Fourquark_hd5-301"><span class="linenos">301</span></a>
-</span><span id="read_Fourquark_hd5-302"><a href="#read_Fourquark_hd5-302"><span class="linenos">302</span></a>    <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">data</span> <span class="ow">in</span> <span class="n">intermediate_dict</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
-</span><span id="read_Fourquark_hd5-303"><a href="#read_Fourquark_hd5-303"><span class="linenos">303</span></a>
-</span><span id="read_Fourquark_hd5-304"><a href="#read_Fourquark_hd5-304"><span class="linenos">304</span></a>        <span class="n">rolled_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">moveaxis</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">8</span><span class="p">)</span>
-</span><span id="read_Fourquark_hd5-305"><a href="#read_Fourquark_hd5-305"><span class="linenos">305</span></a>
-</span><span id="read_Fourquark_hd5-306"><a href="#read_Fourquark_hd5-306"><span class="linenos">306</span></a>        <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="read_Fourquark_hd5-307"><a href="#read_Fourquark_hd5-307"><span class="linenos">307</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="read_Fourquark_hd5-308"><a href="#read_Fourquark_hd5-308"><span class="linenos">308</span></a>            <span class="n">real</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
-</span><span id="read_Fourquark_hd5-309"><a href="#read_Fourquark_hd5-309"><span class="linenos">309</span></a>            <span class="n">imag</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
-</span><span id="read_Fourquark_hd5-310"><a href="#read_Fourquark_hd5-310"><span class="linenos">310</span></a>            <span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="p">)</span>
-</span><span id="read_Fourquark_hd5-311"><a href="#read_Fourquark_hd5-311"><span class="linenos">311</span></a>
-</span><span id="read_Fourquark_hd5-312"><a href="#read_Fourquark_hd5-312"><span class="linenos">312</span></a>        <span class="n">result_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="n">mom_in</span><span class="p">,</span> <span class="n">mom_out</span><span class="o">=</span><span class="n">mom_out</span><span class="p">)</span>
-</span><span id="read_Fourquark_hd5-313"><a href="#read_Fourquark_hd5-313"><span class="linenos">313</span></a>
-</span><span id="read_Fourquark_hd5-314"><a href="#read_Fourquark_hd5-314"><span class="linenos">314</span></a>    <span class="k">return</span> <span class="n">result_dict</span>
+    <a class="headerlink" href="#read_Fourquark_hd5"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_Fourquark_hd5-237"><a href="#read_Fourquark_hd5-237"><span class="linenos">237</span></a><span class="k">def</span> <span class="nf">read_Fourquark_hd5</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">ens_id</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">vertices</span><span class="o">=</span><span class="p">[</span><span class="s2">&quot;VA&quot;</span><span class="p">,</span> <span class="s2">&quot;AV&quot;</span><span class="p">]):</span>
+</span><span id="read_Fourquark_hd5-238"><a href="#read_Fourquark_hd5-238"><span class="linenos">238</span></a>    <span class="sd">&quot;&quot;&quot;Read hadrons FourquarkFullyConnected hdf5 file and output an array of CObs</span>
+</span><span id="read_Fourquark_hd5-239"><a href="#read_Fourquark_hd5-239"><span class="linenos">239</span></a>
+</span><span id="read_Fourquark_hd5-240"><a href="#read_Fourquark_hd5-240"><span class="linenos">240</span></a><span class="sd">    Parameters</span>
+</span><span id="read_Fourquark_hd5-241"><a href="#read_Fourquark_hd5-241"><span class="linenos">241</span></a><span class="sd">    ----------</span>
+</span><span id="read_Fourquark_hd5-242"><a href="#read_Fourquark_hd5-242"><span class="linenos">242</span></a><span class="sd">    path : str</span>
+</span><span id="read_Fourquark_hd5-243"><a href="#read_Fourquark_hd5-243"><span class="linenos">243</span></a><span class="sd">        path to the files to read</span>
+</span><span id="read_Fourquark_hd5-244"><a href="#read_Fourquark_hd5-244"><span class="linenos">244</span></a><span class="sd">    filestem : str</span>
+</span><span id="read_Fourquark_hd5-245"><a href="#read_Fourquark_hd5-245"><span class="linenos">245</span></a><span class="sd">        namestem of the files to read</span>
+</span><span id="read_Fourquark_hd5-246"><a href="#read_Fourquark_hd5-246"><span class="linenos">246</span></a><span class="sd">    ens_id : str</span>
+</span><span id="read_Fourquark_hd5-247"><a href="#read_Fourquark_hd5-247"><span class="linenos">247</span></a><span class="sd">        name of the ensemble, required for internal bookkeeping</span>
+</span><span id="read_Fourquark_hd5-248"><a href="#read_Fourquark_hd5-248"><span class="linenos">248</span></a><span class="sd">    idl : range</span>
+</span><span id="read_Fourquark_hd5-249"><a href="#read_Fourquark_hd5-249"><span class="linenos">249</span></a><span class="sd">        If specified only configurations in the given range are read in.</span>
+</span><span id="read_Fourquark_hd5-250"><a href="#read_Fourquark_hd5-250"><span class="linenos">250</span></a><span class="sd">    vertices : list</span>
+</span><span id="read_Fourquark_hd5-251"><a href="#read_Fourquark_hd5-251"><span class="linenos">251</span></a><span class="sd">        Vertex functions to be extracted.</span>
+</span><span id="read_Fourquark_hd5-252"><a href="#read_Fourquark_hd5-252"><span class="linenos">252</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_Fourquark_hd5-253"><a href="#read_Fourquark_hd5-253"><span class="linenos">253</span></a>
+</span><span id="read_Fourquark_hd5-254"><a href="#read_Fourquark_hd5-254"><span class="linenos">254</span></a>    <span class="n">files</span><span class="p">,</span> <span class="n">idx</span> <span class="o">=</span> <span class="n">_get_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">filestem</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="read_Fourquark_hd5-255"><a href="#read_Fourquark_hd5-255"><span class="linenos">255</span></a>
+</span><span id="read_Fourquark_hd5-256"><a href="#read_Fourquark_hd5-256"><span class="linenos">256</span></a>    <span class="n">mom_in</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="read_Fourquark_hd5-257"><a href="#read_Fourquark_hd5-257"><span class="linenos">257</span></a>    <span class="n">mom_out</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="read_Fourquark_hd5-258"><a href="#read_Fourquark_hd5-258"><span class="linenos">258</span></a>
+</span><span id="read_Fourquark_hd5-259"><a href="#read_Fourquark_hd5-259"><span class="linenos">259</span></a>    <span class="n">vertex_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_Fourquark_hd5-260"><a href="#read_Fourquark_hd5-260"><span class="linenos">260</span></a>    <span class="k">for</span> <span class="n">vertex</span> <span class="ow">in</span> <span class="n">vertices</span><span class="p">:</span>
+</span><span id="read_Fourquark_hd5-261"><a href="#read_Fourquark_hd5-261"><span class="linenos">261</span></a>        <span class="n">vertex_names</span> <span class="o">+=</span> <span class="n">_get_lorentz_names</span><span class="p">(</span><span class="n">vertex</span><span class="p">)</span>
+</span><span id="read_Fourquark_hd5-262"><a href="#read_Fourquark_hd5-262"><span class="linenos">262</span></a>
+</span><span id="read_Fourquark_hd5-263"><a href="#read_Fourquark_hd5-263"><span class="linenos">263</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="read_Fourquark_hd5-264"><a href="#read_Fourquark_hd5-264"><span class="linenos">264</span></a>
+</span><span id="read_Fourquark_hd5-265"><a href="#read_Fourquark_hd5-265"><span class="linenos">265</span></a>    <span class="n">tree</span> <span class="o">=</span> <span class="s1">&#39;FourQuarkFullyConnected/FourQuarkFullyConnected_&#39;</span>
+</span><span id="read_Fourquark_hd5-266"><a href="#read_Fourquark_hd5-266"><span class="linenos">266</span></a>
+</span><span id="read_Fourquark_hd5-267"><a href="#read_Fourquark_hd5-267"><span class="linenos">267</span></a>    <span class="k">for</span> <span class="n">hd5_file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
+</span><span id="read_Fourquark_hd5-268"><a href="#read_Fourquark_hd5-268"><span class="linenos">268</span></a>        <span class="n">file</span> <span class="o">=</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">hd5_file</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="read_Fourquark_hd5-269"><a href="#read_Fourquark_hd5-269"><span class="linenos">269</span></a>
+</span><span id="read_Fourquark_hd5-270"><a href="#read_Fourquark_hd5-270"><span class="linenos">270</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">32</span><span class="p">):</span>
+</span><span id="read_Fourquark_hd5-271"><a href="#read_Fourquark_hd5-271"><span class="linenos">271</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;gammaA&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;UTF-8&#39;</span><span class="p">),</span> <span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;gammaB&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">decode</span><span class="p">(</span><span class="s1">&#39;UTF-8&#39;</span><span class="p">))</span>
+</span><span id="read_Fourquark_hd5-272"><a href="#read_Fourquark_hd5-272"><span class="linenos">272</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">vertex_names</span><span class="p">:</span>
+</span><span id="read_Fourquark_hd5-273"><a href="#read_Fourquark_hd5-273"><span class="linenos">273</span></a>                <span class="k">if</span> <span class="n">name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="p">:</span>
+</span><span id="read_Fourquark_hd5-274"><a href="#read_Fourquark_hd5-274"><span class="linenos">274</span></a>                    <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_Fourquark_hd5-275"><a href="#read_Fourquark_hd5-275"><span class="linenos">275</span></a>                <span class="n">raw_data</span> <span class="o">=</span> <span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/corr&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">view</span><span class="p">(</span><span class="s1">&#39;complex&#39;</span><span class="p">)</span>
+</span><span id="read_Fourquark_hd5-276"><a href="#read_Fourquark_hd5-276"><span class="linenos">276</span></a>                <span class="n">corr_data</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">raw_data</span><span class="p">)</span>
+</span><span id="read_Fourquark_hd5-277"><a href="#read_Fourquark_hd5-277"><span class="linenos">277</span></a>                <span class="k">if</span> <span class="n">mom_in</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_Fourquark_hd5-278"><a href="#read_Fourquark_hd5-278"><span class="linenos">278</span></a>                    <span class="n">mom_in</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pIn&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
+</span><span id="read_Fourquark_hd5-279"><a href="#read_Fourquark_hd5-279"><span class="linenos">279</span></a>                <span class="k">if</span> <span class="n">mom_out</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_Fourquark_hd5-280"><a href="#read_Fourquark_hd5-280"><span class="linenos">280</span></a>                    <span class="n">mom_out</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">file</span><span class="p">[</span><span class="n">tree</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/info&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;pOut&#39;</span><span class="p">])[</span><span class="mi">3</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">float</span><span class="p">)</span>
+</span><span id="read_Fourquark_hd5-281"><a href="#read_Fourquark_hd5-281"><span class="linenos">281</span></a>
+</span><span id="read_Fourquark_hd5-282"><a href="#read_Fourquark_hd5-282"><span class="linenos">282</span></a>        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="read_Fourquark_hd5-283"><a href="#read_Fourquark_hd5-283"><span class="linenos">283</span></a>
+</span><span id="read_Fourquark_hd5-284"><a href="#read_Fourquark_hd5-284"><span class="linenos">284</span></a>    <span class="n">intermediate_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="read_Fourquark_hd5-285"><a href="#read_Fourquark_hd5-285"><span class="linenos">285</span></a>
+</span><span id="read_Fourquark_hd5-286"><a href="#read_Fourquark_hd5-286"><span class="linenos">286</span></a>    <span class="k">for</span> <span class="n">vertex</span> <span class="ow">in</span> <span class="n">vertices</span><span class="p">:</span>
+</span><span id="read_Fourquark_hd5-287"><a href="#read_Fourquark_hd5-287"><span class="linenos">287</span></a>        <span class="n">lorentz_names</span> <span class="o">=</span> <span class="n">_get_lorentz_names</span><span class="p">(</span><span class="n">vertex</span><span class="p">)</span>
+</span><span id="read_Fourquark_hd5-288"><a href="#read_Fourquark_hd5-288"><span class="linenos">288</span></a>        <span class="k">for</span> <span class="n">v_name</span> <span class="ow">in</span> <span class="n">lorentz_names</span><span class="p">:</span>
+</span><span id="read_Fourquark_hd5-289"><a href="#read_Fourquark_hd5-289"><span class="linenos">289</span></a>            <span class="k">if</span> <span class="n">v_name</span> <span class="ow">in</span> <span class="p">[(</span><span class="s1">&#39;SigmaXY&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaZT&#39;</span><span class="p">),</span>
+</span><span id="read_Fourquark_hd5-290"><a href="#read_Fourquark_hd5-290"><span class="linenos">290</span></a>                          <span class="p">(</span><span class="s1">&#39;SigmaXT&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaYZ&#39;</span><span class="p">),</span>
+</span><span id="read_Fourquark_hd5-291"><a href="#read_Fourquark_hd5-291"><span class="linenos">291</span></a>                          <span class="p">(</span><span class="s1">&#39;SigmaYZ&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaXT&#39;</span><span class="p">),</span>
+</span><span id="read_Fourquark_hd5-292"><a href="#read_Fourquark_hd5-292"><span class="linenos">292</span></a>                          <span class="p">(</span><span class="s1">&#39;SigmaZT&#39;</span><span class="p">,</span> <span class="s1">&#39;SigmaXY&#39;</span><span class="p">)]:</span>
+</span><span id="read_Fourquark_hd5-293"><a href="#read_Fourquark_hd5-293"><span class="linenos">293</span></a>                <span class="n">sign</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
+</span><span id="read_Fourquark_hd5-294"><a href="#read_Fourquark_hd5-294"><span class="linenos">294</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_Fourquark_hd5-295"><a href="#read_Fourquark_hd5-295"><span class="linenos">295</span></a>                <span class="n">sign</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="read_Fourquark_hd5-296"><a href="#read_Fourquark_hd5-296"><span class="linenos">296</span></a>            <span class="k">if</span> <span class="n">vertex</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">intermediate_dict</span><span class="p">:</span>
+</span><span id="read_Fourquark_hd5-297"><a href="#read_Fourquark_hd5-297"><span class="linenos">297</span></a>                <span class="n">intermediate_dict</span><span class="p">[</span><span class="n">vertex</span><span class="p">]</span> <span class="o">=</span> <span class="n">sign</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">[</span><span class="n">v_name</span><span class="p">])</span>
+</span><span id="read_Fourquark_hd5-298"><a href="#read_Fourquark_hd5-298"><span class="linenos">298</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_Fourquark_hd5-299"><a href="#read_Fourquark_hd5-299"><span class="linenos">299</span></a>                <span class="n">intermediate_dict</span><span class="p">[</span><span class="n">vertex</span><span class="p">]</span> <span class="o">+=</span> <span class="n">sign</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">corr_data</span><span class="p">[</span><span class="n">v_name</span><span class="p">])</span>
+</span><span id="read_Fourquark_hd5-300"><a href="#read_Fourquark_hd5-300"><span class="linenos">300</span></a>
+</span><span id="read_Fourquark_hd5-301"><a href="#read_Fourquark_hd5-301"><span class="linenos">301</span></a>    <span class="n">result_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="read_Fourquark_hd5-302"><a href="#read_Fourquark_hd5-302"><span class="linenos">302</span></a>
+</span><span id="read_Fourquark_hd5-303"><a href="#read_Fourquark_hd5-303"><span class="linenos">303</span></a>    <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">data</span> <span class="ow">in</span> <span class="n">intermediate_dict</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+</span><span id="read_Fourquark_hd5-304"><a href="#read_Fourquark_hd5-304"><span class="linenos">304</span></a>
+</span><span id="read_Fourquark_hd5-305"><a href="#read_Fourquark_hd5-305"><span class="linenos">305</span></a>        <span class="n">rolled_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">moveaxis</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">8</span><span class="p">)</span>
+</span><span id="read_Fourquark_hd5-306"><a href="#read_Fourquark_hd5-306"><span class="linenos">306</span></a>
+</span><span id="read_Fourquark_hd5-307"><a href="#read_Fourquark_hd5-307"><span class="linenos">307</span></a>        <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="read_Fourquark_hd5-308"><a href="#read_Fourquark_hd5-308"><span class="linenos">308</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">rolled_array</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="read_Fourquark_hd5-309"><a href="#read_Fourquark_hd5-309"><span class="linenos">309</span></a>            <span class="n">real</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
+</span><span id="read_Fourquark_hd5-310"><a href="#read_Fourquark_hd5-310"><span class="linenos">310</span></a>            <span class="n">imag</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">rolled_array</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span> <span class="p">[</span><span class="n">ens_id</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idx</span><span class="p">])</span>
+</span><span id="read_Fourquark_hd5-311"><a href="#read_Fourquark_hd5-311"><span class="linenos">311</span></a>            <span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="p">)</span>
+</span><span id="read_Fourquark_hd5-312"><a href="#read_Fourquark_hd5-312"><span class="linenos">312</span></a>
+</span><span id="read_Fourquark_hd5-313"><a href="#read_Fourquark_hd5-313"><span class="linenos">313</span></a>        <span class="n">result_dict</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">Npr_matrix</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">mom_in</span><span class="o">=</span><span class="n">mom_in</span><span class="p">,</span> <span class="n">mom_out</span><span class="o">=</span><span class="n">mom_out</span><span class="p">)</span>
+</span><span id="read_Fourquark_hd5-314"><a href="#read_Fourquark_hd5-314"><span class="linenos">314</span></a>
+</span><span id="read_Fourquark_hd5-315"><a href="#read_Fourquark_hd5-315"><span class="linenos">315</span></a>    <span class="k">return</span> <span class="n">result_dict</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Read hadrons FourquarkFullyConnected hdf5 file and output an array of CObs</p>
 
diff --git a/docs/pyerrors/input/json.html b/docs/pyerrors/input/json.html
index 7c60f4f6..c4690c2a 100644
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+++ b/docs/pyerrors/input/json.html
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@@ -82,896 +82,897 @@
 <a href="./../../pyerrors.html">pyerrors</a><wbr>.<a href="./../input.html">input</a><wbr>.json    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">  0</span></a><span class="kn">import</span> <span class="nn">rapidjson</span> <span class="k">as</span> <span class="nn">json</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">gzip</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">getpass</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">socket</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">datetime</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">import</span> <span class="nn">platform</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="kn">import</span> <span class="nn">warnings</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="kn">import</span> <span class="nn">re</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="kn">from</span> <span class="nn">..covobs</span> <span class="kn">import</span> <span class="n">Covobs</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="kn">from</span> <span class="nn">..correlators</span> <span class="kn">import</span> <span class="n">Corr</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="kn">from</span> <span class="nn">..misc</span> <span class="kn">import</span> <span class="n">_assert_equal_properties</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="kn">from</span> <span class="nn">..</span> <span class="kn">import</span> <span class="n">version</span> <span class="k">as</span> <span class="n">pyerrorsversion</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a>
+                        <input id="json-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="json-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">rapidjson</span> <span class="k">as</span> <span class="nn">json</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">gzip</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">getpass</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">socket</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">import</span> <span class="nn">datetime</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="kn">import</span> <span class="nn">platform</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="kn">import</span> <span class="nn">warnings</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="kn">import</span> <span class="nn">re</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="kn">from</span> <span class="nn">..covobs</span> <span class="kn">import</span> <span class="n">Covobs</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="kn">from</span> <span class="nn">..correlators</span> <span class="kn">import</span> <span class="n">Corr</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="kn">from</span> <span class="nn">..misc</span> <span class="kn">import</span> <span class="n">_assert_equal_properties</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="kn">from</span> <span class="nn">..</span> <span class="kn">import</span> <span class="n">version</span> <span class="k">as</span> <span class="n">pyerrorsversion</span>
 </span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a>
-</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="k">def</span> <span class="nf">create_json_string</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">1</span><span class="p">):</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a>    <span class="sd">&quot;&quot;&quot;Generate the string for the export of a list of Obs or structures containing Obs</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd">    to a .json(.gz) file</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>
-</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">    Parameters</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">    ----------</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd">    ol : list</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd">        List of objects that will be exported. At the moment, these objects can be</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd">        either of: Obs, list, numpy.ndarray, Corr.</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a><span class="sd">    description : str</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a><span class="sd">        Optional string that describes the contents of the json file.</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd">    indent : int</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd">        Specify the indentation level of the json file. None or 0 is permissible and</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd">        saves disk space.</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>
-</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>    <span class="k">def</span> <span class="nf">_gen_data_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">):</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>        <span class="n">dl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>            <span class="n">ed</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;replica&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>                <span class="n">rd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>                <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">r_name</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>                <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">r_name</span><span class="p">,</span> <span class="kc">False</span><span class="p">):</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>                    <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>                <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">])):</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>                    <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="n">i</span><span class="p">]])</span>
-</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>                    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">:</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>                        <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>                <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;replica&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rd</span><span class="p">)</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>            <span class="n">dl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ed</span><span class="p">)</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>        <span class="k">return</span> <span class="n">dl</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>
-</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>    <span class="k">def</span> <span class="nf">_gen_cdata_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">):</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>        <span class="n">dl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>            <span class="n">ed</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39;(&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;)&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;cov&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ravel</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">))</span>
-</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>            <span class="n">ncov</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>                <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>                <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">:</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>                    <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>            <span class="n">dl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ed</span><span class="p">)</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>        <span class="k">return</span> <span class="n">dl</span>
-</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>
-</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>    <span class="k">def</span> <span class="nf">write_Obs_to_dict</span><span class="p">(</span><span class="n">o</span><span class="p">):</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;Obs&#39;</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1&#39;</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">tag</span><span class="p">:</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
-</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;reweighted&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span><span class="p">]</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">_gen_data_d_from_list</span><span class="p">([</span><span class="n">o</span><span class="p">])</span>
-</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
-</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>        <span class="n">cdata</span> <span class="o">=</span> <span class="n">_gen_cdata_d_from_list</span><span class="p">([</span><span class="n">o</span><span class="p">])</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">cdata</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">cdata</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>        <span class="k">return</span> <span class="n">d</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>
-</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>    <span class="k">def</span> <span class="nf">write_List_to_dict</span><span class="p">(</span><span class="n">ol</span><span class="p">):</span>
-</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>        <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;List&#39;</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="nb">len</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">tag</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
-</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">tag</span> <span class="ow">in</span> <span class="n">taglist</span><span class="p">]):</span>
-</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span>
-</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>        <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;reweighted&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span>
-</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">_gen_data_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>        <span class="n">cdata</span> <span class="o">=</span> <span class="n">_gen_cdata_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">cdata</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">cdata</span>
-</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>        <span class="k">return</span> <span class="n">d</span>
-</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>
-</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>    <span class="k">def</span> <span class="nf">write_Array_to_dict</span><span class="p">(</span><span class="n">oa</span><span class="p">):</span>
-</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>        <span class="n">ol</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">ravel</span><span class="p">(</span><span class="n">oa</span><span class="p">)</span>
-</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>        <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;Array&#39;</span>
-</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">oa</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39;(&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;)&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">tag</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">tag</span> <span class="ow">in</span> <span class="n">taglist</span><span class="p">]):</span>
-</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span>
-</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>        <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
-</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;reweighted&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span>
-</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
-</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">_gen_data_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
-</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>        <span class="n">cdata</span> <span class="o">=</span> <span class="n">_gen_cdata_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">cdata</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">cdata</span>
-</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>        <span class="k">return</span> <span class="n">d</span>
-</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>
-</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>    <span class="k">def</span> <span class="nf">_nan_Obs_like</span><span class="p">(</span><span class="n">obs</span><span class="p">):</span>
-</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>        <span class="n">samples</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>        <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>        <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
-</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>            <span class="n">samples</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">nan</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">value</span><span class="p">))</span>
-</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>            <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">key</span><span class="p">)</span>
-</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">value</span><span class="p">)</span>
-</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>        <span class="n">my_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>        <span class="n">my_obs</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="n">obs</span><span class="o">.</span><span class="n">_covobs</span>
-</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">_covobs</span><span class="p">:</span>
-</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>            <span class="n">my_obs</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>        <span class="n">my_obs</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">obs</span><span class="o">.</span><span class="n">reweighted</span>
-</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>        <span class="n">my_obs</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">obs</span><span class="o">.</span><span class="n">is_merged</span>
-</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>        <span class="k">return</span> <span class="n">my_obs</span>
-</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>
-</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>    <span class="k">def</span> <span class="nf">write_Corr_to_dict</span><span class="p">(</span><span class="n">my_corr</span><span class="p">):</span>
-</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>        <span class="n">first_not_none</span> <span class="o">=</span> <span class="nb">next</span><span class="p">(</span><span class="n">i</span> <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">my_corr</span><span class="o">.</span><span class="n">content</span><span class="p">)</span> <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">j</span><span class="p">))</span>
-</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>        <span class="n">dummy_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">my_corr</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">N</span><span class="p">),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>        <span class="n">dummy_array</span><span class="p">[:]</span> <span class="o">=</span> <span class="n">_nan_Obs_like</span><span class="p">(</span><span class="n">my_corr</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">first_not_none</span><span class="p">]</span><span class="o">.</span><span class="n">ravel</span><span class="p">()[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a>        <span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">dummy_array</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>        <span class="n">dat</span> <span class="o">=</span> <span class="n">write_Array_to_dict</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">content</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">))</span>
-</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>        <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;Corr&#39;</span>
-</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>        <span class="n">corr_meta_data</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">my_corr</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
-</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>        <span class="k">if</span> <span class="s1">&#39;tag&#39;</span> <span class="ow">in</span> <span class="n">dat</span><span class="o">.</span><span class="n">keys</span><span class="p">():</span>
-</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>            <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">corr_meta_data</span><span class="p">)</span>
-</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>            <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">corr_meta_data</span><span class="p">]</span>
-</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span>
-</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>        <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>  <span class="c1"># tag is now a dictionary, that contains the previous taglist in the key &quot;tag&quot;</span>
-</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>        <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">][</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span>
-</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>        <span class="k">if</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">prange</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>            <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">][</span><span class="s1">&#39;prange&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">prange</span>
-</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>        <span class="k">return</span> <span class="n">dat</span>
-</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>
-</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a>        <span class="n">ol</span> <span class="o">=</span> <span class="p">[</span><span class="n">ol</span><span class="p">]</span>
-</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>
-</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>    <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;pyerrors </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">pyerrorsversion</span><span class="o">.</span><span class="n">__version__</span><span class="p">)</span>
-</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1.0&#39;</span>
-</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">getpass</span><span class="o">.</span><span class="n">getuser</span><span class="p">()</span>
-</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">datetime</span><span class="o">.</span><span class="n">datetime</span><span class="o">.</span><span class="n">now</span><span class="p">()</span><span class="o">.</span><span class="n">astimezone</span><span class="p">()</span><span class="o">.</span><span class="n">strftime</span><span class="p">(</span><span class="s1">&#39;%Y-%m-</span><span class="si">%d</span><span class="s1"> %H:%M:%S %z&#39;</span><span class="p">)</span>
-</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">()</span> <span class="o">+</span> <span class="s1">&#39;, &#39;</span> <span class="o">+</span> <span class="n">platform</span><span class="o">.</span><span class="n">platform</span><span class="p">()</span>
-</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>
-</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>    <span class="k">if</span> <span class="n">description</span><span class="p">:</span>
-</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">description</span>
-</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>
-</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>    <span class="k">for</span> <span class="n">io</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">:</span>
-</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_Obs_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
-</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_List_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
-</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_Array_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
-</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_Corr_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
-</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unkown datatype.&quot;</span><span class="p">)</span>
-</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a>
-</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>    <span class="k">if</span> <span class="n">indent</span><span class="p">:</span>
-</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>        <span class="k">return</span> <span class="n">json</span><span class="o">.</span><span class="n">dumps</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="n">indent</span><span class="p">,</span> <span class="n">ensure_ascii</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">write_mode</span><span class="o">=</span><span class="n">json</span><span class="o">.</span><span class="n">WM_SINGLE_LINE_ARRAY</span><span class="p">)</span>
-</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>        <span class="k">return</span> <span class="n">json</span><span class="o">.</span><span class="n">dumps</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="n">indent</span><span class="p">,</span> <span class="n">ensure_ascii</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">write_mode</span><span class="o">=</span><span class="n">json</span><span class="o">.</span><span class="n">WM_COMPACT</span><span class="p">)</span>
-</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>
+</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a>
+</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="k">def</span> <span class="nf">create_json_string</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">1</span><span class="p">):</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a>    <span class="sd">&quot;&quot;&quot;Generate the string for the export of a list of Obs or structures containing Obs</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd">    to a .json(.gz) file</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a>
+</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">    Parameters</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd">    ----------</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd">    ol : list</span>
+</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd">        List of objects that will be exported. At the moment, these objects can be</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd">        either of: Obs, list, numpy.ndarray, Corr.</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a><span class="sd">    description : str</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd">        Optional string that describes the contents of the json file.</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd">    indent : int</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd">        Specify the indentation level of the json file. None or 0 is permissible and</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a><span class="sd">        saves disk space.</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>
+</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>    <span class="k">def</span> <span class="nf">_gen_data_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">):</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>        <span class="n">dl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>            <span class="n">ed</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;replica&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>                <span class="n">rd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>                <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">r_name</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>                <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">r_name</span><span class="p">,</span> <span class="kc">False</span><span class="p">):</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>                    <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>                <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">])):</span>
+</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>                    <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="n">i</span><span class="p">]])</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>                    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">:</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>                        <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>                <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;replica&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rd</span><span class="p">)</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>            <span class="n">dl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ed</span><span class="p">)</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>        <span class="k">return</span> <span class="n">dl</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>
+</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>    <span class="k">def</span> <span class="nf">_gen_cdata_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">):</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>        <span class="n">dl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>            <span class="n">ed</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39;(&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;)&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;cov&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ravel</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">))</span>
+</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>            <span class="n">ncov</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>                <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>                <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">:</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>                    <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>            <span class="n">dl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ed</span><span class="p">)</span>
+</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>        <span class="k">return</span> <span class="n">dl</span>
+</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>
+</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>    <span class="k">def</span> <span class="nf">write_Obs_to_dict</span><span class="p">(</span><span class="n">o</span><span class="p">):</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;Obs&#39;</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1&#39;</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">tag</span><span class="p">:</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
+</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;reweighted&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span><span class="p">]</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">_gen_data_d_from_list</span><span class="p">([</span><span class="n">o</span><span class="p">])</span>
+</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
+</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>        <span class="n">cdata</span> <span class="o">=</span> <span class="n">_gen_cdata_d_from_list</span><span class="p">([</span><span class="n">o</span><span class="p">])</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">cdata</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">cdata</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>        <span class="k">return</span> <span class="n">d</span>
+</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>
+</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>    <span class="k">def</span> <span class="nf">write_List_to_dict</span><span class="p">(</span><span class="n">ol</span><span class="p">):</span>
+</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>        <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;List&#39;</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="nb">len</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">tag</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
+</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">tag</span> <span class="ow">in</span> <span class="n">taglist</span><span class="p">]):</span>
+</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span>
+</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>        <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;reweighted&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span>
+</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">_gen_data_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>        <span class="n">cdata</span> <span class="o">=</span> <span class="n">_gen_cdata_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">cdata</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">cdata</span>
+</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>        <span class="k">return</span> <span class="n">d</span>
+</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>
+</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>    <span class="k">def</span> <span class="nf">write_Array_to_dict</span><span class="p">(</span><span class="n">oa</span><span class="p">):</span>
+</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>        <span class="n">ol</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">ravel</span><span class="p">(</span><span class="n">oa</span><span class="p">)</span>
+</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>        <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;Array&#39;</span>
+</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">oa</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39;(&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;)&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">tag</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">tag</span> <span class="ow">in</span> <span class="n">taglist</span><span class="p">]):</span>
+</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span>
+</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>        <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
+</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;reweighted&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span>
+</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
+</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">_gen_data_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
+</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>        <span class="n">cdata</span> <span class="o">=</span> <span class="n">_gen_cdata_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">cdata</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">cdata</span>
+</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>        <span class="k">return</span> <span class="n">d</span>
+</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>
+</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>    <span class="k">def</span> <span class="nf">_nan_Obs_like</span><span class="p">(</span><span class="n">obs</span><span class="p">):</span>
+</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>        <span class="n">samples</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>        <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>        <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>            <span class="n">samples</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">nan</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">value</span><span class="p">))</span>
+</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>            <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">key</span><span class="p">)</span>
+</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">value</span><span class="p">)</span>
+</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>        <span class="n">my_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>        <span class="n">my_obs</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="n">obs</span><span class="o">.</span><span class="n">_covobs</span>
+</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">_covobs</span><span class="p">:</span>
+</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>            <span class="n">my_obs</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>        <span class="n">my_obs</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">obs</span><span class="o">.</span><span class="n">reweighted</span>
+</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>        <span class="n">my_obs</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">obs</span><span class="o">.</span><span class="n">is_merged</span>
+</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>        <span class="k">return</span> <span class="n">my_obs</span>
+</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>
+</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>    <span class="k">def</span> <span class="nf">write_Corr_to_dict</span><span class="p">(</span><span class="n">my_corr</span><span class="p">):</span>
+</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>        <span class="n">first_not_none</span> <span class="o">=</span> <span class="nb">next</span><span class="p">(</span><span class="n">i</span> <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">my_corr</span><span class="o">.</span><span class="n">content</span><span class="p">)</span> <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">j</span><span class="p">))</span>
+</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>        <span class="n">dummy_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">my_corr</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">N</span><span class="p">),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a>        <span class="n">dummy_array</span><span class="p">[:]</span> <span class="o">=</span> <span class="n">_nan_Obs_like</span><span class="p">(</span><span class="n">my_corr</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">first_not_none</span><span class="p">]</span><span class="o">.</span><span class="n">ravel</span><span class="p">()[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>        <span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">dummy_array</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>        <span class="n">dat</span> <span class="o">=</span> <span class="n">write_Array_to_dict</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">content</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">))</span>
+</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>        <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;Corr&#39;</span>
+</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>        <span class="n">corr_meta_data</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">my_corr</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
+</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>        <span class="k">if</span> <span class="s1">&#39;tag&#39;</span> <span class="ow">in</span> <span class="n">dat</span><span class="o">.</span><span class="n">keys</span><span class="p">():</span>
+</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>            <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">corr_meta_data</span><span class="p">)</span>
+</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>            <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">corr_meta_data</span><span class="p">]</span>
+</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span>
+</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>        <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>  <span class="c1"># tag is now a dictionary, that contains the previous taglist in the key &quot;tag&quot;</span>
+</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>        <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">][</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span>
+</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>        <span class="k">if</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">prange</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>            <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">][</span><span class="s1">&#39;prange&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">prange</span>
+</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>        <span class="k">return</span> <span class="n">dat</span>
+</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>
+</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>        <span class="n">ol</span> <span class="o">=</span> <span class="p">[</span><span class="n">ol</span><span class="p">]</span>
+</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>
+</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>    <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;pyerrors </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">pyerrorsversion</span><span class="o">.</span><span class="n">__version__</span><span class="p">)</span>
+</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1.0&#39;</span>
+</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">getpass</span><span class="o">.</span><span class="n">getuser</span><span class="p">()</span>
+</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">datetime</span><span class="o">.</span><span class="n">datetime</span><span class="o">.</span><span class="n">now</span><span class="p">()</span><span class="o">.</span><span class="n">astimezone</span><span class="p">()</span><span class="o">.</span><span class="n">strftime</span><span class="p">(</span><span class="s1">&#39;%Y-%m-</span><span class="si">%d</span><span class="s1"> %H:%M:%S %z&#39;</span><span class="p">)</span>
+</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">()</span> <span class="o">+</span> <span class="s1">&#39;, &#39;</span> <span class="o">+</span> <span class="n">platform</span><span class="o">.</span><span class="n">platform</span><span class="p">()</span>
+</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>
+</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>    <span class="k">if</span> <span class="n">description</span><span class="p">:</span>
+</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">description</span>
+</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>
+</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>    <span class="k">for</span> <span class="n">io</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">:</span>
+</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_Obs_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
+</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_List_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
+</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_Array_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
+</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_Corr_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
+</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unkown datatype.&quot;</span><span class="p">)</span>
+</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>
+</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>    <span class="k">if</span> <span class="n">indent</span><span class="p">:</span>
+</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>        <span class="k">return</span> <span class="n">json</span><span class="o">.</span><span class="n">dumps</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="n">indent</span><span class="p">,</span> <span class="n">ensure_ascii</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">write_mode</span><span class="o">=</span><span class="n">json</span><span class="o">.</span><span class="n">WM_SINGLE_LINE_ARRAY</span><span class="p">)</span>
+</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>        <span class="k">return</span> <span class="n">json</span><span class="o">.</span><span class="n">dumps</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="n">indent</span><span class="p">,</span> <span class="n">ensure_ascii</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">write_mode</span><span class="o">=</span><span class="n">json</span><span class="o">.</span><span class="n">WM_COMPACT</span><span class="p">)</span>
 </span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a>
-</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a><span class="k">def</span> <span class="nf">dump_to_json</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to a .json(.gz) file</span>
-</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>
-</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a><span class="sd">    Parameters</span>
-</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a><span class="sd">    ----------</span>
-</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a><span class="sd">    ol : list</span>
-</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a><span class="sd">        List of objects that will be exported. At the moment, these objects can be</span>
-</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a><span class="sd">        either of: Obs, list, numpy.ndarray, Corr.</span>
-</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
-</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a><span class="sd">    fname : str</span>
-</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a><span class="sd">        Filename of the output file.</span>
-</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a><span class="sd">    description : str</span>
-</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a><span class="sd">        Optional string that describes the contents of the json file.</span>
-</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a><span class="sd">    indent : int</span>
-</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a><span class="sd">        Specify the indentation level of the json file. None or 0 is permissible and</span>
-</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a><span class="sd">        saves disk space.</span>
-</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a><span class="sd">    gz : bool</span>
-</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a><span class="sd">        If True, the output is a gzipped json. If False, the output is a json file.</span>
-</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>
-</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>    <span class="n">jsonstring</span> <span class="o">=</span> <span class="n">create_json_string</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">description</span><span class="p">,</span> <span class="n">indent</span><span class="p">)</span>
-</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>
-</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.json&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.json&#39;</span>
-</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>
-</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
-</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
-</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>
-</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
-</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">jsonstring</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span>
-</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">jsonstring</span><span class="p">)</span>
-</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>    <span class="n">fp</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>
+</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a>
+</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a><span class="k">def</span> <span class="nf">dump_to_json</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to a .json(.gz) file</span>
+</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>
+</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a><span class="sd">    Parameters</span>
+</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a><span class="sd">    ----------</span>
+</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a><span class="sd">    ol : list</span>
+</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a><span class="sd">        List of objects that will be exported. At the moment, these objects can be</span>
+</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a><span class="sd">        either of: Obs, list, numpy.ndarray, Corr.</span>
+</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
+</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a><span class="sd">    fname : str</span>
+</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a><span class="sd">        Filename of the output file.</span>
+</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a><span class="sd">    description : str</span>
+</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a><span class="sd">        Optional string that describes the contents of the json file.</span>
+</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a><span class="sd">    indent : int</span>
+</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a><span class="sd">        Specify the indentation level of the json file. None or 0 is permissible and</span>
+</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a><span class="sd">        saves disk space.</span>
+</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a><span class="sd">    gz : bool</span>
+</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a><span class="sd">        If True, the output is a gzipped json. If False, the output is a json file.</span>
+</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>
+</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>    <span class="n">jsonstring</span> <span class="o">=</span> <span class="n">create_json_string</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">description</span><span class="p">,</span> <span class="n">indent</span><span class="p">)</span>
+</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>
+</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.json&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.json&#39;</span>
+</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>
+</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
+</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
+</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>
+</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
+</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">jsonstring</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span>
+</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">jsonstring</span><span class="p">)</span>
+</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>    <span class="n">fp</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
 </span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>
-</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a><span class="k">def</span> <span class="nf">_parse_json_dict</span><span class="p">(</span><span class="n">json_dict</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>    <span class="sd">&quot;&quot;&quot;Reconstruct a list of Obs or structures containing Obs from a dict that</span>
-</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a><span class="sd">    was built out of a json string.</span>
-</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>
-</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
-</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a><span class="sd">    If the list contains only one element, it is unpacked from the list.</span>
-</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a>
-</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a><span class="sd">    Parameters</span>
-</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a><span class="sd">    ----------</span>
-</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a><span class="sd">    json_string : str</span>
-</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a><span class="sd">        json string containing the data.</span>
-</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a><span class="sd">    verbose : bool</span>
-</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a><span class="sd">        Print additional information that was written to the file.</span>
-</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a><span class="sd">    full_output : bool</span>
-</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a><span class="sd">        If False, only the data is returned.</span>
-</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a>
-</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>    <span class="k">def</span> <span class="nf">_gen_obsd_from_datad</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>        <span class="k">if</span> <span class="n">d</span><span class="p">:</span>
-</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>            <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>            <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;idl&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>            <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>            <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>            <span class="k">for</span> <span class="n">ens</span> <span class="ow">in</span> <span class="n">d</span><span class="p">:</span>
-</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>                <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="n">ens</span><span class="p">[</span><span class="s1">&#39;replica&#39;</span><span class="p">]:</span>
-</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>                    <span class="n">rep_name</span> <span class="o">=</span> <span class="n">rep</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span>
-</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">rep_name</span><span class="p">)</span> <span class="o">&gt;</span> <span class="nb">len</span><span class="p">(</span><span class="n">ens</span><span class="p">[</span><span class="s2">&quot;id&quot;</span><span class="p">]):</span>
-</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>                        <span class="k">if</span> <span class="n">rep_name</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">ens</span><span class="p">[</span><span class="s2">&quot;id&quot;</span><span class="p">])]</span> <span class="o">!=</span> <span class="s2">&quot;|&quot;</span><span class="p">:</span>
-</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>                            <span class="n">tmp_list</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">rep_name</span><span class="p">)</span>
-</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>                            <span class="n">tmp_list</span> <span class="o">=</span> <span class="n">tmp_list</span><span class="p">[:</span><span class="nb">len</span><span class="p">(</span><span class="n">ens</span><span class="p">[</span><span class="s2">&quot;id&quot;</span><span class="p">])]</span> <span class="o">+</span> <span class="p">[</span><span class="s2">&quot;|&quot;</span><span class="p">]</span> <span class="o">+</span> <span class="n">tmp_list</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">ens</span><span class="p">[</span><span class="s2">&quot;id&quot;</span><span class="p">]):]</span>
-</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>                            <span class="n">rep_name</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">tmp_list</span><span class="p">)</span>
-</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>                    <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rep_name</span><span class="p">)</span>
-</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>                    <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;idl&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">di</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">di</span> <span class="ow">in</span> <span class="n">rep</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]])</span>
-</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>                    <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">di</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="k">for</span> <span class="n">di</span> <span class="ow">in</span> <span class="n">rep</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]]))</span>
-</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>                    <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">][</span><span class="n">rep_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">rep</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;is_merged&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
-</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>        <span class="k">return</span> <span class="n">retd</span>
-</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>
-</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>    <span class="k">def</span> <span class="nf">_gen_covobsd_from_cdatad</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>        <span class="k">for</span> <span class="n">ens</span> <span class="ow">in</span> <span class="n">d</span><span class="p">:</span>
-</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>            <span class="n">retl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">ens</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span>
-</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>            <span class="n">layouts</span> <span class="o">=</span> <span class="n">ens</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;layout&#39;</span><span class="p">,</span> <span class="s1">&#39;1&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>            <span class="n">layout</span> <span class="o">=</span> <span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">ls</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span> <span class="k">for</span> <span class="n">ls</span> <span class="ow">in</span> <span class="n">layouts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">]</span>
-</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>            <span class="n">cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">ens</span><span class="p">[</span><span class="s1">&#39;cov&#39;</span><span class="p">],</span> <span class="n">layout</span><span class="p">)</span>
-</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>            <span class="n">grad</span> <span class="o">=</span> <span class="n">ens</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">]</span>
-</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>            <span class="n">nobs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">grad</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nobs</span><span class="p">):</span>
-</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>                <span class="n">retl</span><span class="o">.</span><span class="n">append</span><span class="p">({</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;cov&#39;</span><span class="p">:</span> <span class="n">cov</span><span class="p">,</span> <span class="s1">&#39;grad&#39;</span><span class="p">:</span> <span class="p">[</span><span class="n">g</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="k">for</span> <span class="n">g</span> <span class="ow">in</span> <span class="n">grad</span><span class="p">]})</span>
-</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>            <span class="n">retd</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">retl</span>
-</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>        <span class="k">return</span> <span class="n">retd</span>
-</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>
-</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a>    <span class="k">def</span> <span class="nf">get_Obs_from_dict</span><span class="p">(</span><span class="n">o</span><span class="p">):</span>
-</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>        <span class="n">layouts</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;layout&#39;</span><span class="p">,</span> <span class="s1">&#39;1&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a>        <span class="k">if</span> <span class="n">layouts</span> <span class="o">!=</span> <span class="s1">&#39;1&#39;</span><span class="p">:</span>
-</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;layout is </span><span class="si">%s</span><span class="s2"> has to be 1 for type Obs.&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">layouts</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>
-</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">o</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span>
-</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a>        <span class="n">od</span> <span class="o">=</span> <span class="n">_gen_obsd_from_datad</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;data&#39;</span><span class="p">,</span> <span class="p">{}))</span>
-</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a>        <span class="n">cd</span> <span class="o">=</span> <span class="n">_gen_covobsd_from_cdatad</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;cdata&#39;</span><span class="p">,</span> <span class="p">{}))</span>
-</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>
-</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>        <span class="k">if</span> <span class="n">od</span><span class="p">:</span>
-</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a>            <span class="n">ret</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([[</span><span class="n">ddi</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">values</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">ddi</span> <span class="ow">in</span> <span class="n">di</span><span class="p">]</span> <span class="k">for</span> <span class="n">di</span> <span class="ow">in</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]],</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="n">od</span><span class="p">[</span><span class="s1">&#39;idl&#39;</span><span class="p">])</span>
-</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a>            <span class="n">ret</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">]</span>
-</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a>            <span class="n">ret</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([],</span> <span class="p">[],</span> <span class="n">means</span><span class="o">=</span><span class="p">[])</span>
-</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a>            <span class="n">ret</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">values</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cd</span><span class="p">:</span>
-</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a>            <span class="n">co</span> <span class="o">=</span> <span class="n">cd</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a>            <span class="n">ret</span><span class="o">.</span><span class="n">_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">Covobs</span><span class="p">(</span><span class="kc">None</span><span class="p">,</span> <span class="n">co</span><span class="p">[</span><span class="s1">&#39;cov&#39;</span><span class="p">],</span> <span class="n">co</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">],</span> <span class="n">grad</span><span class="o">=</span><span class="n">co</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">])</span>
-</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a>            <span class="n">ret</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">co</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">])</span>
-</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a>
-</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a>        <span class="n">ret</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;reweighted&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
-</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a>        <span class="n">ret</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">,</span> <span class="p">[</span><span class="kc">None</span><span class="p">])[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a>        <span class="k">return</span> <span class="n">ret</span>
-</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a>
-</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a>    <span class="k">def</span> <span class="nf">get_List_from_dict</span><span class="p">(</span><span class="n">o</span><span class="p">):</span>
-</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a>        <span class="n">layouts</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;layout&#39;</span><span class="p">,</span> <span class="s1">&#39;1&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>        <span class="n">layout</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">layouts</span><span class="p">)</span>
-</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">o</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span>
-</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>        <span class="n">od</span> <span class="o">=</span> <span class="n">_gen_obsd_from_datad</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;data&#39;</span><span class="p">,</span> <span class="p">{}))</span>
-</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>        <span class="n">cd</span> <span class="o">=</span> <span class="n">_gen_covobsd_from_cdatad</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;cdata&#39;</span><span class="p">,</span> <span class="p">{}))</span>
-</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>
-</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a>        <span class="n">ret</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">,</span> <span class="n">layout</span> <span class="o">*</span> <span class="p">[</span><span class="kc">None</span><span class="p">])</span>
-</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">layout</span><span class="p">):</span>
-</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>            <span class="k">if</span> <span class="n">od</span><span class="p">:</span>
-</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>                <span class="n">ret</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="nb">list</span><span class="p">(</span><span class="n">di</span><span class="p">[:,</span> <span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">values</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="k">for</span> <span class="n">di</span> <span class="ow">in</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]],</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="n">od</span><span class="p">[</span><span class="s1">&#39;idl&#39;</span><span class="p">]))</span>
-</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">]</span>
-</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>                <span class="n">ret</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([],</span> <span class="p">[],</span> <span class="n">means</span><span class="o">=</span><span class="p">[]))</span>
-</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">values</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Created Obs with means= &#39;</span><span class="p">,</span> <span class="n">values</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
-</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cd</span><span class="p">:</span>
-</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>                <span class="n">co</span> <span class="o">=</span> <span class="n">cd</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span>
-</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">Covobs</span><span class="p">(</span><span class="kc">None</span><span class="p">,</span> <span class="n">co</span><span class="p">[</span><span class="s1">&#39;cov&#39;</span><span class="p">],</span> <span class="n">co</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">],</span> <span class="n">grad</span><span class="o">=</span><span class="n">co</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">])</span>
-</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">co</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">])</span>
-</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>
-</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>            <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;reweighted&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
-</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>            <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">taglist</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>        <span class="k">return</span> <span class="n">ret</span>
-</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>
-</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>    <span class="k">def</span> <span class="nf">get_Array_from_dict</span><span class="p">(</span><span class="n">o</span><span class="p">):</span>
-</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>        <span class="n">layouts</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;layout&#39;</span><span class="p">,</span> <span class="s1">&#39;1&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
-</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>        <span class="n">layout</span> <span class="o">=</span> <span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">ls</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span> <span class="k">for</span> <span class="n">ls</span> <span class="ow">in</span> <span class="n">layouts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">]</span>
-</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>        <span class="n">N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">prod</span><span class="p">(</span><span class="n">layout</span><span class="p">)</span>
-</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">o</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span>
-</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>        <span class="n">od</span> <span class="o">=</span> <span class="n">_gen_obsd_from_datad</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;data&#39;</span><span class="p">,</span> <span class="p">{}))</span>
-</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>        <span class="n">cd</span> <span class="o">=</span> <span class="n">_gen_covobsd_from_cdatad</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;cdata&#39;</span><span class="p">,</span> <span class="p">{}))</span>
-</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>
-</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>        <span class="n">ret</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">,</span> <span class="n">N</span> <span class="o">*</span> <span class="p">[</span><span class="kc">None</span><span class="p">])</span>
-</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
-</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>            <span class="k">if</span> <span class="n">od</span><span class="p">:</span>
-</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>                <span class="n">ret</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="n">di</span><span class="p">[:,</span> <span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">values</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="k">for</span> <span class="n">di</span> <span class="ow">in</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]],</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="n">od</span><span class="p">[</span><span class="s1">&#39;idl&#39;</span><span class="p">]))</span>
-</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">]</span>
-</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>                <span class="n">ret</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([],</span> <span class="p">[],</span> <span class="n">means</span><span class="o">=</span><span class="p">[]))</span>
-</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">values</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cd</span><span class="p">:</span>
-</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>                <span class="n">co</span> <span class="o">=</span> <span class="n">cd</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span>
-</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">Covobs</span><span class="p">(</span><span class="kc">None</span><span class="p">,</span> <span class="n">co</span><span class="p">[</span><span class="s1">&#39;cov&#39;</span><span class="p">],</span> <span class="n">co</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">],</span> <span class="n">grad</span><span class="o">=</span><span class="n">co</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">])</span>
-</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">co</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">])</span>
-</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>            <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;reweighted&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
-</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>            <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">taglist</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">ret</span><span class="p">,</span> <span class="n">layout</span><span class="p">)</span>
-</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>
-</span><span id="L-358"><a href="#L-358"><span class="linenos">358</span></a>    <span class="k">def</span> <span class="nf">get_Corr_from_dict</span><span class="p">(</span><span class="n">o</span><span class="p">):</span>
-</span><span id="L-359"><a href="#L-359"><span class="linenos">359</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">),</span> <span class="nb">list</span><span class="p">):</span>  <span class="c1"># supports the old way</span>
-</span><span id="L-360"><a href="#L-360"><span class="linenos">360</span></a>            <span class="n">taglist</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">)</span>  <span class="c1"># This had to be modified to get the taglist from the dictionary</span>
-</span><span id="L-361"><a href="#L-361"><span class="linenos">361</span></a>            <span class="n">temp_prange</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-362"><a href="#L-362"><span class="linenos">362</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">),</span> <span class="nb">dict</span><span class="p">):</span>
-</span><span id="L-363"><a href="#L-363"><span class="linenos">363</span></a>            <span class="n">tagdic</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">)</span>
-</span><span id="L-364"><a href="#L-364"><span class="linenos">364</span></a>            <span class="n">taglist</span> <span class="o">=</span> <span class="n">tagdic</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span>
-</span><span id="L-365"><a href="#L-365"><span class="linenos">365</span></a>            <span class="k">if</span> <span class="s1">&#39;prange&#39;</span> <span class="ow">in</span> <span class="n">tagdic</span><span class="p">:</span>
-</span><span id="L-366"><a href="#L-366"><span class="linenos">366</span></a>                <span class="n">temp_prange</span> <span class="o">=</span> <span class="n">tagdic</span><span class="p">[</span><span class="s1">&#39;prange&#39;</span><span class="p">]</span>
-</span><span id="L-367"><a href="#L-367"><span class="linenos">367</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-368"><a href="#L-368"><span class="linenos">368</span></a>                <span class="n">temp_prange</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-369"><a href="#L-369"><span class="linenos">369</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-370"><a href="#L-370"><span class="linenos">370</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;The tag is not a list or dict&quot;</span><span class="p">)</span>
-</span><span id="L-371"><a href="#L-371"><span class="linenos">371</span></a>
-</span><span id="L-372"><a href="#L-372"><span class="linenos">372</span></a>        <span class="n">corr_tag</span> <span class="o">=</span> <span class="n">taglist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-373"><a href="#L-373"><span class="linenos">373</span></a>        <span class="n">tmp_o</span> <span class="o">=</span> <span class="n">o</span>
-</span><span id="L-374"><a href="#L-374"><span class="linenos">374</span></a>        <span class="n">tmp_o</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-375"><a href="#L-375"><span class="linenos">375</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">tmp_o</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">])</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-376"><a href="#L-376"><span class="linenos">376</span></a>            <span class="k">del</span> <span class="n">tmp_o</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span>
-</span><span id="L-377"><a href="#L-377"><span class="linenos">377</span></a>        <span class="n">dat</span> <span class="o">=</span> <span class="n">get_Array_from_dict</span><span class="p">(</span><span class="n">tmp_o</span><span class="p">)</span>
-</span><span id="L-378"><a href="#L-378"><span class="linenos">378</span></a>        <span class="n">my_corr</span> <span class="o">=</span> <span class="n">Corr</span><span class="p">([</span><span class="kc">None</span> <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">ravel</span><span class="p">()[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="k">else</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">dat</span><span class="p">)])</span>
-</span><span id="L-379"><a href="#L-379"><span class="linenos">379</span></a>        <span class="k">if</span> <span class="n">corr_tag</span> <span class="o">!=</span> <span class="s1">&#39;None&#39;</span><span class="p">:</span>
-</span><span id="L-380"><a href="#L-380"><span class="linenos">380</span></a>            <span class="n">my_corr</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">corr_tag</span>
-</span><span id="L-381"><a href="#L-381"><span class="linenos">381</span></a>
-</span><span id="L-382"><a href="#L-382"><span class="linenos">382</span></a>        <span class="n">my_corr</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">temp_prange</span>
-</span><span id="L-383"><a href="#L-383"><span class="linenos">383</span></a>        <span class="k">return</span> <span class="n">my_corr</span>
-</span><span id="L-384"><a href="#L-384"><span class="linenos">384</span></a>
-</span><span id="L-385"><a href="#L-385"><span class="linenos">385</span></a>    <span class="n">prog</span> <span class="o">=</span> <span class="n">json_dict</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;program&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="L-386"><a href="#L-386"><span class="linenos">386</span></a>    <span class="n">version</span> <span class="o">=</span> <span class="n">json_dict</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;version&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="L-387"><a href="#L-387"><span class="linenos">387</span></a>    <span class="n">who</span> <span class="o">=</span> <span class="n">json_dict</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;who&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="L-388"><a href="#L-388"><span class="linenos">388</span></a>    <span class="n">date</span> <span class="o">=</span> <span class="n">json_dict</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;date&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="L-389"><a href="#L-389"><span class="linenos">389</span></a>    <span class="n">host</span> <span class="o">=</span> <span class="n">json_dict</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;host&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="L-390"><a href="#L-390"><span class="linenos">390</span></a>    <span class="k">if</span> <span class="n">prog</span> <span class="ow">and</span> <span class="n">verbose</span><span class="p">:</span>
-</span><span id="L-391"><a href="#L-391"><span class="linenos">391</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Data has been written using </span><span class="si">%s</span><span class="s1">.&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">prog</span><span class="p">))</span>
-</span><span id="L-392"><a href="#L-392"><span class="linenos">392</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="ow">and</span> <span class="n">verbose</span><span class="p">:</span>
-</span><span id="L-393"><a href="#L-393"><span class="linenos">393</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Format version </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">version</span><span class="p">))</span>
-</span><span id="L-394"><a href="#L-394"><span class="linenos">394</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">who</span><span class="p">,</span> <span class="n">date</span><span class="p">,</span> <span class="n">host</span><span class="p">]</span> <span class="ow">and</span> <span class="n">verbose</span><span class="p">):</span>
-</span><span id="L-395"><a href="#L-395"><span class="linenos">395</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Written by </span><span class="si">%s</span><span class="s1"> on </span><span class="si">%s</span><span class="s1"> on host </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">who</span><span class="p">,</span> <span class="n">date</span><span class="p">,</span> <span class="n">host</span><span class="p">))</span>
-</span><span id="L-396"><a href="#L-396"><span class="linenos">396</span></a>    <span class="n">description</span> <span class="o">=</span> <span class="n">json_dict</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;description&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="L-397"><a href="#L-397"><span class="linenos">397</span></a>    <span class="k">if</span> <span class="n">description</span> <span class="ow">and</span> <span class="n">verbose</span><span class="p">:</span>
-</span><span id="L-398"><a href="#L-398"><span class="linenos">398</span></a>        <span class="nb">print</span><span class="p">()</span>
-</span><span id="L-399"><a href="#L-399"><span class="linenos">399</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Description: &#39;</span><span class="p">,</span> <span class="n">description</span><span class="p">)</span>
-</span><span id="L-400"><a href="#L-400"><span class="linenos">400</span></a>    <span class="n">obsdata</span> <span class="o">=</span> <span class="n">json_dict</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span>
-</span><span id="L-401"><a href="#L-401"><span class="linenos">401</span></a>    <span class="n">ol</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-402"><a href="#L-402"><span class="linenos">402</span></a>    <span class="k">for</span> <span class="n">io</span> <span class="ow">in</span> <span class="n">obsdata</span><span class="p">:</span>
-</span><span id="L-403"><a href="#L-403"><span class="linenos">403</span></a>        <span class="k">if</span> <span class="n">io</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;Obs&#39;</span><span class="p">:</span>
-</span><span id="L-404"><a href="#L-404"><span class="linenos">404</span></a>            <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">get_Obs_from_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
-</span><span id="L-405"><a href="#L-405"><span class="linenos">405</span></a>        <span class="k">elif</span> <span class="n">io</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;List&#39;</span><span class="p">:</span>
-</span><span id="L-406"><a href="#L-406"><span class="linenos">406</span></a>            <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">get_List_from_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
-</span><span id="L-407"><a href="#L-407"><span class="linenos">407</span></a>        <span class="k">elif</span> <span class="n">io</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;Array&#39;</span><span class="p">:</span>
-</span><span id="L-408"><a href="#L-408"><span class="linenos">408</span></a>            <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">get_Array_from_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
-</span><span id="L-409"><a href="#L-409"><span class="linenos">409</span></a>        <span class="k">elif</span> <span class="n">io</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;Corr&#39;</span><span class="p">:</span>
-</span><span id="L-410"><a href="#L-410"><span class="linenos">410</span></a>            <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">get_Corr_from_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
-</span><span id="L-411"><a href="#L-411"><span class="linenos">411</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-412"><a href="#L-412"><span class="linenos">412</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unkown datatype.&quot;</span><span class="p">)</span>
-</span><span id="L-413"><a href="#L-413"><span class="linenos">413</span></a>
-</span><span id="L-414"><a href="#L-414"><span class="linenos">414</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
-</span><span id="L-415"><a href="#L-415"><span class="linenos">415</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-416"><a href="#L-416"><span class="linenos">416</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">prog</span>
-</span><span id="L-417"><a href="#L-417"><span class="linenos">417</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">version</span>
-</span><span id="L-418"><a href="#L-418"><span class="linenos">418</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">who</span>
-</span><span id="L-419"><a href="#L-419"><span class="linenos">419</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">date</span>
-</span><span id="L-420"><a href="#L-420"><span class="linenos">420</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">host</span>
-</span><span id="L-421"><a href="#L-421"><span class="linenos">421</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">description</span>
-</span><span id="L-422"><a href="#L-422"><span class="linenos">422</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ol</span>
-</span><span id="L-423"><a href="#L-423"><span class="linenos">423</span></a>
-</span><span id="L-424"><a href="#L-424"><span class="linenos">424</span></a>        <span class="k">return</span> <span class="n">retd</span>
-</span><span id="L-425"><a href="#L-425"><span class="linenos">425</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-426"><a href="#L-426"><span class="linenos">426</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsdata</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-427"><a href="#L-427"><span class="linenos">427</span></a>            <span class="n">ol</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-428"><a href="#L-428"><span class="linenos">428</span></a>
-</span><span id="L-429"><a href="#L-429"><span class="linenos">429</span></a>        <span class="k">return</span> <span class="n">ol</span>
-</span><span id="L-430"><a href="#L-430"><span class="linenos">430</span></a>
+</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>
+</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a><span class="k">def</span> <span class="nf">_parse_json_dict</span><span class="p">(</span><span class="n">json_dict</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>    <span class="sd">&quot;&quot;&quot;Reconstruct a list of Obs or structures containing Obs from a dict that</span>
+</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a><span class="sd">    was built out of a json string.</span>
+</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>
+</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
+</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a><span class="sd">    If the list contains only one element, it is unpacked from the list.</span>
+</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a>
+</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a><span class="sd">    Parameters</span>
+</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a><span class="sd">    ----------</span>
+</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a><span class="sd">    json_string : str</span>
+</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a><span class="sd">        json string containing the data.</span>
+</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a><span class="sd">    verbose : bool</span>
+</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a><span class="sd">        Print additional information that was written to the file.</span>
+</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a><span class="sd">    full_output : bool</span>
+</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a><span class="sd">        If False, only the data is returned.</span>
+</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>
+</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>    <span class="k">def</span> <span class="nf">_gen_obsd_from_datad</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>        <span class="k">if</span> <span class="n">d</span><span class="p">:</span>
+</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>            <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>            <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;idl&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>            <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>            <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>            <span class="k">for</span> <span class="n">ens</span> <span class="ow">in</span> <span class="n">d</span><span class="p">:</span>
+</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>                <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="n">ens</span><span class="p">[</span><span class="s1">&#39;replica&#39;</span><span class="p">]:</span>
+</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>                    <span class="n">rep_name</span> <span class="o">=</span> <span class="n">rep</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span>
+</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">rep_name</span><span class="p">)</span> <span class="o">&gt;</span> <span class="nb">len</span><span class="p">(</span><span class="n">ens</span><span class="p">[</span><span class="s2">&quot;id&quot;</span><span class="p">]):</span>
+</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>                        <span class="k">if</span> <span class="n">rep_name</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">ens</span><span class="p">[</span><span class="s2">&quot;id&quot;</span><span class="p">])]</span> <span class="o">!=</span> <span class="s2">&quot;|&quot;</span><span class="p">:</span>
+</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>                            <span class="n">tmp_list</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">rep_name</span><span class="p">)</span>
+</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>                            <span class="n">tmp_list</span> <span class="o">=</span> <span class="n">tmp_list</span><span class="p">[:</span><span class="nb">len</span><span class="p">(</span><span class="n">ens</span><span class="p">[</span><span class="s2">&quot;id&quot;</span><span class="p">])]</span> <span class="o">+</span> <span class="p">[</span><span class="s2">&quot;|&quot;</span><span class="p">]</span> <span class="o">+</span> <span class="n">tmp_list</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">ens</span><span class="p">[</span><span class="s2">&quot;id&quot;</span><span class="p">]):]</span>
+</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>                            <span class="n">rep_name</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">tmp_list</span><span class="p">)</span>
+</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>                    <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rep_name</span><span class="p">)</span>
+</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>                    <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;idl&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">di</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">di</span> <span class="ow">in</span> <span class="n">rep</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]])</span>
+</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>                    <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">di</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="k">for</span> <span class="n">di</span> <span class="ow">in</span> <span class="n">rep</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]]))</span>
+</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>                    <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">][</span><span class="n">rep_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">rep</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;is_merged&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
+</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>        <span class="k">return</span> <span class="n">retd</span>
+</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>
+</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>    <span class="k">def</span> <span class="nf">_gen_covobsd_from_cdatad</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>        <span class="k">for</span> <span class="n">ens</span> <span class="ow">in</span> <span class="n">d</span><span class="p">:</span>
+</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>            <span class="n">retl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">ens</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span>
+</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>            <span class="n">layouts</span> <span class="o">=</span> <span class="n">ens</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;layout&#39;</span><span class="p">,</span> <span class="s1">&#39;1&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>            <span class="n">layout</span> <span class="o">=</span> <span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">ls</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span> <span class="k">for</span> <span class="n">ls</span> <span class="ow">in</span> <span class="n">layouts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">]</span>
+</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>            <span class="n">cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">ens</span><span class="p">[</span><span class="s1">&#39;cov&#39;</span><span class="p">],</span> <span class="n">layout</span><span class="p">)</span>
+</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>            <span class="n">grad</span> <span class="o">=</span> <span class="n">ens</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">]</span>
+</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a>            <span class="n">nobs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">grad</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nobs</span><span class="p">):</span>
+</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>                <span class="n">retl</span><span class="o">.</span><span class="n">append</span><span class="p">({</span><span class="s1">&#39;name&#39;</span><span class="p">:</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;cov&#39;</span><span class="p">:</span> <span class="n">cov</span><span class="p">,</span> <span class="s1">&#39;grad&#39;</span><span class="p">:</span> <span class="p">[</span><span class="n">g</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="k">for</span> <span class="n">g</span> <span class="ow">in</span> <span class="n">grad</span><span class="p">]})</span>
+</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>            <span class="n">retd</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">retl</span>
+</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>        <span class="k">return</span> <span class="n">retd</span>
+</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a>
+</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>    <span class="k">def</span> <span class="nf">get_Obs_from_dict</span><span class="p">(</span><span class="n">o</span><span class="p">):</span>
+</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a>        <span class="n">layouts</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;layout&#39;</span><span class="p">,</span> <span class="s1">&#39;1&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>        <span class="k">if</span> <span class="n">layouts</span> <span class="o">!=</span> <span class="s1">&#39;1&#39;</span><span class="p">:</span>
+</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;layout is </span><span class="si">%s</span><span class="s2"> has to be 1 for type Obs.&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">layouts</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>
+</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">o</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span>
+</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a>        <span class="n">od</span> <span class="o">=</span> <span class="n">_gen_obsd_from_datad</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;data&#39;</span><span class="p">,</span> <span class="p">{}))</span>
+</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>        <span class="n">cd</span> <span class="o">=</span> <span class="n">_gen_covobsd_from_cdatad</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;cdata&#39;</span><span class="p">,</span> <span class="p">{}))</span>
+</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>
+</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a>        <span class="k">if</span> <span class="n">od</span><span class="p">:</span>
+</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a>            <span class="n">ret</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([[</span><span class="n">ddi</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">values</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">ddi</span> <span class="ow">in</span> <span class="n">di</span><span class="p">]</span> <span class="k">for</span> <span class="n">di</span> <span class="ow">in</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]],</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="n">od</span><span class="p">[</span><span class="s1">&#39;idl&#39;</span><span class="p">])</span>
+</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a>            <span class="n">ret</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">]</span>
+</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a>            <span class="n">ret</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([],</span> <span class="p">[],</span> <span class="n">means</span><span class="o">=</span><span class="p">[])</span>
+</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a>            <span class="n">ret</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">values</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cd</span><span class="p">:</span>
+</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a>            <span class="n">co</span> <span class="o">=</span> <span class="n">cd</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a>            <span class="n">ret</span><span class="o">.</span><span class="n">_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">Covobs</span><span class="p">(</span><span class="kc">None</span><span class="p">,</span> <span class="n">co</span><span class="p">[</span><span class="s1">&#39;cov&#39;</span><span class="p">],</span> <span class="n">co</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">],</span> <span class="n">grad</span><span class="o">=</span><span class="n">co</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">])</span>
+</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a>            <span class="n">ret</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">co</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">])</span>
+</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a>
+</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a>        <span class="n">ret</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;reweighted&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
+</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a>        <span class="n">ret</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">,</span> <span class="p">[</span><span class="kc">None</span><span class="p">])[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a>        <span class="k">return</span> <span class="n">ret</span>
+</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a>
+</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a>    <span class="k">def</span> <span class="nf">get_List_from_dict</span><span class="p">(</span><span class="n">o</span><span class="p">):</span>
+</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>        <span class="n">layouts</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;layout&#39;</span><span class="p">,</span> <span class="s1">&#39;1&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>        <span class="n">layout</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">layouts</span><span class="p">)</span>
+</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">o</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span>
+</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>        <span class="n">od</span> <span class="o">=</span> <span class="n">_gen_obsd_from_datad</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;data&#39;</span><span class="p">,</span> <span class="p">{}))</span>
+</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>        <span class="n">cd</span> <span class="o">=</span> <span class="n">_gen_covobsd_from_cdatad</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;cdata&#39;</span><span class="p">,</span> <span class="p">{}))</span>
+</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a>
+</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a>        <span class="n">ret</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">,</span> <span class="n">layout</span> <span class="o">*</span> <span class="p">[</span><span class="kc">None</span><span class="p">])</span>
+</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">layout</span><span class="p">):</span>
+</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>            <span class="k">if</span> <span class="n">od</span><span class="p">:</span>
+</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>                <span class="n">ret</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="nb">list</span><span class="p">(</span><span class="n">di</span><span class="p">[:,</span> <span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">values</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="k">for</span> <span class="n">di</span> <span class="ow">in</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]],</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="n">od</span><span class="p">[</span><span class="s1">&#39;idl&#39;</span><span class="p">]))</span>
+</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">]</span>
+</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>                <span class="n">ret</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([],</span> <span class="p">[],</span> <span class="n">means</span><span class="o">=</span><span class="p">[]))</span>
+</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">values</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Created Obs with means= &#39;</span><span class="p">,</span> <span class="n">values</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cd</span><span class="p">:</span>
+</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>                <span class="n">co</span> <span class="o">=</span> <span class="n">cd</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span>
+</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">Covobs</span><span class="p">(</span><span class="kc">None</span><span class="p">,</span> <span class="n">co</span><span class="p">[</span><span class="s1">&#39;cov&#39;</span><span class="p">],</span> <span class="n">co</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">],</span> <span class="n">grad</span><span class="o">=</span><span class="n">co</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">])</span>
+</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">co</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">])</span>
+</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>
+</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>            <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;reweighted&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
+</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>            <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">taglist</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>        <span class="k">return</span> <span class="n">ret</span>
+</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>
+</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>    <span class="k">def</span> <span class="nf">get_Array_from_dict</span><span class="p">(</span><span class="n">o</span><span class="p">):</span>
+</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>        <span class="n">layouts</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;layout&#39;</span><span class="p">,</span> <span class="s1">&#39;1&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
+</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>        <span class="n">layout</span> <span class="o">=</span> <span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">ls</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span> <span class="k">for</span> <span class="n">ls</span> <span class="ow">in</span> <span class="n">layouts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">]</span>
+</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>        <span class="n">N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">prod</span><span class="p">(</span><span class="n">layout</span><span class="p">)</span>
+</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">o</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span>
+</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>        <span class="n">od</span> <span class="o">=</span> <span class="n">_gen_obsd_from_datad</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;data&#39;</span><span class="p">,</span> <span class="p">{}))</span>
+</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>        <span class="n">cd</span> <span class="o">=</span> <span class="n">_gen_covobsd_from_cdatad</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;cdata&#39;</span><span class="p">,</span> <span class="p">{}))</span>
+</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>
+</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>        <span class="n">ret</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">,</span> <span class="n">N</span> <span class="o">*</span> <span class="p">[</span><span class="kc">None</span><span class="p">])</span>
+</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">):</span>
+</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>            <span class="k">if</span> <span class="n">od</span><span class="p">:</span>
+</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>                <span class="n">ret</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="n">di</span><span class="p">[:,</span> <span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">values</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="k">for</span> <span class="n">di</span> <span class="ow">in</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]],</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="n">od</span><span class="p">[</span><span class="s1">&#39;idl&#39;</span><span class="p">]))</span>
+</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">od</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">]</span>
+</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>                <span class="n">ret</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">([],</span> <span class="p">[],</span> <span class="n">means</span><span class="o">=</span><span class="p">[]))</span>
+</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">values</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">cd</span><span class="p">:</span>
+</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>                <span class="n">co</span> <span class="o">=</span> <span class="n">cd</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span>
+</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">_covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">Covobs</span><span class="p">(</span><span class="kc">None</span><span class="p">,</span> <span class="n">co</span><span class="p">[</span><span class="s1">&#39;cov&#39;</span><span class="p">],</span> <span class="n">co</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">],</span> <span class="n">grad</span><span class="o">=</span><span class="n">co</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">])</span>
+</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>                <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">co</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">])</span>
+</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>            <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;reweighted&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
+</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>            <span class="n">ret</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">taglist</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">ret</span><span class="p">,</span> <span class="n">layout</span><span class="p">)</span>
+</span><span id="L-358"><a href="#L-358"><span class="linenos">358</span></a>
+</span><span id="L-359"><a href="#L-359"><span class="linenos">359</span></a>    <span class="k">def</span> <span class="nf">get_Corr_from_dict</span><span class="p">(</span><span class="n">o</span><span class="p">):</span>
+</span><span id="L-360"><a href="#L-360"><span class="linenos">360</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">),</span> <span class="nb">list</span><span class="p">):</span>  <span class="c1"># supports the old way</span>
+</span><span id="L-361"><a href="#L-361"><span class="linenos">361</span></a>            <span class="n">taglist</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">)</span>  <span class="c1"># This had to be modified to get the taglist from the dictionary</span>
+</span><span id="L-362"><a href="#L-362"><span class="linenos">362</span></a>            <span class="n">temp_prange</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-363"><a href="#L-363"><span class="linenos">363</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">),</span> <span class="nb">dict</span><span class="p">):</span>
+</span><span id="L-364"><a href="#L-364"><span class="linenos">364</span></a>            <span class="n">tagdic</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;tag&#39;</span><span class="p">)</span>
+</span><span id="L-365"><a href="#L-365"><span class="linenos">365</span></a>            <span class="n">taglist</span> <span class="o">=</span> <span class="n">tagdic</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span>
+</span><span id="L-366"><a href="#L-366"><span class="linenos">366</span></a>            <span class="k">if</span> <span class="s1">&#39;prange&#39;</span> <span class="ow">in</span> <span class="n">tagdic</span><span class="p">:</span>
+</span><span id="L-367"><a href="#L-367"><span class="linenos">367</span></a>                <span class="n">temp_prange</span> <span class="o">=</span> <span class="n">tagdic</span><span class="p">[</span><span class="s1">&#39;prange&#39;</span><span class="p">]</span>
+</span><span id="L-368"><a href="#L-368"><span class="linenos">368</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-369"><a href="#L-369"><span class="linenos">369</span></a>                <span class="n">temp_prange</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-370"><a href="#L-370"><span class="linenos">370</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-371"><a href="#L-371"><span class="linenos">371</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;The tag is not a list or dict&quot;</span><span class="p">)</span>
+</span><span id="L-372"><a href="#L-372"><span class="linenos">372</span></a>
+</span><span id="L-373"><a href="#L-373"><span class="linenos">373</span></a>        <span class="n">corr_tag</span> <span class="o">=</span> <span class="n">taglist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-374"><a href="#L-374"><span class="linenos">374</span></a>        <span class="n">tmp_o</span> <span class="o">=</span> <span class="n">o</span>
+</span><span id="L-375"><a href="#L-375"><span class="linenos">375</span></a>        <span class="n">tmp_o</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-376"><a href="#L-376"><span class="linenos">376</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">tmp_o</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">])</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-377"><a href="#L-377"><span class="linenos">377</span></a>            <span class="k">del</span> <span class="n">tmp_o</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span>
+</span><span id="L-378"><a href="#L-378"><span class="linenos">378</span></a>        <span class="n">dat</span> <span class="o">=</span> <span class="n">get_Array_from_dict</span><span class="p">(</span><span class="n">tmp_o</span><span class="p">)</span>
+</span><span id="L-379"><a href="#L-379"><span class="linenos">379</span></a>        <span class="n">my_corr</span> <span class="o">=</span> <span class="n">Corr</span><span class="p">([</span><span class="kc">None</span> <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isnan</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">ravel</span><span class="p">()[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="k">else</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="nb">list</span><span class="p">(</span><span class="n">dat</span><span class="p">)])</span>
+</span><span id="L-380"><a href="#L-380"><span class="linenos">380</span></a>        <span class="k">if</span> <span class="n">corr_tag</span> <span class="o">!=</span> <span class="s1">&#39;None&#39;</span><span class="p">:</span>
+</span><span id="L-381"><a href="#L-381"><span class="linenos">381</span></a>            <span class="n">my_corr</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="n">corr_tag</span>
+</span><span id="L-382"><a href="#L-382"><span class="linenos">382</span></a>
+</span><span id="L-383"><a href="#L-383"><span class="linenos">383</span></a>        <span class="n">my_corr</span><span class="o">.</span><span class="n">prange</span> <span class="o">=</span> <span class="n">temp_prange</span>
+</span><span id="L-384"><a href="#L-384"><span class="linenos">384</span></a>        <span class="k">return</span> <span class="n">my_corr</span>
+</span><span id="L-385"><a href="#L-385"><span class="linenos">385</span></a>
+</span><span id="L-386"><a href="#L-386"><span class="linenos">386</span></a>    <span class="n">prog</span> <span class="o">=</span> <span class="n">json_dict</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;program&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="L-387"><a href="#L-387"><span class="linenos">387</span></a>    <span class="n">version</span> <span class="o">=</span> <span class="n">json_dict</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;version&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="L-388"><a href="#L-388"><span class="linenos">388</span></a>    <span class="n">who</span> <span class="o">=</span> <span class="n">json_dict</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;who&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="L-389"><a href="#L-389"><span class="linenos">389</span></a>    <span class="n">date</span> <span class="o">=</span> <span class="n">json_dict</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;date&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="L-390"><a href="#L-390"><span class="linenos">390</span></a>    <span class="n">host</span> <span class="o">=</span> <span class="n">json_dict</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;host&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="L-391"><a href="#L-391"><span class="linenos">391</span></a>    <span class="k">if</span> <span class="n">prog</span> <span class="ow">and</span> <span class="n">verbose</span><span class="p">:</span>
+</span><span id="L-392"><a href="#L-392"><span class="linenos">392</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Data has been written using </span><span class="si">%s</span><span class="s1">.&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">prog</span><span class="p">))</span>
+</span><span id="L-393"><a href="#L-393"><span class="linenos">393</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="ow">and</span> <span class="n">verbose</span><span class="p">:</span>
+</span><span id="L-394"><a href="#L-394"><span class="linenos">394</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Format version </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">version</span><span class="p">))</span>
+</span><span id="L-395"><a href="#L-395"><span class="linenos">395</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">who</span><span class="p">,</span> <span class="n">date</span><span class="p">,</span> <span class="n">host</span><span class="p">]</span> <span class="ow">and</span> <span class="n">verbose</span><span class="p">):</span>
+</span><span id="L-396"><a href="#L-396"><span class="linenos">396</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Written by </span><span class="si">%s</span><span class="s1"> on </span><span class="si">%s</span><span class="s1"> on host </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">who</span><span class="p">,</span> <span class="n">date</span><span class="p">,</span> <span class="n">host</span><span class="p">))</span>
+</span><span id="L-397"><a href="#L-397"><span class="linenos">397</span></a>    <span class="n">description</span> <span class="o">=</span> <span class="n">json_dict</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;description&#39;</span><span class="p">,</span> <span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="L-398"><a href="#L-398"><span class="linenos">398</span></a>    <span class="k">if</span> <span class="n">description</span> <span class="ow">and</span> <span class="n">verbose</span><span class="p">:</span>
+</span><span id="L-399"><a href="#L-399"><span class="linenos">399</span></a>        <span class="nb">print</span><span class="p">()</span>
+</span><span id="L-400"><a href="#L-400"><span class="linenos">400</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Description: &#39;</span><span class="p">,</span> <span class="n">description</span><span class="p">)</span>
+</span><span id="L-401"><a href="#L-401"><span class="linenos">401</span></a>    <span class="n">obsdata</span> <span class="o">=</span> <span class="n">json_dict</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span>
+</span><span id="L-402"><a href="#L-402"><span class="linenos">402</span></a>    <span class="n">ol</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-403"><a href="#L-403"><span class="linenos">403</span></a>    <span class="k">for</span> <span class="n">io</span> <span class="ow">in</span> <span class="n">obsdata</span><span class="p">:</span>
+</span><span id="L-404"><a href="#L-404"><span class="linenos">404</span></a>        <span class="k">if</span> <span class="n">io</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;Obs&#39;</span><span class="p">:</span>
+</span><span id="L-405"><a href="#L-405"><span class="linenos">405</span></a>            <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">get_Obs_from_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
+</span><span id="L-406"><a href="#L-406"><span class="linenos">406</span></a>        <span class="k">elif</span> <span class="n">io</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;List&#39;</span><span class="p">:</span>
+</span><span id="L-407"><a href="#L-407"><span class="linenos">407</span></a>            <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">get_List_from_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
+</span><span id="L-408"><a href="#L-408"><span class="linenos">408</span></a>        <span class="k">elif</span> <span class="n">io</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;Array&#39;</span><span class="p">:</span>
+</span><span id="L-409"><a href="#L-409"><span class="linenos">409</span></a>            <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">get_Array_from_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
+</span><span id="L-410"><a href="#L-410"><span class="linenos">410</span></a>        <span class="k">elif</span> <span class="n">io</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">==</span> <span class="s1">&#39;Corr&#39;</span><span class="p">:</span>
+</span><span id="L-411"><a href="#L-411"><span class="linenos">411</span></a>            <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">get_Corr_from_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
+</span><span id="L-412"><a href="#L-412"><span class="linenos">412</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-413"><a href="#L-413"><span class="linenos">413</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unkown datatype.&quot;</span><span class="p">)</span>
+</span><span id="L-414"><a href="#L-414"><span class="linenos">414</span></a>
+</span><span id="L-415"><a href="#L-415"><span class="linenos">415</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
+</span><span id="L-416"><a href="#L-416"><span class="linenos">416</span></a>        <span class="n">retd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-417"><a href="#L-417"><span class="linenos">417</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">prog</span>
+</span><span id="L-418"><a href="#L-418"><span class="linenos">418</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">version</span>
+</span><span id="L-419"><a href="#L-419"><span class="linenos">419</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">who</span>
+</span><span id="L-420"><a href="#L-420"><span class="linenos">420</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">date</span>
+</span><span id="L-421"><a href="#L-421"><span class="linenos">421</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">host</span>
+</span><span id="L-422"><a href="#L-422"><span class="linenos">422</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">description</span>
+</span><span id="L-423"><a href="#L-423"><span class="linenos">423</span></a>        <span class="n">retd</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ol</span>
+</span><span id="L-424"><a href="#L-424"><span class="linenos">424</span></a>
+</span><span id="L-425"><a href="#L-425"><span class="linenos">425</span></a>        <span class="k">return</span> <span class="n">retd</span>
+</span><span id="L-426"><a href="#L-426"><span class="linenos">426</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-427"><a href="#L-427"><span class="linenos">427</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">obsdata</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-428"><a href="#L-428"><span class="linenos">428</span></a>            <span class="n">ol</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-429"><a href="#L-429"><span class="linenos">429</span></a>
+</span><span id="L-430"><a href="#L-430"><span class="linenos">430</span></a>        <span class="k">return</span> <span class="n">ol</span>
 </span><span id="L-431"><a href="#L-431"><span class="linenos">431</span></a>
-</span><span id="L-432"><a href="#L-432"><span class="linenos">432</span></a><span class="k">def</span> <span class="nf">import_json_string</span><span class="p">(</span><span class="n">json_string</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="L-433"><a href="#L-433"><span class="linenos">433</span></a>    <span class="sd">&quot;&quot;&quot;Reconstruct a list of Obs or structures containing Obs from a json string.</span>
-</span><span id="L-434"><a href="#L-434"><span class="linenos">434</span></a>
-</span><span id="L-435"><a href="#L-435"><span class="linenos">435</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
-</span><span id="L-436"><a href="#L-436"><span class="linenos">436</span></a><span class="sd">    If the list contains only one element, it is unpacked from the list.</span>
-</span><span id="L-437"><a href="#L-437"><span class="linenos">437</span></a>
-</span><span id="L-438"><a href="#L-438"><span class="linenos">438</span></a><span class="sd">    Parameters</span>
-</span><span id="L-439"><a href="#L-439"><span class="linenos">439</span></a><span class="sd">    ----------</span>
-</span><span id="L-440"><a href="#L-440"><span class="linenos">440</span></a><span class="sd">    json_string : str</span>
-</span><span id="L-441"><a href="#L-441"><span class="linenos">441</span></a><span class="sd">        json string containing the data.</span>
-</span><span id="L-442"><a href="#L-442"><span class="linenos">442</span></a><span class="sd">    verbose : bool</span>
-</span><span id="L-443"><a href="#L-443"><span class="linenos">443</span></a><span class="sd">        Print additional information that was written to the file.</span>
-</span><span id="L-444"><a href="#L-444"><span class="linenos">444</span></a><span class="sd">    full_output : bool</span>
-</span><span id="L-445"><a href="#L-445"><span class="linenos">445</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="L-446"><a href="#L-446"><span class="linenos">446</span></a><span class="sd">        If False, only the data is returned.</span>
-</span><span id="L-447"><a href="#L-447"><span class="linenos">447</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-448"><a href="#L-448"><span class="linenos">448</span></a>
-</span><span id="L-449"><a href="#L-449"><span class="linenos">449</span></a>    <span class="k">return</span> <span class="n">_parse_json_dict</span><span class="p">(</span><span class="n">json</span><span class="o">.</span><span class="n">loads</span><span class="p">(</span><span class="n">json_string</span><span class="p">),</span> <span class="n">verbose</span><span class="p">,</span> <span class="n">full_output</span><span class="p">)</span>
-</span><span id="L-450"><a href="#L-450"><span class="linenos">450</span></a>
+</span><span id="L-432"><a href="#L-432"><span class="linenos">432</span></a>
+</span><span id="L-433"><a href="#L-433"><span class="linenos">433</span></a><span class="k">def</span> <span class="nf">import_json_string</span><span class="p">(</span><span class="n">json_string</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="L-434"><a href="#L-434"><span class="linenos">434</span></a>    <span class="sd">&quot;&quot;&quot;Reconstruct a list of Obs or structures containing Obs from a json string.</span>
+</span><span id="L-435"><a href="#L-435"><span class="linenos">435</span></a>
+</span><span id="L-436"><a href="#L-436"><span class="linenos">436</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
+</span><span id="L-437"><a href="#L-437"><span class="linenos">437</span></a><span class="sd">    If the list contains only one element, it is unpacked from the list.</span>
+</span><span id="L-438"><a href="#L-438"><span class="linenos">438</span></a>
+</span><span id="L-439"><a href="#L-439"><span class="linenos">439</span></a><span class="sd">    Parameters</span>
+</span><span id="L-440"><a href="#L-440"><span class="linenos">440</span></a><span class="sd">    ----------</span>
+</span><span id="L-441"><a href="#L-441"><span class="linenos">441</span></a><span class="sd">    json_string : str</span>
+</span><span id="L-442"><a href="#L-442"><span class="linenos">442</span></a><span class="sd">        json string containing the data.</span>
+</span><span id="L-443"><a href="#L-443"><span class="linenos">443</span></a><span class="sd">    verbose : bool</span>
+</span><span id="L-444"><a href="#L-444"><span class="linenos">444</span></a><span class="sd">        Print additional information that was written to the file.</span>
+</span><span id="L-445"><a href="#L-445"><span class="linenos">445</span></a><span class="sd">    full_output : bool</span>
+</span><span id="L-446"><a href="#L-446"><span class="linenos">446</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="L-447"><a href="#L-447"><span class="linenos">447</span></a><span class="sd">        If False, only the data is returned.</span>
+</span><span id="L-448"><a href="#L-448"><span class="linenos">448</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-449"><a href="#L-449"><span class="linenos">449</span></a>
+</span><span id="L-450"><a href="#L-450"><span class="linenos">450</span></a>    <span class="k">return</span> <span class="n">_parse_json_dict</span><span class="p">(</span><span class="n">json</span><span class="o">.</span><span class="n">loads</span><span class="p">(</span><span class="n">json_string</span><span class="p">),</span> <span class="n">verbose</span><span class="p">,</span> <span class="n">full_output</span><span class="p">)</span>
 </span><span id="L-451"><a href="#L-451"><span class="linenos">451</span></a>
-</span><span id="L-452"><a href="#L-452"><span class="linenos">452</span></a><span class="k">def</span> <span class="nf">load_json</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="L-453"><a href="#L-453"><span class="linenos">453</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs or structures containing Obs from a .json(.gz) file.</span>
-</span><span id="L-454"><a href="#L-454"><span class="linenos">454</span></a>
-</span><span id="L-455"><a href="#L-455"><span class="linenos">455</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
-</span><span id="L-456"><a href="#L-456"><span class="linenos">456</span></a><span class="sd">    If the list contains only one element, it is unpacked from the list.</span>
-</span><span id="L-457"><a href="#L-457"><span class="linenos">457</span></a>
-</span><span id="L-458"><a href="#L-458"><span class="linenos">458</span></a><span class="sd">    Parameters</span>
-</span><span id="L-459"><a href="#L-459"><span class="linenos">459</span></a><span class="sd">    ----------</span>
-</span><span id="L-460"><a href="#L-460"><span class="linenos">460</span></a><span class="sd">    fname : str</span>
-</span><span id="L-461"><a href="#L-461"><span class="linenos">461</span></a><span class="sd">        Filename of the input file.</span>
-</span><span id="L-462"><a href="#L-462"><span class="linenos">462</span></a><span class="sd">    verbose : bool</span>
-</span><span id="L-463"><a href="#L-463"><span class="linenos">463</span></a><span class="sd">        Print additional information that was written to the file.</span>
-</span><span id="L-464"><a href="#L-464"><span class="linenos">464</span></a><span class="sd">    gz : bool</span>
-</span><span id="L-465"><a href="#L-465"><span class="linenos">465</span></a><span class="sd">        If True, assumes that data is gzipped. If False, assumes JSON file.</span>
-</span><span id="L-466"><a href="#L-466"><span class="linenos">466</span></a><span class="sd">    full_output : bool</span>
-</span><span id="L-467"><a href="#L-467"><span class="linenos">467</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="L-468"><a href="#L-468"><span class="linenos">468</span></a><span class="sd">        If False, only the data is returned.</span>
-</span><span id="L-469"><a href="#L-469"><span class="linenos">469</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-470"><a href="#L-470"><span class="linenos">470</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.json&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-471"><a href="#L-471"><span class="linenos">471</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.json&#39;</span>
-</span><span id="L-472"><a href="#L-472"><span class="linenos">472</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
-</span><span id="L-473"><a href="#L-473"><span class="linenos">473</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-474"><a href="#L-474"><span class="linenos">474</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
-</span><span id="L-475"><a href="#L-475"><span class="linenos">475</span></a>        <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
-</span><span id="L-476"><a href="#L-476"><span class="linenos">476</span></a>            <span class="n">d</span> <span class="o">=</span> <span class="n">json</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">fin</span><span class="p">)</span>
-</span><span id="L-477"><a href="#L-477"><span class="linenos">477</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-478"><a href="#L-478"><span class="linenos">478</span></a>        <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="L-479"><a href="#L-479"><span class="linenos">479</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!&quot;</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
-</span><span id="L-480"><a href="#L-480"><span class="linenos">480</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
-</span><span id="L-481"><a href="#L-481"><span class="linenos">481</span></a>            <span class="n">d</span> <span class="o">=</span> <span class="n">json</span><span class="o">.</span><span class="n">loads</span><span class="p">(</span><span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">())</span>
-</span><span id="L-482"><a href="#L-482"><span class="linenos">482</span></a>
-</span><span id="L-483"><a href="#L-483"><span class="linenos">483</span></a>    <span class="k">return</span> <span class="n">_parse_json_dict</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">verbose</span><span class="p">,</span> <span class="n">full_output</span><span class="p">)</span>
-</span><span id="L-484"><a href="#L-484"><span class="linenos">484</span></a>
+</span><span id="L-452"><a href="#L-452"><span class="linenos">452</span></a>
+</span><span id="L-453"><a href="#L-453"><span class="linenos">453</span></a><span class="k">def</span> <span class="nf">load_json</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="L-454"><a href="#L-454"><span class="linenos">454</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs or structures containing Obs from a .json(.gz) file.</span>
+</span><span id="L-455"><a href="#L-455"><span class="linenos">455</span></a>
+</span><span id="L-456"><a href="#L-456"><span class="linenos">456</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
+</span><span id="L-457"><a href="#L-457"><span class="linenos">457</span></a><span class="sd">    If the list contains only one element, it is unpacked from the list.</span>
+</span><span id="L-458"><a href="#L-458"><span class="linenos">458</span></a>
+</span><span id="L-459"><a href="#L-459"><span class="linenos">459</span></a><span class="sd">    Parameters</span>
+</span><span id="L-460"><a href="#L-460"><span class="linenos">460</span></a><span class="sd">    ----------</span>
+</span><span id="L-461"><a href="#L-461"><span class="linenos">461</span></a><span class="sd">    fname : str</span>
+</span><span id="L-462"><a href="#L-462"><span class="linenos">462</span></a><span class="sd">        Filename of the input file.</span>
+</span><span id="L-463"><a href="#L-463"><span class="linenos">463</span></a><span class="sd">    verbose : bool</span>
+</span><span id="L-464"><a href="#L-464"><span class="linenos">464</span></a><span class="sd">        Print additional information that was written to the file.</span>
+</span><span id="L-465"><a href="#L-465"><span class="linenos">465</span></a><span class="sd">    gz : bool</span>
+</span><span id="L-466"><a href="#L-466"><span class="linenos">466</span></a><span class="sd">        If True, assumes that data is gzipped. If False, assumes JSON file.</span>
+</span><span id="L-467"><a href="#L-467"><span class="linenos">467</span></a><span class="sd">    full_output : bool</span>
+</span><span id="L-468"><a href="#L-468"><span class="linenos">468</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="L-469"><a href="#L-469"><span class="linenos">469</span></a><span class="sd">        If False, only the data is returned.</span>
+</span><span id="L-470"><a href="#L-470"><span class="linenos">470</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-471"><a href="#L-471"><span class="linenos">471</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.json&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-472"><a href="#L-472"><span class="linenos">472</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.json&#39;</span>
+</span><span id="L-473"><a href="#L-473"><span class="linenos">473</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
+</span><span id="L-474"><a href="#L-474"><span class="linenos">474</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-475"><a href="#L-475"><span class="linenos">475</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
+</span><span id="L-476"><a href="#L-476"><span class="linenos">476</span></a>        <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+</span><span id="L-477"><a href="#L-477"><span class="linenos">477</span></a>            <span class="n">d</span> <span class="o">=</span> <span class="n">json</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">fin</span><span class="p">)</span>
+</span><span id="L-478"><a href="#L-478"><span class="linenos">478</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-479"><a href="#L-479"><span class="linenos">479</span></a>        <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="L-480"><a href="#L-480"><span class="linenos">480</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!&quot;</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
+</span><span id="L-481"><a href="#L-481"><span class="linenos">481</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+</span><span id="L-482"><a href="#L-482"><span class="linenos">482</span></a>            <span class="n">d</span> <span class="o">=</span> <span class="n">json</span><span class="o">.</span><span class="n">loads</span><span class="p">(</span><span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">())</span>
+</span><span id="L-483"><a href="#L-483"><span class="linenos">483</span></a>
+</span><span id="L-484"><a href="#L-484"><span class="linenos">484</span></a>    <span class="k">return</span> <span class="n">_parse_json_dict</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">verbose</span><span class="p">,</span> <span class="n">full_output</span><span class="p">)</span>
 </span><span id="L-485"><a href="#L-485"><span class="linenos">485</span></a>
-</span><span id="L-486"><a href="#L-486"><span class="linenos">486</span></a><span class="k">def</span> <span class="nf">_ol_from_dict</span><span class="p">(</span><span class="n">ind</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span><span class="p">):</span>
-</span><span id="L-487"><a href="#L-487"><span class="linenos">487</span></a>    <span class="sd">&quot;&quot;&quot;Convert a dictionary of Obs objects to a list and a dictionary that contains</span>
-</span><span id="L-488"><a href="#L-488"><span class="linenos">488</span></a><span class="sd">    placeholders instead of the Obs objects.</span>
-</span><span id="L-489"><a href="#L-489"><span class="linenos">489</span></a>
-</span><span id="L-490"><a href="#L-490"><span class="linenos">490</span></a><span class="sd">    Parameters</span>
-</span><span id="L-491"><a href="#L-491"><span class="linenos">491</span></a><span class="sd">    ----------</span>
-</span><span id="L-492"><a href="#L-492"><span class="linenos">492</span></a><span class="sd">    ind : dict</span>
-</span><span id="L-493"><a href="#L-493"><span class="linenos">493</span></a><span class="sd">        Dict of JSON valid structures and objects that will be exported.</span>
-</span><span id="L-494"><a href="#L-494"><span class="linenos">494</span></a><span class="sd">        At the moment, these object can be either of: Obs, list, numpy.ndarray, Corr.</span>
-</span><span id="L-495"><a href="#L-495"><span class="linenos">495</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
-</span><span id="L-496"><a href="#L-496"><span class="linenos">496</span></a><span class="sd">    reps : str</span>
-</span><span id="L-497"><a href="#L-497"><span class="linenos">497</span></a><span class="sd">        Specify the structure of the placeholder in exported dict to be reps[0-9]+.</span>
-</span><span id="L-498"><a href="#L-498"><span class="linenos">498</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-499"><a href="#L-499"><span class="linenos">499</span></a>
-</span><span id="L-500"><a href="#L-500"><span class="linenos">500</span></a>    <span class="n">obstypes</span> <span class="o">=</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">Corr</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span>
-</span><span id="L-501"><a href="#L-501"><span class="linenos">501</span></a>
-</span><span id="L-502"><a href="#L-502"><span class="linenos">502</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">reps</span><span class="o">.</span><span class="n">isalnum</span><span class="p">():</span>
-</span><span id="L-503"><a href="#L-503"><span class="linenos">503</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Placeholder string has to be alphanumeric!&#39;</span><span class="p">)</span>
-</span><span id="L-504"><a href="#L-504"><span class="linenos">504</span></a>    <span class="n">ol</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-505"><a href="#L-505"><span class="linenos">505</span></a>    <span class="n">counter</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-506"><a href="#L-506"><span class="linenos">506</span></a>
-</span><span id="L-507"><a href="#L-507"><span class="linenos">507</span></a>    <span class="k">def</span> <span class="nf">dict_replace_obs</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="L-508"><a href="#L-508"><span class="linenos">508</span></a>        <span class="k">nonlocal</span> <span class="n">ol</span>
-</span><span id="L-509"><a href="#L-509"><span class="linenos">509</span></a>        <span class="k">nonlocal</span> <span class="n">counter</span>
-</span><span id="L-510"><a href="#L-510"><span class="linenos">510</span></a>        <span class="n">x</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-511"><a href="#L-511"><span class="linenos">511</span></a>        <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">d</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
-</span><span id="L-512"><a href="#L-512"><span class="linenos">512</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
-</span><span id="L-513"><a href="#L-513"><span class="linenos">513</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">dict_replace_obs</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
-</span><span id="L-514"><a href="#L-514"><span class="linenos">514</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">v</span><span class="p">]):</span>
-</span><span id="L-515"><a href="#L-515"><span class="linenos">515</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">obslist_replace_obs</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
-</span><span id="L-516"><a href="#L-516"><span class="linenos">516</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-517"><a href="#L-517"><span class="linenos">517</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">list_replace_obs</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
-</span><span id="L-518"><a href="#L-518"><span class="linenos">518</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="n">obstypes</span><span class="p">):</span>
-</span><span id="L-519"><a href="#L-519"><span class="linenos">519</span></a>                <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
-</span><span id="L-520"><a href="#L-520"><span class="linenos">520</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">reps</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">counter</span><span class="p">)</span>
-</span><span id="L-521"><a href="#L-521"><span class="linenos">521</span></a>                <span class="n">counter</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-522"><a href="#L-522"><span class="linenos">522</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="L-523"><a href="#L-523"><span class="linenos">523</span></a>                <span class="k">if</span> <span class="nb">bool</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">match</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;</span><span class="si">%s</span><span class="s1">[0-9]+&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">reps</span><span class="p">),</span> <span class="n">v</span><span class="p">)):</span>
-</span><span id="L-524"><a href="#L-524"><span class="linenos">524</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Dict contains string </span><span class="si">%s</span><span class="s1"> that matches the placeholder! </span><span class="si">%s</span><span class="s1"> Cannot be savely exported.&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="n">reps</span><span class="p">))</span>
-</span><span id="L-525"><a href="#L-525"><span class="linenos">525</span></a>            <span class="n">x</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">=</span> <span class="n">v</span>
-</span><span id="L-526"><a href="#L-526"><span class="linenos">526</span></a>        <span class="k">return</span> <span class="n">x</span>
-</span><span id="L-527"><a href="#L-527"><span class="linenos">527</span></a>
-</span><span id="L-528"><a href="#L-528"><span class="linenos">528</span></a>    <span class="k">def</span> <span class="nf">list_replace_obs</span><span class="p">(</span><span class="n">li</span><span class="p">):</span>
-</span><span id="L-529"><a href="#L-529"><span class="linenos">529</span></a>        <span class="k">nonlocal</span> <span class="n">ol</span>
-</span><span id="L-530"><a href="#L-530"><span class="linenos">530</span></a>        <span class="k">nonlocal</span> <span class="n">counter</span>
-</span><span id="L-531"><a href="#L-531"><span class="linenos">531</span></a>        <span class="n">x</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-532"><a href="#L-532"><span class="linenos">532</span></a>        <span class="k">for</span> <span class="n">e</span> <span class="ow">in</span> <span class="n">li</span><span class="p">:</span>
-</span><span id="L-533"><a href="#L-533"><span class="linenos">533</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-534"><a href="#L-534"><span class="linenos">534</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">list_replace_obs</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
-</span><span id="L-535"><a href="#L-535"><span class="linenos">535</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">e</span><span class="p">]):</span>
-</span><span id="L-536"><a href="#L-536"><span class="linenos">536</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">obslist_replace_obs</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
-</span><span id="L-537"><a href="#L-537"><span class="linenos">537</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
-</span><span id="L-538"><a href="#L-538"><span class="linenos">538</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">dict_replace_obs</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
-</span><span id="L-539"><a href="#L-539"><span class="linenos">539</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="n">obstypes</span><span class="p">):</span>
-</span><span id="L-540"><a href="#L-540"><span class="linenos">540</span></a>                <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
-</span><span id="L-541"><a href="#L-541"><span class="linenos">541</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">reps</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">counter</span><span class="p">)</span>
-</span><span id="L-542"><a href="#L-542"><span class="linenos">542</span></a>                <span class="n">counter</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-543"><a href="#L-543"><span class="linenos">543</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="L-544"><a href="#L-544"><span class="linenos">544</span></a>                <span class="k">if</span> <span class="nb">bool</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">match</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;</span><span class="si">%s</span><span class="s1">[0-9]+&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">reps</span><span class="p">),</span> <span class="n">e</span><span class="p">)):</span>
-</span><span id="L-545"><a href="#L-545"><span class="linenos">545</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Dict contains string </span><span class="si">%s</span><span class="s1"> that matches the placeholder! </span><span class="si">%s</span><span class="s1"> Cannot be savely exported.&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="n">reps</span><span class="p">))</span>
-</span><span id="L-546"><a href="#L-546"><span class="linenos">546</span></a>            <span class="n">x</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
-</span><span id="L-547"><a href="#L-547"><span class="linenos">547</span></a>        <span class="k">return</span> <span class="n">x</span>
-</span><span id="L-548"><a href="#L-548"><span class="linenos">548</span></a>
-</span><span id="L-549"><a href="#L-549"><span class="linenos">549</span></a>    <span class="k">def</span> <span class="nf">obslist_replace_obs</span><span class="p">(</span><span class="n">li</span><span class="p">):</span>
-</span><span id="L-550"><a href="#L-550"><span class="linenos">550</span></a>        <span class="k">nonlocal</span> <span class="n">ol</span>
-</span><span id="L-551"><a href="#L-551"><span class="linenos">551</span></a>        <span class="k">nonlocal</span> <span class="n">counter</span>
-</span><span id="L-552"><a href="#L-552"><span class="linenos">552</span></a>        <span class="n">il</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-553"><a href="#L-553"><span class="linenos">553</span></a>        <span class="k">for</span> <span class="n">e</span> <span class="ow">in</span> <span class="n">li</span><span class="p">:</span>
-</span><span id="L-554"><a href="#L-554"><span class="linenos">554</span></a>            <span class="n">il</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
-</span><span id="L-555"><a href="#L-555"><span class="linenos">555</span></a>
-</span><span id="L-556"><a href="#L-556"><span class="linenos">556</span></a>        <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">il</span><span class="p">)</span>
-</span><span id="L-557"><a href="#L-557"><span class="linenos">557</span></a>        <span class="n">x</span> <span class="o">=</span> <span class="n">reps</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">counter</span><span class="p">)</span>
-</span><span id="L-558"><a href="#L-558"><span class="linenos">558</span></a>        <span class="n">counter</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-559"><a href="#L-559"><span class="linenos">559</span></a>        <span class="k">return</span> <span class="n">x</span>
-</span><span id="L-560"><a href="#L-560"><span class="linenos">560</span></a>
-</span><span id="L-561"><a href="#L-561"><span class="linenos">561</span></a>    <span class="n">nd</span> <span class="o">=</span> <span class="n">dict_replace_obs</span><span class="p">(</span><span class="n">ind</span><span class="p">)</span>
-</span><span id="L-562"><a href="#L-562"><span class="linenos">562</span></a>
-</span><span id="L-563"><a href="#L-563"><span class="linenos">563</span></a>    <span class="k">return</span> <span class="n">ol</span><span class="p">,</span> <span class="n">nd</span>
-</span><span id="L-564"><a href="#L-564"><span class="linenos">564</span></a>
+</span><span id="L-486"><a href="#L-486"><span class="linenos">486</span></a>
+</span><span id="L-487"><a href="#L-487"><span class="linenos">487</span></a><span class="k">def</span> <span class="nf">_ol_from_dict</span><span class="p">(</span><span class="n">ind</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span><span class="p">):</span>
+</span><span id="L-488"><a href="#L-488"><span class="linenos">488</span></a>    <span class="sd">&quot;&quot;&quot;Convert a dictionary of Obs objects to a list and a dictionary that contains</span>
+</span><span id="L-489"><a href="#L-489"><span class="linenos">489</span></a><span class="sd">    placeholders instead of the Obs objects.</span>
+</span><span id="L-490"><a href="#L-490"><span class="linenos">490</span></a>
+</span><span id="L-491"><a href="#L-491"><span class="linenos">491</span></a><span class="sd">    Parameters</span>
+</span><span id="L-492"><a href="#L-492"><span class="linenos">492</span></a><span class="sd">    ----------</span>
+</span><span id="L-493"><a href="#L-493"><span class="linenos">493</span></a><span class="sd">    ind : dict</span>
+</span><span id="L-494"><a href="#L-494"><span class="linenos">494</span></a><span class="sd">        Dict of JSON valid structures and objects that will be exported.</span>
+</span><span id="L-495"><a href="#L-495"><span class="linenos">495</span></a><span class="sd">        At the moment, these object can be either of: Obs, list, numpy.ndarray, Corr.</span>
+</span><span id="L-496"><a href="#L-496"><span class="linenos">496</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
+</span><span id="L-497"><a href="#L-497"><span class="linenos">497</span></a><span class="sd">    reps : str</span>
+</span><span id="L-498"><a href="#L-498"><span class="linenos">498</span></a><span class="sd">        Specify the structure of the placeholder in exported dict to be reps[0-9]+.</span>
+</span><span id="L-499"><a href="#L-499"><span class="linenos">499</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-500"><a href="#L-500"><span class="linenos">500</span></a>
+</span><span id="L-501"><a href="#L-501"><span class="linenos">501</span></a>    <span class="n">obstypes</span> <span class="o">=</span> <span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">Corr</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)</span>
+</span><span id="L-502"><a href="#L-502"><span class="linenos">502</span></a>
+</span><span id="L-503"><a href="#L-503"><span class="linenos">503</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">reps</span><span class="o">.</span><span class="n">isalnum</span><span class="p">():</span>
+</span><span id="L-504"><a href="#L-504"><span class="linenos">504</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Placeholder string has to be alphanumeric!&#39;</span><span class="p">)</span>
+</span><span id="L-505"><a href="#L-505"><span class="linenos">505</span></a>    <span class="n">ol</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-506"><a href="#L-506"><span class="linenos">506</span></a>    <span class="n">counter</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-507"><a href="#L-507"><span class="linenos">507</span></a>
+</span><span id="L-508"><a href="#L-508"><span class="linenos">508</span></a>    <span class="k">def</span> <span class="nf">dict_replace_obs</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="L-509"><a href="#L-509"><span class="linenos">509</span></a>        <span class="k">nonlocal</span> <span class="n">ol</span>
+</span><span id="L-510"><a href="#L-510"><span class="linenos">510</span></a>        <span class="k">nonlocal</span> <span class="n">counter</span>
+</span><span id="L-511"><a href="#L-511"><span class="linenos">511</span></a>        <span class="n">x</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-512"><a href="#L-512"><span class="linenos">512</span></a>        <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">d</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+</span><span id="L-513"><a href="#L-513"><span class="linenos">513</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
+</span><span id="L-514"><a href="#L-514"><span class="linenos">514</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">dict_replace_obs</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
+</span><span id="L-515"><a href="#L-515"><span class="linenos">515</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">v</span><span class="p">]):</span>
+</span><span id="L-516"><a href="#L-516"><span class="linenos">516</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">obslist_replace_obs</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
+</span><span id="L-517"><a href="#L-517"><span class="linenos">517</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-518"><a href="#L-518"><span class="linenos">518</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">list_replace_obs</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
+</span><span id="L-519"><a href="#L-519"><span class="linenos">519</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="n">obstypes</span><span class="p">):</span>
+</span><span id="L-520"><a href="#L-520"><span class="linenos">520</span></a>                <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
+</span><span id="L-521"><a href="#L-521"><span class="linenos">521</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">reps</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">counter</span><span class="p">)</span>
+</span><span id="L-522"><a href="#L-522"><span class="linenos">522</span></a>                <span class="n">counter</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-523"><a href="#L-523"><span class="linenos">523</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="L-524"><a href="#L-524"><span class="linenos">524</span></a>                <span class="k">if</span> <span class="nb">bool</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">match</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;</span><span class="si">%s</span><span class="s1">[0-9]+&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">reps</span><span class="p">),</span> <span class="n">v</span><span class="p">)):</span>
+</span><span id="L-525"><a href="#L-525"><span class="linenos">525</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Dict contains string </span><span class="si">%s</span><span class="s1"> that matches the placeholder! </span><span class="si">%s</span><span class="s1"> Cannot be savely exported.&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="n">reps</span><span class="p">))</span>
+</span><span id="L-526"><a href="#L-526"><span class="linenos">526</span></a>            <span class="n">x</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">=</span> <span class="n">v</span>
+</span><span id="L-527"><a href="#L-527"><span class="linenos">527</span></a>        <span class="k">return</span> <span class="n">x</span>
+</span><span id="L-528"><a href="#L-528"><span class="linenos">528</span></a>
+</span><span id="L-529"><a href="#L-529"><span class="linenos">529</span></a>    <span class="k">def</span> <span class="nf">list_replace_obs</span><span class="p">(</span><span class="n">li</span><span class="p">):</span>
+</span><span id="L-530"><a href="#L-530"><span class="linenos">530</span></a>        <span class="k">nonlocal</span> <span class="n">ol</span>
+</span><span id="L-531"><a href="#L-531"><span class="linenos">531</span></a>        <span class="k">nonlocal</span> <span class="n">counter</span>
+</span><span id="L-532"><a href="#L-532"><span class="linenos">532</span></a>        <span class="n">x</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-533"><a href="#L-533"><span class="linenos">533</span></a>        <span class="k">for</span> <span class="n">e</span> <span class="ow">in</span> <span class="n">li</span><span class="p">:</span>
+</span><span id="L-534"><a href="#L-534"><span class="linenos">534</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-535"><a href="#L-535"><span class="linenos">535</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">list_replace_obs</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
+</span><span id="L-536"><a href="#L-536"><span class="linenos">536</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">list</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">([</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">e</span><span class="p">]):</span>
+</span><span id="L-537"><a href="#L-537"><span class="linenos">537</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">obslist_replace_obs</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
+</span><span id="L-538"><a href="#L-538"><span class="linenos">538</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
+</span><span id="L-539"><a href="#L-539"><span class="linenos">539</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">dict_replace_obs</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
+</span><span id="L-540"><a href="#L-540"><span class="linenos">540</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="n">obstypes</span><span class="p">):</span>
+</span><span id="L-541"><a href="#L-541"><span class="linenos">541</span></a>                <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
+</span><span id="L-542"><a href="#L-542"><span class="linenos">542</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">reps</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">counter</span><span class="p">)</span>
+</span><span id="L-543"><a href="#L-543"><span class="linenos">543</span></a>                <span class="n">counter</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-544"><a href="#L-544"><span class="linenos">544</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="L-545"><a href="#L-545"><span class="linenos">545</span></a>                <span class="k">if</span> <span class="nb">bool</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">match</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;</span><span class="si">%s</span><span class="s1">[0-9]+&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">reps</span><span class="p">),</span> <span class="n">e</span><span class="p">)):</span>
+</span><span id="L-546"><a href="#L-546"><span class="linenos">546</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Dict contains string </span><span class="si">%s</span><span class="s1"> that matches the placeholder! </span><span class="si">%s</span><span class="s1"> Cannot be savely exported.&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="n">reps</span><span class="p">))</span>
+</span><span id="L-547"><a href="#L-547"><span class="linenos">547</span></a>            <span class="n">x</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
+</span><span id="L-548"><a href="#L-548"><span class="linenos">548</span></a>        <span class="k">return</span> <span class="n">x</span>
+</span><span id="L-549"><a href="#L-549"><span class="linenos">549</span></a>
+</span><span id="L-550"><a href="#L-550"><span class="linenos">550</span></a>    <span class="k">def</span> <span class="nf">obslist_replace_obs</span><span class="p">(</span><span class="n">li</span><span class="p">):</span>
+</span><span id="L-551"><a href="#L-551"><span class="linenos">551</span></a>        <span class="k">nonlocal</span> <span class="n">ol</span>
+</span><span id="L-552"><a href="#L-552"><span class="linenos">552</span></a>        <span class="k">nonlocal</span> <span class="n">counter</span>
+</span><span id="L-553"><a href="#L-553"><span class="linenos">553</span></a>        <span class="n">il</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-554"><a href="#L-554"><span class="linenos">554</span></a>        <span class="k">for</span> <span class="n">e</span> <span class="ow">in</span> <span class="n">li</span><span class="p">:</span>
+</span><span id="L-555"><a href="#L-555"><span class="linenos">555</span></a>            <span class="n">il</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
+</span><span id="L-556"><a href="#L-556"><span class="linenos">556</span></a>
+</span><span id="L-557"><a href="#L-557"><span class="linenos">557</span></a>        <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">il</span><span class="p">)</span>
+</span><span id="L-558"><a href="#L-558"><span class="linenos">558</span></a>        <span class="n">x</span> <span class="o">=</span> <span class="n">reps</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">counter</span><span class="p">)</span>
+</span><span id="L-559"><a href="#L-559"><span class="linenos">559</span></a>        <span class="n">counter</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-560"><a href="#L-560"><span class="linenos">560</span></a>        <span class="k">return</span> <span class="n">x</span>
+</span><span id="L-561"><a href="#L-561"><span class="linenos">561</span></a>
+</span><span id="L-562"><a href="#L-562"><span class="linenos">562</span></a>    <span class="n">nd</span> <span class="o">=</span> <span class="n">dict_replace_obs</span><span class="p">(</span><span class="n">ind</span><span class="p">)</span>
+</span><span id="L-563"><a href="#L-563"><span class="linenos">563</span></a>
+</span><span id="L-564"><a href="#L-564"><span class="linenos">564</span></a>    <span class="k">return</span> <span class="n">ol</span><span class="p">,</span> <span class="n">nd</span>
 </span><span id="L-565"><a href="#L-565"><span class="linenos">565</span></a>
-</span><span id="L-566"><a href="#L-566"><span class="linenos">566</span></a><span class="k">def</span> <span class="nf">dump_dict_to_json</span><span class="p">(</span><span class="n">od</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="L-567"><a href="#L-567"><span class="linenos">567</span></a>    <span class="sd">&quot;&quot;&quot;Export a dict of Obs or structures containing Obs to a .json(.gz) file</span>
-</span><span id="L-568"><a href="#L-568"><span class="linenos">568</span></a>
-</span><span id="L-569"><a href="#L-569"><span class="linenos">569</span></a><span class="sd">    Parameters</span>
-</span><span id="L-570"><a href="#L-570"><span class="linenos">570</span></a><span class="sd">    ----------</span>
-</span><span id="L-571"><a href="#L-571"><span class="linenos">571</span></a><span class="sd">    od : dict</span>
-</span><span id="L-572"><a href="#L-572"><span class="linenos">572</span></a><span class="sd">        Dict of JSON valid structures and objects that will be exported.</span>
-</span><span id="L-573"><a href="#L-573"><span class="linenos">573</span></a><span class="sd">        At the moment, these objects can be either of: Obs, list, numpy.ndarray, Corr.</span>
-</span><span id="L-574"><a href="#L-574"><span class="linenos">574</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
-</span><span id="L-575"><a href="#L-575"><span class="linenos">575</span></a><span class="sd">    fname : str</span>
-</span><span id="L-576"><a href="#L-576"><span class="linenos">576</span></a><span class="sd">        Filename of the output file.</span>
-</span><span id="L-577"><a href="#L-577"><span class="linenos">577</span></a><span class="sd">    description : str</span>
-</span><span id="L-578"><a href="#L-578"><span class="linenos">578</span></a><span class="sd">        Optional string that describes the contents of the json file.</span>
-</span><span id="L-579"><a href="#L-579"><span class="linenos">579</span></a><span class="sd">    indent : int</span>
-</span><span id="L-580"><a href="#L-580"><span class="linenos">580</span></a><span class="sd">        Specify the indentation level of the json file. None or 0 is permissible and</span>
-</span><span id="L-581"><a href="#L-581"><span class="linenos">581</span></a><span class="sd">        saves disk space.</span>
-</span><span id="L-582"><a href="#L-582"><span class="linenos">582</span></a><span class="sd">    reps : str</span>
-</span><span id="L-583"><a href="#L-583"><span class="linenos">583</span></a><span class="sd">        Specify the structure of the placeholder in exported dict to be reps[0-9]+.</span>
-</span><span id="L-584"><a href="#L-584"><span class="linenos">584</span></a><span class="sd">    gz : bool</span>
-</span><span id="L-585"><a href="#L-585"><span class="linenos">585</span></a><span class="sd">        If True, the output is a gzipped json. If False, the output is a json file.</span>
-</span><span id="L-586"><a href="#L-586"><span class="linenos">586</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-587"><a href="#L-587"><span class="linenos">587</span></a>
-</span><span id="L-588"><a href="#L-588"><span class="linenos">588</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">od</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
-</span><span id="L-589"><a href="#L-589"><span class="linenos">589</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;od has to be a dictionary. Did you want to use dump_to_json?&#39;</span><span class="p">)</span>
-</span><span id="L-590"><a href="#L-590"><span class="linenos">590</span></a>
-</span><span id="L-591"><a href="#L-591"><span class="linenos">591</span></a>    <span class="n">infostring</span> <span class="o">=</span> <span class="p">(</span><span class="s1">&#39;This JSON file contains a python dictionary that has been parsed to a list of structures. &#39;</span>
-</span><span id="L-592"><a href="#L-592"><span class="linenos">592</span></a>                  <span class="s1">&#39;OBSDICT contains the dictionary, where Obs or other structures have been replaced by &#39;</span>
-</span><span id="L-593"><a href="#L-593"><span class="linenos">593</span></a>                  <span class="s1">&#39;&#39;</span> <span class="o">+</span> <span class="n">reps</span> <span class="o">+</span> <span class="s1">&#39;[0-9]+. The field description contains the additional description of this JSON file. &#39;</span>
-</span><span id="L-594"><a href="#L-594"><span class="linenos">594</span></a>                  <span class="s1">&#39;This file may be parsed to a dict with the pyerrors routine load_json_dict.&#39;</span><span class="p">)</span>
-</span><span id="L-595"><a href="#L-595"><span class="linenos">595</span></a>
-</span><span id="L-596"><a href="#L-596"><span class="linenos">596</span></a>    <span class="n">desc_dict</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;INFO&#39;</span><span class="p">:</span> <span class="n">infostring</span><span class="p">,</span> <span class="s1">&#39;OBSDICT&#39;</span><span class="p">:</span> <span class="p">{},</span> <span class="s1">&#39;description&#39;</span><span class="p">:</span> <span class="n">description</span><span class="p">}</span>
-</span><span id="L-597"><a href="#L-597"><span class="linenos">597</span></a>    <span class="n">ol</span><span class="p">,</span> <span class="n">desc_dict</span><span class="p">[</span><span class="s1">&#39;OBSDICT&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">_ol_from_dict</span><span class="p">(</span><span class="n">od</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="n">reps</span><span class="p">)</span>
-</span><span id="L-598"><a href="#L-598"><span class="linenos">598</span></a>
-</span><span id="L-599"><a href="#L-599"><span class="linenos">599</span></a>    <span class="n">dump_to_json</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="n">desc_dict</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="n">indent</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="n">gz</span><span class="p">)</span>
-</span><span id="L-600"><a href="#L-600"><span class="linenos">600</span></a>
+</span><span id="L-566"><a href="#L-566"><span class="linenos">566</span></a>
+</span><span id="L-567"><a href="#L-567"><span class="linenos">567</span></a><span class="k">def</span> <span class="nf">dump_dict_to_json</span><span class="p">(</span><span class="n">od</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="L-568"><a href="#L-568"><span class="linenos">568</span></a>    <span class="sd">&quot;&quot;&quot;Export a dict of Obs or structures containing Obs to a .json(.gz) file</span>
+</span><span id="L-569"><a href="#L-569"><span class="linenos">569</span></a>
+</span><span id="L-570"><a href="#L-570"><span class="linenos">570</span></a><span class="sd">    Parameters</span>
+</span><span id="L-571"><a href="#L-571"><span class="linenos">571</span></a><span class="sd">    ----------</span>
+</span><span id="L-572"><a href="#L-572"><span class="linenos">572</span></a><span class="sd">    od : dict</span>
+</span><span id="L-573"><a href="#L-573"><span class="linenos">573</span></a><span class="sd">        Dict of JSON valid structures and objects that will be exported.</span>
+</span><span id="L-574"><a href="#L-574"><span class="linenos">574</span></a><span class="sd">        At the moment, these objects can be either of: Obs, list, numpy.ndarray, Corr.</span>
+</span><span id="L-575"><a href="#L-575"><span class="linenos">575</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
+</span><span id="L-576"><a href="#L-576"><span class="linenos">576</span></a><span class="sd">    fname : str</span>
+</span><span id="L-577"><a href="#L-577"><span class="linenos">577</span></a><span class="sd">        Filename of the output file.</span>
+</span><span id="L-578"><a href="#L-578"><span class="linenos">578</span></a><span class="sd">    description : str</span>
+</span><span id="L-579"><a href="#L-579"><span class="linenos">579</span></a><span class="sd">        Optional string that describes the contents of the json file.</span>
+</span><span id="L-580"><a href="#L-580"><span class="linenos">580</span></a><span class="sd">    indent : int</span>
+</span><span id="L-581"><a href="#L-581"><span class="linenos">581</span></a><span class="sd">        Specify the indentation level of the json file. None or 0 is permissible and</span>
+</span><span id="L-582"><a href="#L-582"><span class="linenos">582</span></a><span class="sd">        saves disk space.</span>
+</span><span id="L-583"><a href="#L-583"><span class="linenos">583</span></a><span class="sd">    reps : str</span>
+</span><span id="L-584"><a href="#L-584"><span class="linenos">584</span></a><span class="sd">        Specify the structure of the placeholder in exported dict to be reps[0-9]+.</span>
+</span><span id="L-585"><a href="#L-585"><span class="linenos">585</span></a><span class="sd">    gz : bool</span>
+</span><span id="L-586"><a href="#L-586"><span class="linenos">586</span></a><span class="sd">        If True, the output is a gzipped json. If False, the output is a json file.</span>
+</span><span id="L-587"><a href="#L-587"><span class="linenos">587</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-588"><a href="#L-588"><span class="linenos">588</span></a>
+</span><span id="L-589"><a href="#L-589"><span class="linenos">589</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">od</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
+</span><span id="L-590"><a href="#L-590"><span class="linenos">590</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;od has to be a dictionary. Did you want to use dump_to_json?&#39;</span><span class="p">)</span>
+</span><span id="L-591"><a href="#L-591"><span class="linenos">591</span></a>
+</span><span id="L-592"><a href="#L-592"><span class="linenos">592</span></a>    <span class="n">infostring</span> <span class="o">=</span> <span class="p">(</span><span class="s1">&#39;This JSON file contains a python dictionary that has been parsed to a list of structures. &#39;</span>
+</span><span id="L-593"><a href="#L-593"><span class="linenos">593</span></a>                  <span class="s1">&#39;OBSDICT contains the dictionary, where Obs or other structures have been replaced by &#39;</span>
+</span><span id="L-594"><a href="#L-594"><span class="linenos">594</span></a>                  <span class="s1">&#39;&#39;</span> <span class="o">+</span> <span class="n">reps</span> <span class="o">+</span> <span class="s1">&#39;[0-9]+. The field description contains the additional description of this JSON file. &#39;</span>
+</span><span id="L-595"><a href="#L-595"><span class="linenos">595</span></a>                  <span class="s1">&#39;This file may be parsed to a dict with the pyerrors routine load_json_dict.&#39;</span><span class="p">)</span>
+</span><span id="L-596"><a href="#L-596"><span class="linenos">596</span></a>
+</span><span id="L-597"><a href="#L-597"><span class="linenos">597</span></a>    <span class="n">desc_dict</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;INFO&#39;</span><span class="p">:</span> <span class="n">infostring</span><span class="p">,</span> <span class="s1">&#39;OBSDICT&#39;</span><span class="p">:</span> <span class="p">{},</span> <span class="s1">&#39;description&#39;</span><span class="p">:</span> <span class="n">description</span><span class="p">}</span>
+</span><span id="L-598"><a href="#L-598"><span class="linenos">598</span></a>    <span class="n">ol</span><span class="p">,</span> <span class="n">desc_dict</span><span class="p">[</span><span class="s1">&#39;OBSDICT&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">_ol_from_dict</span><span class="p">(</span><span class="n">od</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="n">reps</span><span class="p">)</span>
+</span><span id="L-599"><a href="#L-599"><span class="linenos">599</span></a>
+</span><span id="L-600"><a href="#L-600"><span class="linenos">600</span></a>    <span class="n">dump_to_json</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="n">desc_dict</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="n">indent</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="n">gz</span><span class="p">)</span>
 </span><span id="L-601"><a href="#L-601"><span class="linenos">601</span></a>
-</span><span id="L-602"><a href="#L-602"><span class="linenos">602</span></a><span class="k">def</span> <span class="nf">_od_from_list_and_dict</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">ind</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span><span class="p">):</span>
-</span><span id="L-603"><a href="#L-603"><span class="linenos">603</span></a>    <span class="sd">&quot;&quot;&quot;Parse a list of Obs or structures containing Obs and an accompanying</span>
-</span><span id="L-604"><a href="#L-604"><span class="linenos">604</span></a><span class="sd">    dict, where the structures have been replaced by placeholders to a</span>
-</span><span id="L-605"><a href="#L-605"><span class="linenos">605</span></a><span class="sd">    dict that contains the structures.</span>
-</span><span id="L-606"><a href="#L-606"><span class="linenos">606</span></a>
-</span><span id="L-607"><a href="#L-607"><span class="linenos">607</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
-</span><span id="L-608"><a href="#L-608"><span class="linenos">608</span></a>
-</span><span id="L-609"><a href="#L-609"><span class="linenos">609</span></a><span class="sd">    Parameters</span>
-</span><span id="L-610"><a href="#L-610"><span class="linenos">610</span></a><span class="sd">    ----------</span>
-</span><span id="L-611"><a href="#L-611"><span class="linenos">611</span></a><span class="sd">    ol : list</span>
-</span><span id="L-612"><a href="#L-612"><span class="linenos">612</span></a><span class="sd">        List of objects -</span>
-</span><span id="L-613"><a href="#L-613"><span class="linenos">613</span></a><span class="sd">        At the moment, these objects can be either of: Obs, list, numpy.ndarray, Corr.</span>
-</span><span id="L-614"><a href="#L-614"><span class="linenos">614</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
-</span><span id="L-615"><a href="#L-615"><span class="linenos">615</span></a><span class="sd">    ind : dict</span>
-</span><span id="L-616"><a href="#L-616"><span class="linenos">616</span></a><span class="sd">        Dict that defines the structure of the resulting dict and contains placeholders</span>
-</span><span id="L-617"><a href="#L-617"><span class="linenos">617</span></a><span class="sd">    reps : str</span>
-</span><span id="L-618"><a href="#L-618"><span class="linenos">618</span></a><span class="sd">        Specify the structure of the placeholder in imported dict to be reps[0-9]+.</span>
-</span><span id="L-619"><a href="#L-619"><span class="linenos">619</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-620"><a href="#L-620"><span class="linenos">620</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">reps</span><span class="o">.</span><span class="n">isalnum</span><span class="p">():</span>
-</span><span id="L-621"><a href="#L-621"><span class="linenos">621</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Placeholder string has to be alphanumeric!&#39;</span><span class="p">)</span>
-</span><span id="L-622"><a href="#L-622"><span class="linenos">622</span></a>
-</span><span id="L-623"><a href="#L-623"><span class="linenos">623</span></a>    <span class="n">counter</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-624"><a href="#L-624"><span class="linenos">624</span></a>
-</span><span id="L-625"><a href="#L-625"><span class="linenos">625</span></a>    <span class="k">def</span> <span class="nf">dict_replace_string</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
-</span><span id="L-626"><a href="#L-626"><span class="linenos">626</span></a>        <span class="k">nonlocal</span> <span class="n">counter</span>
-</span><span id="L-627"><a href="#L-627"><span class="linenos">627</span></a>        <span class="k">nonlocal</span> <span class="n">ol</span>
-</span><span id="L-628"><a href="#L-628"><span class="linenos">628</span></a>        <span class="n">x</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-629"><a href="#L-629"><span class="linenos">629</span></a>        <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">d</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
-</span><span id="L-630"><a href="#L-630"><span class="linenos">630</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
-</span><span id="L-631"><a href="#L-631"><span class="linenos">631</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">dict_replace_string</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
-</span><span id="L-632"><a href="#L-632"><span class="linenos">632</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-633"><a href="#L-633"><span class="linenos">633</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">list_replace_string</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
-</span><span id="L-634"><a href="#L-634"><span class="linenos">634</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">str</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">bool</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">match</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;</span><span class="si">%s</span><span class="s1">[0-9]+&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">reps</span><span class="p">),</span> <span class="n">v</span><span class="p">)):</span>
-</span><span id="L-635"><a href="#L-635"><span class="linenos">635</span></a>                <span class="n">index</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">v</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">reps</span><span class="p">):])</span>
-</span><span id="L-636"><a href="#L-636"><span class="linenos">636</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="n">index</span><span class="p">]</span>
-</span><span id="L-637"><a href="#L-637"><span class="linenos">637</span></a>                <span class="n">counter</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-638"><a href="#L-638"><span class="linenos">638</span></a>            <span class="n">x</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">=</span> <span class="n">v</span>
-</span><span id="L-639"><a href="#L-639"><span class="linenos">639</span></a>        <span class="k">return</span> <span class="n">x</span>
-</span><span id="L-640"><a href="#L-640"><span class="linenos">640</span></a>
-</span><span id="L-641"><a href="#L-641"><span class="linenos">641</span></a>    <span class="k">def</span> <span class="nf">list_replace_string</span><span class="p">(</span><span class="n">li</span><span class="p">):</span>
-</span><span id="L-642"><a href="#L-642"><span class="linenos">642</span></a>        <span class="k">nonlocal</span> <span class="n">counter</span>
-</span><span id="L-643"><a href="#L-643"><span class="linenos">643</span></a>        <span class="k">nonlocal</span> <span class="n">ol</span>
-</span><span id="L-644"><a href="#L-644"><span class="linenos">644</span></a>        <span class="n">x</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-645"><a href="#L-645"><span class="linenos">645</span></a>        <span class="k">for</span> <span class="n">e</span> <span class="ow">in</span> <span class="n">li</span><span class="p">:</span>
-</span><span id="L-646"><a href="#L-646"><span class="linenos">646</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="L-647"><a href="#L-647"><span class="linenos">647</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">list_replace_string</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
-</span><span id="L-648"><a href="#L-648"><span class="linenos">648</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
-</span><span id="L-649"><a href="#L-649"><span class="linenos">649</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">dict_replace_string</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
-</span><span id="L-650"><a href="#L-650"><span class="linenos">650</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">str</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">bool</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">match</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;</span><span class="si">%s</span><span class="s1">[0-9]+&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">reps</span><span class="p">),</span> <span class="n">e</span><span class="p">)):</span>
-</span><span id="L-651"><a href="#L-651"><span class="linenos">651</span></a>                <span class="n">index</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">e</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">reps</span><span class="p">):])</span>
-</span><span id="L-652"><a href="#L-652"><span class="linenos">652</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="n">index</span><span class="p">]</span>
-</span><span id="L-653"><a href="#L-653"><span class="linenos">653</span></a>                <span class="n">counter</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-654"><a href="#L-654"><span class="linenos">654</span></a>            <span class="n">x</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
-</span><span id="L-655"><a href="#L-655"><span class="linenos">655</span></a>        <span class="k">return</span> <span class="n">x</span>
-</span><span id="L-656"><a href="#L-656"><span class="linenos">656</span></a>
-</span><span id="L-657"><a href="#L-657"><span class="linenos">657</span></a>    <span class="n">nd</span> <span class="o">=</span> <span class="n">dict_replace_string</span><span class="p">(</span><span class="n">ind</span><span class="p">)</span>
-</span><span id="L-658"><a href="#L-658"><span class="linenos">658</span></a>
-</span><span id="L-659"><a href="#L-659"><span class="linenos">659</span></a>    <span class="k">if</span> <span class="n">counter</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-660"><a href="#L-660"><span class="linenos">660</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No placeholder has been replaced! Check if reps is set correctly.&#39;</span><span class="p">)</span>
-</span><span id="L-661"><a href="#L-661"><span class="linenos">661</span></a>
-</span><span id="L-662"><a href="#L-662"><span class="linenos">662</span></a>    <span class="k">return</span> <span class="n">nd</span>
-</span><span id="L-663"><a href="#L-663"><span class="linenos">663</span></a>
+</span><span id="L-602"><a href="#L-602"><span class="linenos">602</span></a>
+</span><span id="L-603"><a href="#L-603"><span class="linenos">603</span></a><span class="k">def</span> <span class="nf">_od_from_list_and_dict</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">ind</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span><span class="p">):</span>
+</span><span id="L-604"><a href="#L-604"><span class="linenos">604</span></a>    <span class="sd">&quot;&quot;&quot;Parse a list of Obs or structures containing Obs and an accompanying</span>
+</span><span id="L-605"><a href="#L-605"><span class="linenos">605</span></a><span class="sd">    dict, where the structures have been replaced by placeholders to a</span>
+</span><span id="L-606"><a href="#L-606"><span class="linenos">606</span></a><span class="sd">    dict that contains the structures.</span>
+</span><span id="L-607"><a href="#L-607"><span class="linenos">607</span></a>
+</span><span id="L-608"><a href="#L-608"><span class="linenos">608</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
+</span><span id="L-609"><a href="#L-609"><span class="linenos">609</span></a>
+</span><span id="L-610"><a href="#L-610"><span class="linenos">610</span></a><span class="sd">    Parameters</span>
+</span><span id="L-611"><a href="#L-611"><span class="linenos">611</span></a><span class="sd">    ----------</span>
+</span><span id="L-612"><a href="#L-612"><span class="linenos">612</span></a><span class="sd">    ol : list</span>
+</span><span id="L-613"><a href="#L-613"><span class="linenos">613</span></a><span class="sd">        List of objects -</span>
+</span><span id="L-614"><a href="#L-614"><span class="linenos">614</span></a><span class="sd">        At the moment, these objects can be either of: Obs, list, numpy.ndarray, Corr.</span>
+</span><span id="L-615"><a href="#L-615"><span class="linenos">615</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
+</span><span id="L-616"><a href="#L-616"><span class="linenos">616</span></a><span class="sd">    ind : dict</span>
+</span><span id="L-617"><a href="#L-617"><span class="linenos">617</span></a><span class="sd">        Dict that defines the structure of the resulting dict and contains placeholders</span>
+</span><span id="L-618"><a href="#L-618"><span class="linenos">618</span></a><span class="sd">    reps : str</span>
+</span><span id="L-619"><a href="#L-619"><span class="linenos">619</span></a><span class="sd">        Specify the structure of the placeholder in imported dict to be reps[0-9]+.</span>
+</span><span id="L-620"><a href="#L-620"><span class="linenos">620</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-621"><a href="#L-621"><span class="linenos">621</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">reps</span><span class="o">.</span><span class="n">isalnum</span><span class="p">():</span>
+</span><span id="L-622"><a href="#L-622"><span class="linenos">622</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Placeholder string has to be alphanumeric!&#39;</span><span class="p">)</span>
+</span><span id="L-623"><a href="#L-623"><span class="linenos">623</span></a>
+</span><span id="L-624"><a href="#L-624"><span class="linenos">624</span></a>    <span class="n">counter</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-625"><a href="#L-625"><span class="linenos">625</span></a>
+</span><span id="L-626"><a href="#L-626"><span class="linenos">626</span></a>    <span class="k">def</span> <span class="nf">dict_replace_string</span><span class="p">(</span><span class="n">d</span><span class="p">):</span>
+</span><span id="L-627"><a href="#L-627"><span class="linenos">627</span></a>        <span class="k">nonlocal</span> <span class="n">counter</span>
+</span><span id="L-628"><a href="#L-628"><span class="linenos">628</span></a>        <span class="k">nonlocal</span> <span class="n">ol</span>
+</span><span id="L-629"><a href="#L-629"><span class="linenos">629</span></a>        <span class="n">x</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-630"><a href="#L-630"><span class="linenos">630</span></a>        <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">d</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+</span><span id="L-631"><a href="#L-631"><span class="linenos">631</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
+</span><span id="L-632"><a href="#L-632"><span class="linenos">632</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">dict_replace_string</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
+</span><span id="L-633"><a href="#L-633"><span class="linenos">633</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-634"><a href="#L-634"><span class="linenos">634</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">list_replace_string</span><span class="p">(</span><span class="n">v</span><span class="p">)</span>
+</span><span id="L-635"><a href="#L-635"><span class="linenos">635</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="nb">str</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">bool</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">match</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;</span><span class="si">%s</span><span class="s1">[0-9]+&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">reps</span><span class="p">),</span> <span class="n">v</span><span class="p">)):</span>
+</span><span id="L-636"><a href="#L-636"><span class="linenos">636</span></a>                <span class="n">index</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">v</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">reps</span><span class="p">):])</span>
+</span><span id="L-637"><a href="#L-637"><span class="linenos">637</span></a>                <span class="n">v</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="n">index</span><span class="p">]</span>
+</span><span id="L-638"><a href="#L-638"><span class="linenos">638</span></a>                <span class="n">counter</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-639"><a href="#L-639"><span class="linenos">639</span></a>            <span class="n">x</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">=</span> <span class="n">v</span>
+</span><span id="L-640"><a href="#L-640"><span class="linenos">640</span></a>        <span class="k">return</span> <span class="n">x</span>
+</span><span id="L-641"><a href="#L-641"><span class="linenos">641</span></a>
+</span><span id="L-642"><a href="#L-642"><span class="linenos">642</span></a>    <span class="k">def</span> <span class="nf">list_replace_string</span><span class="p">(</span><span class="n">li</span><span class="p">):</span>
+</span><span id="L-643"><a href="#L-643"><span class="linenos">643</span></a>        <span class="k">nonlocal</span> <span class="n">counter</span>
+</span><span id="L-644"><a href="#L-644"><span class="linenos">644</span></a>        <span class="k">nonlocal</span> <span class="n">ol</span>
+</span><span id="L-645"><a href="#L-645"><span class="linenos">645</span></a>        <span class="n">x</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-646"><a href="#L-646"><span class="linenos">646</span></a>        <span class="k">for</span> <span class="n">e</span> <span class="ow">in</span> <span class="n">li</span><span class="p">:</span>
+</span><span id="L-647"><a href="#L-647"><span class="linenos">647</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="L-648"><a href="#L-648"><span class="linenos">648</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">list_replace_string</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
+</span><span id="L-649"><a href="#L-649"><span class="linenos">649</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
+</span><span id="L-650"><a href="#L-650"><span class="linenos">650</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">dict_replace_string</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
+</span><span id="L-651"><a href="#L-651"><span class="linenos">651</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">e</span><span class="p">,</span> <span class="nb">str</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">bool</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">match</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;</span><span class="si">%s</span><span class="s1">[0-9]+&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">reps</span><span class="p">),</span> <span class="n">e</span><span class="p">)):</span>
+</span><span id="L-652"><a href="#L-652"><span class="linenos">652</span></a>                <span class="n">index</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">e</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">reps</span><span class="p">):])</span>
+</span><span id="L-653"><a href="#L-653"><span class="linenos">653</span></a>                <span class="n">e</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="n">index</span><span class="p">]</span>
+</span><span id="L-654"><a href="#L-654"><span class="linenos">654</span></a>                <span class="n">counter</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-655"><a href="#L-655"><span class="linenos">655</span></a>            <span class="n">x</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">e</span><span class="p">)</span>
+</span><span id="L-656"><a href="#L-656"><span class="linenos">656</span></a>        <span class="k">return</span> <span class="n">x</span>
+</span><span id="L-657"><a href="#L-657"><span class="linenos">657</span></a>
+</span><span id="L-658"><a href="#L-658"><span class="linenos">658</span></a>    <span class="n">nd</span> <span class="o">=</span> <span class="n">dict_replace_string</span><span class="p">(</span><span class="n">ind</span><span class="p">)</span>
+</span><span id="L-659"><a href="#L-659"><span class="linenos">659</span></a>
+</span><span id="L-660"><a href="#L-660"><span class="linenos">660</span></a>    <span class="k">if</span> <span class="n">counter</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-661"><a href="#L-661"><span class="linenos">661</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;No placeholder has been replaced! Check if reps is set correctly.&#39;</span><span class="p">)</span>
+</span><span id="L-662"><a href="#L-662"><span class="linenos">662</span></a>
+</span><span id="L-663"><a href="#L-663"><span class="linenos">663</span></a>    <span class="k">return</span> <span class="n">nd</span>
 </span><span id="L-664"><a href="#L-664"><span class="linenos">664</span></a>
-</span><span id="L-665"><a href="#L-665"><span class="linenos">665</span></a><span class="k">def</span> <span class="nf">load_json_dict</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span><span class="p">):</span>
-</span><span id="L-666"><a href="#L-666"><span class="linenos">666</span></a>    <span class="sd">&quot;&quot;&quot;Import a dict of Obs or structures containing Obs from a .json(.gz) file.</span>
-</span><span id="L-667"><a href="#L-667"><span class="linenos">667</span></a>
-</span><span id="L-668"><a href="#L-668"><span class="linenos">668</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
-</span><span id="L-669"><a href="#L-669"><span class="linenos">669</span></a>
-</span><span id="L-670"><a href="#L-670"><span class="linenos">670</span></a><span class="sd">    Parameters</span>
-</span><span id="L-671"><a href="#L-671"><span class="linenos">671</span></a><span class="sd">    ----------</span>
-</span><span id="L-672"><a href="#L-672"><span class="linenos">672</span></a><span class="sd">    fname : str</span>
-</span><span id="L-673"><a href="#L-673"><span class="linenos">673</span></a><span class="sd">        Filename of the input file.</span>
-</span><span id="L-674"><a href="#L-674"><span class="linenos">674</span></a><span class="sd">    verbose : bool</span>
-</span><span id="L-675"><a href="#L-675"><span class="linenos">675</span></a><span class="sd">        Print additional information that was written to the file.</span>
-</span><span id="L-676"><a href="#L-676"><span class="linenos">676</span></a><span class="sd">    gz : bool</span>
-</span><span id="L-677"><a href="#L-677"><span class="linenos">677</span></a><span class="sd">        If True, assumes that data is gzipped. If False, assumes JSON file.</span>
-</span><span id="L-678"><a href="#L-678"><span class="linenos">678</span></a><span class="sd">    full_output : bool</span>
-</span><span id="L-679"><a href="#L-679"><span class="linenos">679</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="L-680"><a href="#L-680"><span class="linenos">680</span></a><span class="sd">        If False, only the data is returned.</span>
-</span><span id="L-681"><a href="#L-681"><span class="linenos">681</span></a><span class="sd">    reps : str</span>
-</span><span id="L-682"><a href="#L-682"><span class="linenos">682</span></a><span class="sd">        Specify the structure of the placeholder in imported dict to be reps[0-9]+.</span>
-</span><span id="L-683"><a href="#L-683"><span class="linenos">683</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-684"><a href="#L-684"><span class="linenos">684</span></a>    <span class="n">indata</span> <span class="o">=</span> <span class="n">load_json</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="n">verbose</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="n">gz</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="L-685"><a href="#L-685"><span class="linenos">685</span></a>    <span class="n">description</span> <span class="o">=</span> <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">][</span><span class="s1">&#39;description&#39;</span><span class="p">]</span>
-</span><span id="L-686"><a href="#L-686"><span class="linenos">686</span></a>    <span class="n">indict</span> <span class="o">=</span> <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">][</span><span class="s1">&#39;OBSDICT&#39;</span><span class="p">]</span>
-</span><span id="L-687"><a href="#L-687"><span class="linenos">687</span></a>    <span class="n">ol</span> <span class="o">=</span> <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span>
-</span><span id="L-688"><a href="#L-688"><span class="linenos">688</span></a>    <span class="n">od</span> <span class="o">=</span> <span class="n">_od_from_list_and_dict</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">indict</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="n">reps</span><span class="p">)</span>
-</span><span id="L-689"><a href="#L-689"><span class="linenos">689</span></a>
-</span><span id="L-690"><a href="#L-690"><span class="linenos">690</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
-</span><span id="L-691"><a href="#L-691"><span class="linenos">691</span></a>        <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">description</span>
-</span><span id="L-692"><a href="#L-692"><span class="linenos">692</span></a>        <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">od</span>
-</span><span id="L-693"><a href="#L-693"><span class="linenos">693</span></a>        <span class="k">return</span> <span class="n">indata</span>
-</span><span id="L-694"><a href="#L-694"><span class="linenos">694</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-695"><a href="#L-695"><span class="linenos">695</span></a>        <span class="k">return</span> <span class="n">od</span>
+</span><span id="L-665"><a href="#L-665"><span class="linenos">665</span></a>
+</span><span id="L-666"><a href="#L-666"><span class="linenos">666</span></a><span class="k">def</span> <span class="nf">load_json_dict</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span><span class="p">):</span>
+</span><span id="L-667"><a href="#L-667"><span class="linenos">667</span></a>    <span class="sd">&quot;&quot;&quot;Import a dict of Obs or structures containing Obs from a .json(.gz) file.</span>
+</span><span id="L-668"><a href="#L-668"><span class="linenos">668</span></a>
+</span><span id="L-669"><a href="#L-669"><span class="linenos">669</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
+</span><span id="L-670"><a href="#L-670"><span class="linenos">670</span></a>
+</span><span id="L-671"><a href="#L-671"><span class="linenos">671</span></a><span class="sd">    Parameters</span>
+</span><span id="L-672"><a href="#L-672"><span class="linenos">672</span></a><span class="sd">    ----------</span>
+</span><span id="L-673"><a href="#L-673"><span class="linenos">673</span></a><span class="sd">    fname : str</span>
+</span><span id="L-674"><a href="#L-674"><span class="linenos">674</span></a><span class="sd">        Filename of the input file.</span>
+</span><span id="L-675"><a href="#L-675"><span class="linenos">675</span></a><span class="sd">    verbose : bool</span>
+</span><span id="L-676"><a href="#L-676"><span class="linenos">676</span></a><span class="sd">        Print additional information that was written to the file.</span>
+</span><span id="L-677"><a href="#L-677"><span class="linenos">677</span></a><span class="sd">    gz : bool</span>
+</span><span id="L-678"><a href="#L-678"><span class="linenos">678</span></a><span class="sd">        If True, assumes that data is gzipped. If False, assumes JSON file.</span>
+</span><span id="L-679"><a href="#L-679"><span class="linenos">679</span></a><span class="sd">    full_output : bool</span>
+</span><span id="L-680"><a href="#L-680"><span class="linenos">680</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="L-681"><a href="#L-681"><span class="linenos">681</span></a><span class="sd">        If False, only the data is returned.</span>
+</span><span id="L-682"><a href="#L-682"><span class="linenos">682</span></a><span class="sd">    reps : str</span>
+</span><span id="L-683"><a href="#L-683"><span class="linenos">683</span></a><span class="sd">        Specify the structure of the placeholder in imported dict to be reps[0-9]+.</span>
+</span><span id="L-684"><a href="#L-684"><span class="linenos">684</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-685"><a href="#L-685"><span class="linenos">685</span></a>    <span class="n">indata</span> <span class="o">=</span> <span class="n">load_json</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="n">verbose</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="n">gz</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="L-686"><a href="#L-686"><span class="linenos">686</span></a>    <span class="n">description</span> <span class="o">=</span> <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">][</span><span class="s1">&#39;description&#39;</span><span class="p">]</span>
+</span><span id="L-687"><a href="#L-687"><span class="linenos">687</span></a>    <span class="n">indict</span> <span class="o">=</span> <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">][</span><span class="s1">&#39;OBSDICT&#39;</span><span class="p">]</span>
+</span><span id="L-688"><a href="#L-688"><span class="linenos">688</span></a>    <span class="n">ol</span> <span class="o">=</span> <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span>
+</span><span id="L-689"><a href="#L-689"><span class="linenos">689</span></a>    <span class="n">od</span> <span class="o">=</span> <span class="n">_od_from_list_and_dict</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">indict</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="n">reps</span><span class="p">)</span>
+</span><span id="L-690"><a href="#L-690"><span class="linenos">690</span></a>
+</span><span id="L-691"><a href="#L-691"><span class="linenos">691</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
+</span><span id="L-692"><a href="#L-692"><span class="linenos">692</span></a>        <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">description</span>
+</span><span id="L-693"><a href="#L-693"><span class="linenos">693</span></a>        <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">od</span>
+</span><span id="L-694"><a href="#L-694"><span class="linenos">694</span></a>        <span class="k">return</span> <span class="n">indata</span>
+</span><span id="L-695"><a href="#L-695"><span class="linenos">695</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-696"><a href="#L-696"><span class="linenos">696</span></a>        <span class="k">return</span> <span class="n">od</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="create_json_string">
-                            <div class="attr function"><a class="headerlink" href="#create_json_string">#&nbsp;&nbsp</a>
+                            <input id="create_json_string-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">create_json_string</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">ol</span>, </span><span class="param"><span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span>, </span><span class="param"><span class="n">indent</span><span class="o">=</span><span class="mi">1</span></span>)</span>
+
+                <label class="view-source-button" for="create_json_string-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">create_json_string</span><span class="signature">(ol, description=&#39;&#39;, indent=1)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="create_json_string-17"><a href="#create_json_string-17"><span class="linenos"> 17</span></a><span class="k">def</span> <span class="nf">create_json_string</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">1</span><span class="p">):</span>
-</span><span id="create_json_string-18"><a href="#create_json_string-18"><span class="linenos"> 18</span></a>    <span class="sd">&quot;&quot;&quot;Generate the string for the export of a list of Obs or structures containing Obs</span>
-</span><span id="create_json_string-19"><a href="#create_json_string-19"><span class="linenos"> 19</span></a><span class="sd">    to a .json(.gz) file</span>
-</span><span id="create_json_string-20"><a href="#create_json_string-20"><span class="linenos"> 20</span></a>
-</span><span id="create_json_string-21"><a href="#create_json_string-21"><span class="linenos"> 21</span></a><span class="sd">    Parameters</span>
-</span><span id="create_json_string-22"><a href="#create_json_string-22"><span class="linenos"> 22</span></a><span class="sd">    ----------</span>
-</span><span id="create_json_string-23"><a href="#create_json_string-23"><span class="linenos"> 23</span></a><span class="sd">    ol : list</span>
-</span><span id="create_json_string-24"><a href="#create_json_string-24"><span class="linenos"> 24</span></a><span class="sd">        List of objects that will be exported. At the moment, these objects can be</span>
-</span><span id="create_json_string-25"><a href="#create_json_string-25"><span class="linenos"> 25</span></a><span class="sd">        either of: Obs, list, numpy.ndarray, Corr.</span>
-</span><span id="create_json_string-26"><a href="#create_json_string-26"><span class="linenos"> 26</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
-</span><span id="create_json_string-27"><a href="#create_json_string-27"><span class="linenos"> 27</span></a><span class="sd">    description : str</span>
-</span><span id="create_json_string-28"><a href="#create_json_string-28"><span class="linenos"> 28</span></a><span class="sd">        Optional string that describes the contents of the json file.</span>
-</span><span id="create_json_string-29"><a href="#create_json_string-29"><span class="linenos"> 29</span></a><span class="sd">    indent : int</span>
-</span><span id="create_json_string-30"><a href="#create_json_string-30"><span class="linenos"> 30</span></a><span class="sd">        Specify the indentation level of the json file. None or 0 is permissible and</span>
-</span><span id="create_json_string-31"><a href="#create_json_string-31"><span class="linenos"> 31</span></a><span class="sd">        saves disk space.</span>
-</span><span id="create_json_string-32"><a href="#create_json_string-32"><span class="linenos"> 32</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="create_json_string-33"><a href="#create_json_string-33"><span class="linenos"> 33</span></a>
-</span><span id="create_json_string-34"><a href="#create_json_string-34"><span class="linenos"> 34</span></a>    <span class="k">def</span> <span class="nf">_gen_data_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">):</span>
-</span><span id="create_json_string-35"><a href="#create_json_string-35"><span class="linenos"> 35</span></a>        <span class="n">dl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_json_string-36"><a href="#create_json_string-36"><span class="linenos"> 36</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
-</span><span id="create_json_string-37"><a href="#create_json_string-37"><span class="linenos"> 37</span></a>            <span class="n">ed</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_json_string-38"><a href="#create_json_string-38"><span class="linenos"> 38</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="create_json_string-39"><a href="#create_json_string-39"><span class="linenos"> 39</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;replica&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_json_string-40"><a href="#create_json_string-40"><span class="linenos"> 40</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="create_json_string-41"><a href="#create_json_string-41"><span class="linenos"> 41</span></a>                <span class="n">rd</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_json_string-42"><a href="#create_json_string-42"><span class="linenos"> 42</span></a>                <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">r_name</span>
-</span><span id="create_json_string-43"><a href="#create_json_string-43"><span class="linenos"> 43</span></a>                <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">r_name</span><span class="p">,</span> <span class="kc">False</span><span class="p">):</span>
-</span><span id="create_json_string-44"><a href="#create_json_string-44"><span class="linenos"> 44</span></a>                    <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="create_json_string-45"><a href="#create_json_string-45"><span class="linenos"> 45</span></a>                <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_json_string-46"><a href="#create_json_string-46"><span class="linenos"> 46</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">])):</span>
-</span><span id="create_json_string-47"><a href="#create_json_string-47"><span class="linenos"> 47</span></a>                    <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="n">i</span><span class="p">]])</span>
-</span><span id="create_json_string-48"><a href="#create_json_string-48"><span class="linenos"> 48</span></a>                    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">:</span>
-</span><span id="create_json_string-49"><a href="#create_json_string-49"><span class="linenos"> 49</span></a>                        <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
-</span><span id="create_json_string-50"><a href="#create_json_string-50"><span class="linenos"> 50</span></a>                <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;replica&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rd</span><span class="p">)</span>
-</span><span id="create_json_string-51"><a href="#create_json_string-51"><span class="linenos"> 51</span></a>            <span class="n">dl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ed</span><span class="p">)</span>
-</span><span id="create_json_string-52"><a href="#create_json_string-52"><span class="linenos"> 52</span></a>        <span class="k">return</span> <span class="n">dl</span>
-</span><span id="create_json_string-53"><a href="#create_json_string-53"><span class="linenos"> 53</span></a>
-</span><span id="create_json_string-54"><a href="#create_json_string-54"><span class="linenos"> 54</span></a>    <span class="k">def</span> <span class="nf">_gen_cdata_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">):</span>
-</span><span id="create_json_string-55"><a href="#create_json_string-55"><span class="linenos"> 55</span></a>        <span class="n">dl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_json_string-56"><a href="#create_json_string-56"><span class="linenos"> 56</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="create_json_string-57"><a href="#create_json_string-57"><span class="linenos"> 57</span></a>            <span class="n">ed</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_json_string-58"><a href="#create_json_string-58"><span class="linenos"> 58</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
-</span><span id="create_json_string-59"><a href="#create_json_string-59"><span class="linenos"> 59</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39;(&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;)&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="create_json_string-60"><a href="#create_json_string-60"><span class="linenos"> 60</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;cov&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ravel</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">))</span>
-</span><span id="create_json_string-61"><a href="#create_json_string-61"><span class="linenos"> 61</span></a>            <span class="n">ncov</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="create_json_string-62"><a href="#create_json_string-62"><span class="linenos"> 62</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_json_string-63"><a href="#create_json_string-63"><span class="linenos"> 63</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
-</span><span id="create_json_string-64"><a href="#create_json_string-64"><span class="linenos"> 64</span></a>                <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="create_json_string-65"><a href="#create_json_string-65"><span class="linenos"> 65</span></a>                <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">:</span>
-</span><span id="create_json_string-66"><a href="#create_json_string-66"><span class="linenos"> 66</span></a>                    <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="create_json_string-67"><a href="#create_json_string-67"><span class="linenos"> 67</span></a>            <span class="n">dl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ed</span><span class="p">)</span>
-</span><span id="create_json_string-68"><a href="#create_json_string-68"><span class="linenos"> 68</span></a>        <span class="k">return</span> <span class="n">dl</span>
-</span><span id="create_json_string-69"><a href="#create_json_string-69"><span class="linenos"> 69</span></a>
-</span><span id="create_json_string-70"><a href="#create_json_string-70"><span class="linenos"> 70</span></a>    <span class="k">def</span> <span class="nf">write_Obs_to_dict</span><span class="p">(</span><span class="n">o</span><span class="p">):</span>
-</span><span id="create_json_string-71"><a href="#create_json_string-71"><span class="linenos"> 71</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_json_string-72"><a href="#create_json_string-72"><span class="linenos"> 72</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;Obs&#39;</span>
-</span><span id="create_json_string-73"><a href="#create_json_string-73"><span class="linenos"> 73</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1&#39;</span>
-</span><span id="create_json_string-74"><a href="#create_json_string-74"><span class="linenos"> 74</span></a>        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">tag</span><span class="p">:</span>
-</span><span id="create_json_string-75"><a href="#create_json_string-75"><span class="linenos"> 75</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span>
-</span><span id="create_json_string-76"><a href="#create_json_string-76"><span class="linenos"> 76</span></a>        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
-</span><span id="create_json_string-77"><a href="#create_json_string-77"><span class="linenos"> 77</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;reweighted&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span>
-</span><span id="create_json_string-78"><a href="#create_json_string-78"><span class="linenos"> 78</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span><span class="p">]</span>
-</span><span id="create_json_string-79"><a href="#create_json_string-79"><span class="linenos"> 79</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">_gen_data_d_from_list</span><span class="p">([</span><span class="n">o</span><span class="p">])</span>
-</span><span id="create_json_string-80"><a href="#create_json_string-80"><span class="linenos"> 80</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="create_json_string-81"><a href="#create_json_string-81"><span class="linenos"> 81</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
-</span><span id="create_json_string-82"><a href="#create_json_string-82"><span class="linenos"> 82</span></a>        <span class="n">cdata</span> <span class="o">=</span> <span class="n">_gen_cdata_d_from_list</span><span class="p">([</span><span class="n">o</span><span class="p">])</span>
-</span><span id="create_json_string-83"><a href="#create_json_string-83"><span class="linenos"> 83</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">cdata</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="create_json_string-84"><a href="#create_json_string-84"><span class="linenos"> 84</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">cdata</span>
-</span><span id="create_json_string-85"><a href="#create_json_string-85"><span class="linenos"> 85</span></a>        <span class="k">return</span> <span class="n">d</span>
-</span><span id="create_json_string-86"><a href="#create_json_string-86"><span class="linenos"> 86</span></a>
-</span><span id="create_json_string-87"><a href="#create_json_string-87"><span class="linenos"> 87</span></a>    <span class="k">def</span> <span class="nf">write_List_to_dict</span><span class="p">(</span><span class="n">ol</span><span class="p">):</span>
-</span><span id="create_json_string-88"><a href="#create_json_string-88"><span class="linenos"> 88</span></a>        <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="create_json_string-89"><a href="#create_json_string-89"><span class="linenos"> 89</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_json_string-90"><a href="#create_json_string-90"><span class="linenos"> 90</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;List&#39;</span>
-</span><span id="create_json_string-91"><a href="#create_json_string-91"><span class="linenos"> 91</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="nb">len</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="create_json_string-92"><a href="#create_json_string-92"><span class="linenos"> 92</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">tag</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
-</span><span id="create_json_string-93"><a href="#create_json_string-93"><span class="linenos"> 93</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">tag</span> <span class="ow">in</span> <span class="n">taglist</span><span class="p">]):</span>
-</span><span id="create_json_string-94"><a href="#create_json_string-94"><span class="linenos"> 94</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span>
-</span><span id="create_json_string-95"><a href="#create_json_string-95"><span class="linenos"> 95</span></a>        <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
-</span><span id="create_json_string-96"><a href="#create_json_string-96"><span class="linenos"> 96</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;reweighted&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span>
-</span><span id="create_json_string-97"><a href="#create_json_string-97"><span class="linenos"> 97</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
-</span><span id="create_json_string-98"><a href="#create_json_string-98"><span class="linenos"> 98</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">_gen_data_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="create_json_string-99"><a href="#create_json_string-99"><span class="linenos"> 99</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="create_json_string-100"><a href="#create_json_string-100"><span class="linenos">100</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
-</span><span id="create_json_string-101"><a href="#create_json_string-101"><span class="linenos">101</span></a>        <span class="n">cdata</span> <span class="o">=</span> <span class="n">_gen_cdata_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="create_json_string-102"><a href="#create_json_string-102"><span class="linenos">102</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">cdata</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="create_json_string-103"><a href="#create_json_string-103"><span class="linenos">103</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">cdata</span>
-</span><span id="create_json_string-104"><a href="#create_json_string-104"><span class="linenos">104</span></a>        <span class="k">return</span> <span class="n">d</span>
-</span><span id="create_json_string-105"><a href="#create_json_string-105"><span class="linenos">105</span></a>
-</span><span id="create_json_string-106"><a href="#create_json_string-106"><span class="linenos">106</span></a>    <span class="k">def</span> <span class="nf">write_Array_to_dict</span><span class="p">(</span><span class="n">oa</span><span class="p">):</span>
-</span><span id="create_json_string-107"><a href="#create_json_string-107"><span class="linenos">107</span></a>        <span class="n">ol</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">ravel</span><span class="p">(</span><span class="n">oa</span><span class="p">)</span>
-</span><span id="create_json_string-108"><a href="#create_json_string-108"><span class="linenos">108</span></a>        <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="create_json_string-109"><a href="#create_json_string-109"><span class="linenos">109</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_json_string-110"><a href="#create_json_string-110"><span class="linenos">110</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;Array&#39;</span>
-</span><span id="create_json_string-111"><a href="#create_json_string-111"><span class="linenos">111</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">oa</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39;(&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;)&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="create_json_string-112"><a href="#create_json_string-112"><span class="linenos">112</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">tag</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
-</span><span id="create_json_string-113"><a href="#create_json_string-113"><span class="linenos">113</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">tag</span> <span class="ow">in</span> <span class="n">taglist</span><span class="p">]):</span>
-</span><span id="create_json_string-114"><a href="#create_json_string-114"><span class="linenos">114</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span>
-</span><span id="create_json_string-115"><a href="#create_json_string-115"><span class="linenos">115</span></a>        <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
-</span><span id="create_json_string-116"><a href="#create_json_string-116"><span class="linenos">116</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;reweighted&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span>
-</span><span id="create_json_string-117"><a href="#create_json_string-117"><span class="linenos">117</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
-</span><span id="create_json_string-118"><a href="#create_json_string-118"><span class="linenos">118</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">_gen_data_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="create_json_string-119"><a href="#create_json_string-119"><span class="linenos">119</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="create_json_string-120"><a href="#create_json_string-120"><span class="linenos">120</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
-</span><span id="create_json_string-121"><a href="#create_json_string-121"><span class="linenos">121</span></a>        <span class="n">cdata</span> <span class="o">=</span> <span class="n">_gen_cdata_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
-</span><span id="create_json_string-122"><a href="#create_json_string-122"><span class="linenos">122</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">cdata</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="create_json_string-123"><a href="#create_json_string-123"><span class="linenos">123</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">cdata</span>
-</span><span id="create_json_string-124"><a href="#create_json_string-124"><span class="linenos">124</span></a>        <span class="k">return</span> <span class="n">d</span>
-</span><span id="create_json_string-125"><a href="#create_json_string-125"><span class="linenos">125</span></a>
-</span><span id="create_json_string-126"><a href="#create_json_string-126"><span class="linenos">126</span></a>    <span class="k">def</span> <span class="nf">_nan_Obs_like</span><span class="p">(</span><span class="n">obs</span><span class="p">):</span>
-</span><span id="create_json_string-127"><a href="#create_json_string-127"><span class="linenos">127</span></a>        <span class="n">samples</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_json_string-128"><a href="#create_json_string-128"><span class="linenos">128</span></a>        <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_json_string-129"><a href="#create_json_string-129"><span class="linenos">129</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_json_string-130"><a href="#create_json_string-130"><span class="linenos">130</span></a>        <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
-</span><span id="create_json_string-131"><a href="#create_json_string-131"><span class="linenos">131</span></a>            <span class="n">samples</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">nan</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">value</span><span class="p">))</span>
-</span><span id="create_json_string-132"><a href="#create_json_string-132"><span class="linenos">132</span></a>            <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">key</span><span class="p">)</span>
-</span><span id="create_json_string-133"><a href="#create_json_string-133"><span class="linenos">133</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">value</span><span class="p">)</span>
-</span><span id="create_json_string-134"><a href="#create_json_string-134"><span class="linenos">134</span></a>        <span class="n">my_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="create_json_string-135"><a href="#create_json_string-135"><span class="linenos">135</span></a>        <span class="n">my_obs</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="n">obs</span><span class="o">.</span><span class="n">_covobs</span>
-</span><span id="create_json_string-136"><a href="#create_json_string-136"><span class="linenos">136</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">_covobs</span><span class="p">:</span>
-</span><span id="create_json_string-137"><a href="#create_json_string-137"><span class="linenos">137</span></a>            <span class="n">my_obs</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="create_json_string-138"><a href="#create_json_string-138"><span class="linenos">138</span></a>        <span class="n">my_obs</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">obs</span><span class="o">.</span><span class="n">reweighted</span>
-</span><span id="create_json_string-139"><a href="#create_json_string-139"><span class="linenos">139</span></a>        <span class="n">my_obs</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">obs</span><span class="o">.</span><span class="n">is_merged</span>
-</span><span id="create_json_string-140"><a href="#create_json_string-140"><span class="linenos">140</span></a>        <span class="k">return</span> <span class="n">my_obs</span>
-</span><span id="create_json_string-141"><a href="#create_json_string-141"><span class="linenos">141</span></a>
-</span><span id="create_json_string-142"><a href="#create_json_string-142"><span class="linenos">142</span></a>    <span class="k">def</span> <span class="nf">write_Corr_to_dict</span><span class="p">(</span><span class="n">my_corr</span><span class="p">):</span>
-</span><span id="create_json_string-143"><a href="#create_json_string-143"><span class="linenos">143</span></a>        <span class="n">first_not_none</span> <span class="o">=</span> <span class="nb">next</span><span class="p">(</span><span class="n">i</span> <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">my_corr</span><span class="o">.</span><span class="n">content</span><span class="p">)</span> <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">j</span><span class="p">))</span>
-</span><span id="create_json_string-144"><a href="#create_json_string-144"><span class="linenos">144</span></a>        <span class="n">dummy_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">my_corr</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">N</span><span class="p">),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="create_json_string-145"><a href="#create_json_string-145"><span class="linenos">145</span></a>        <span class="n">dummy_array</span><span class="p">[:]</span> <span class="o">=</span> <span class="n">_nan_Obs_like</span><span class="p">(</span><span class="n">my_corr</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">first_not_none</span><span class="p">]</span><span class="o">.</span><span class="n">ravel</span><span class="p">()[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="create_json_string-146"><a href="#create_json_string-146"><span class="linenos">146</span></a>        <span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">dummy_array</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
-</span><span id="create_json_string-147"><a href="#create_json_string-147"><span class="linenos">147</span></a>        <span class="n">dat</span> <span class="o">=</span> <span class="n">write_Array_to_dict</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">content</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">))</span>
-</span><span id="create_json_string-148"><a href="#create_json_string-148"><span class="linenos">148</span></a>        <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;Corr&#39;</span>
-</span><span id="create_json_string-149"><a href="#create_json_string-149"><span class="linenos">149</span></a>        <span class="n">corr_meta_data</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">my_corr</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
-</span><span id="create_json_string-150"><a href="#create_json_string-150"><span class="linenos">150</span></a>        <span class="k">if</span> <span class="s1">&#39;tag&#39;</span> <span class="ow">in</span> <span class="n">dat</span><span class="o">.</span><span class="n">keys</span><span class="p">():</span>
-</span><span id="create_json_string-151"><a href="#create_json_string-151"><span class="linenos">151</span></a>            <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">corr_meta_data</span><span class="p">)</span>
-</span><span id="create_json_string-152"><a href="#create_json_string-152"><span class="linenos">152</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="create_json_string-153"><a href="#create_json_string-153"><span class="linenos">153</span></a>            <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">corr_meta_data</span><span class="p">]</span>
-</span><span id="create_json_string-154"><a href="#create_json_string-154"><span class="linenos">154</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span>
-</span><span id="create_json_string-155"><a href="#create_json_string-155"><span class="linenos">155</span></a>        <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>  <span class="c1"># tag is now a dictionary, that contains the previous taglist in the key &quot;tag&quot;</span>
-</span><span id="create_json_string-156"><a href="#create_json_string-156"><span class="linenos">156</span></a>        <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">][</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span>
-</span><span id="create_json_string-157"><a href="#create_json_string-157"><span class="linenos">157</span></a>        <span class="k">if</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">prange</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="create_json_string-158"><a href="#create_json_string-158"><span class="linenos">158</span></a>            <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">][</span><span class="s1">&#39;prange&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">prange</span>
-</span><span id="create_json_string-159"><a href="#create_json_string-159"><span class="linenos">159</span></a>        <span class="k">return</span> <span class="n">dat</span>
-</span><span id="create_json_string-160"><a href="#create_json_string-160"><span class="linenos">160</span></a>
-</span><span id="create_json_string-161"><a href="#create_json_string-161"><span class="linenos">161</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="create_json_string-162"><a href="#create_json_string-162"><span class="linenos">162</span></a>        <span class="n">ol</span> <span class="o">=</span> <span class="p">[</span><span class="n">ol</span><span class="p">]</span>
-</span><span id="create_json_string-163"><a href="#create_json_string-163"><span class="linenos">163</span></a>
-</span><span id="create_json_string-164"><a href="#create_json_string-164"><span class="linenos">164</span></a>    <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="create_json_string-165"><a href="#create_json_string-165"><span class="linenos">165</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;pyerrors </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">pyerrorsversion</span><span class="o">.</span><span class="n">__version__</span><span class="p">)</span>
-</span><span id="create_json_string-166"><a href="#create_json_string-166"><span class="linenos">166</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1.0&#39;</span>
-</span><span id="create_json_string-167"><a href="#create_json_string-167"><span class="linenos">167</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">getpass</span><span class="o">.</span><span class="n">getuser</span><span class="p">()</span>
-</span><span id="create_json_string-168"><a href="#create_json_string-168"><span class="linenos">168</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">datetime</span><span class="o">.</span><span class="n">datetime</span><span class="o">.</span><span class="n">now</span><span class="p">()</span><span class="o">.</span><span class="n">astimezone</span><span class="p">()</span><span class="o">.</span><span class="n">strftime</span><span class="p">(</span><span class="s1">&#39;%Y-%m-</span><span class="si">%d</span><span class="s1"> %H:%M:%S %z&#39;</span><span class="p">)</span>
-</span><span id="create_json_string-169"><a href="#create_json_string-169"><span class="linenos">169</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">()</span> <span class="o">+</span> <span class="s1">&#39;, &#39;</span> <span class="o">+</span> <span class="n">platform</span><span class="o">.</span><span class="n">platform</span><span class="p">()</span>
-</span><span id="create_json_string-170"><a href="#create_json_string-170"><span class="linenos">170</span></a>
-</span><span id="create_json_string-171"><a href="#create_json_string-171"><span class="linenos">171</span></a>    <span class="k">if</span> <span class="n">description</span><span class="p">:</span>
-</span><span id="create_json_string-172"><a href="#create_json_string-172"><span class="linenos">172</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">description</span>
-</span><span id="create_json_string-173"><a href="#create_json_string-173"><span class="linenos">173</span></a>
-</span><span id="create_json_string-174"><a href="#create_json_string-174"><span class="linenos">174</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="create_json_string-175"><a href="#create_json_string-175"><span class="linenos">175</span></a>    <span class="k">for</span> <span class="n">io</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">:</span>
-</span><span id="create_json_string-176"><a href="#create_json_string-176"><span class="linenos">176</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="create_json_string-177"><a href="#create_json_string-177"><span class="linenos">177</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_Obs_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
-</span><span id="create_json_string-178"><a href="#create_json_string-178"><span class="linenos">178</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
-</span><span id="create_json_string-179"><a href="#create_json_string-179"><span class="linenos">179</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_List_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
-</span><span id="create_json_string-180"><a href="#create_json_string-180"><span class="linenos">180</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="create_json_string-181"><a href="#create_json_string-181"><span class="linenos">181</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_Array_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
-</span><span id="create_json_string-182"><a href="#create_json_string-182"><span class="linenos">182</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
-</span><span id="create_json_string-183"><a href="#create_json_string-183"><span class="linenos">183</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_Corr_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
-</span><span id="create_json_string-184"><a href="#create_json_string-184"><span class="linenos">184</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="create_json_string-185"><a href="#create_json_string-185"><span class="linenos">185</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unkown datatype.&quot;</span><span class="p">)</span>
-</span><span id="create_json_string-186"><a href="#create_json_string-186"><span class="linenos">186</span></a>
-</span><span id="create_json_string-187"><a href="#create_json_string-187"><span class="linenos">187</span></a>    <span class="k">if</span> <span class="n">indent</span><span class="p">:</span>
-</span><span id="create_json_string-188"><a href="#create_json_string-188"><span class="linenos">188</span></a>        <span class="k">return</span> <span class="n">json</span><span class="o">.</span><span class="n">dumps</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="n">indent</span><span class="p">,</span> <span class="n">ensure_ascii</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">write_mode</span><span class="o">=</span><span class="n">json</span><span class="o">.</span><span class="n">WM_SINGLE_LINE_ARRAY</span><span class="p">)</span>
-</span><span id="create_json_string-189"><a href="#create_json_string-189"><span class="linenos">189</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="create_json_string-190"><a href="#create_json_string-190"><span class="linenos">190</span></a>        <span class="k">return</span> <span class="n">json</span><span class="o">.</span><span class="n">dumps</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="n">indent</span><span class="p">,</span> <span class="n">ensure_ascii</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">write_mode</span><span class="o">=</span><span class="n">json</span><span class="o">.</span><span class="n">WM_COMPACT</span><span class="p">)</span>
+    <a class="headerlink" href="#create_json_string"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="create_json_string-18"><a href="#create_json_string-18"><span class="linenos"> 18</span></a><span class="k">def</span> <span class="nf">create_json_string</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">1</span><span class="p">):</span>
+</span><span id="create_json_string-19"><a href="#create_json_string-19"><span class="linenos"> 19</span></a>    <span class="sd">&quot;&quot;&quot;Generate the string for the export of a list of Obs or structures containing Obs</span>
+</span><span id="create_json_string-20"><a href="#create_json_string-20"><span class="linenos"> 20</span></a><span class="sd">    to a .json(.gz) file</span>
+</span><span id="create_json_string-21"><a href="#create_json_string-21"><span class="linenos"> 21</span></a>
+</span><span id="create_json_string-22"><a href="#create_json_string-22"><span class="linenos"> 22</span></a><span class="sd">    Parameters</span>
+</span><span id="create_json_string-23"><a href="#create_json_string-23"><span class="linenos"> 23</span></a><span class="sd">    ----------</span>
+</span><span id="create_json_string-24"><a href="#create_json_string-24"><span class="linenos"> 24</span></a><span class="sd">    ol : list</span>
+</span><span id="create_json_string-25"><a href="#create_json_string-25"><span class="linenos"> 25</span></a><span class="sd">        List of objects that will be exported. At the moment, these objects can be</span>
+</span><span id="create_json_string-26"><a href="#create_json_string-26"><span class="linenos"> 26</span></a><span class="sd">        either of: Obs, list, numpy.ndarray, Corr.</span>
+</span><span id="create_json_string-27"><a href="#create_json_string-27"><span class="linenos"> 27</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
+</span><span id="create_json_string-28"><a href="#create_json_string-28"><span class="linenos"> 28</span></a><span class="sd">    description : str</span>
+</span><span id="create_json_string-29"><a href="#create_json_string-29"><span class="linenos"> 29</span></a><span class="sd">        Optional string that describes the contents of the json file.</span>
+</span><span id="create_json_string-30"><a href="#create_json_string-30"><span class="linenos"> 30</span></a><span class="sd">    indent : int</span>
+</span><span id="create_json_string-31"><a href="#create_json_string-31"><span class="linenos"> 31</span></a><span class="sd">        Specify the indentation level of the json file. None or 0 is permissible and</span>
+</span><span id="create_json_string-32"><a href="#create_json_string-32"><span class="linenos"> 32</span></a><span class="sd">        saves disk space.</span>
+</span><span id="create_json_string-33"><a href="#create_json_string-33"><span class="linenos"> 33</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="create_json_string-34"><a href="#create_json_string-34"><span class="linenos"> 34</span></a>
+</span><span id="create_json_string-35"><a href="#create_json_string-35"><span class="linenos"> 35</span></a>    <span class="k">def</span> <span class="nf">_gen_data_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">):</span>
+</span><span id="create_json_string-36"><a href="#create_json_string-36"><span class="linenos"> 36</span></a>        <span class="n">dl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_json_string-37"><a href="#create_json_string-37"><span class="linenos"> 37</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
+</span><span id="create_json_string-38"><a href="#create_json_string-38"><span class="linenos"> 38</span></a>            <span class="n">ed</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_json_string-39"><a href="#create_json_string-39"><span class="linenos"> 39</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="create_json_string-40"><a href="#create_json_string-40"><span class="linenos"> 40</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;replica&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_json_string-41"><a href="#create_json_string-41"><span class="linenos"> 41</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="create_json_string-42"><a href="#create_json_string-42"><span class="linenos"> 42</span></a>                <span class="n">rd</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_json_string-43"><a href="#create_json_string-43"><span class="linenos"> 43</span></a>                <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;name&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">r_name</span>
+</span><span id="create_json_string-44"><a href="#create_json_string-44"><span class="linenos"> 44</span></a>                <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">r_name</span><span class="p">,</span> <span class="kc">False</span><span class="p">):</span>
+</span><span id="create_json_string-45"><a href="#create_json_string-45"><span class="linenos"> 45</span></a>                    <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;is_merged&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="create_json_string-46"><a href="#create_json_string-46"><span class="linenos"> 46</span></a>                <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_json_string-47"><a href="#create_json_string-47"><span class="linenos"> 47</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">])):</span>
+</span><span id="create_json_string-48"><a href="#create_json_string-48"><span class="linenos"> 48</span></a>                    <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="n">i</span><span class="p">]])</span>
+</span><span id="create_json_string-49"><a href="#create_json_string-49"><span class="linenos"> 49</span></a>                    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">:</span>
+</span><span id="create_json_string-50"><a href="#create_json_string-50"><span class="linenos"> 50</span></a>                        <span class="n">rd</span><span class="p">[</span><span class="s1">&#39;deltas&#39;</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="n">i</span><span class="p">])</span>
+</span><span id="create_json_string-51"><a href="#create_json_string-51"><span class="linenos"> 51</span></a>                <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;replica&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rd</span><span class="p">)</span>
+</span><span id="create_json_string-52"><a href="#create_json_string-52"><span class="linenos"> 52</span></a>            <span class="n">dl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ed</span><span class="p">)</span>
+</span><span id="create_json_string-53"><a href="#create_json_string-53"><span class="linenos"> 53</span></a>        <span class="k">return</span> <span class="n">dl</span>
+</span><span id="create_json_string-54"><a href="#create_json_string-54"><span class="linenos"> 54</span></a>
+</span><span id="create_json_string-55"><a href="#create_json_string-55"><span class="linenos"> 55</span></a>    <span class="k">def</span> <span class="nf">_gen_cdata_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">):</span>
+</span><span id="create_json_string-56"><a href="#create_json_string-56"><span class="linenos"> 56</span></a>        <span class="n">dl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_json_string-57"><a href="#create_json_string-57"><span class="linenos"> 57</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="create_json_string-58"><a href="#create_json_string-58"><span class="linenos"> 58</span></a>            <span class="n">ed</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_json_string-59"><a href="#create_json_string-59"><span class="linenos"> 59</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;id&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">name</span>
+</span><span id="create_json_string-60"><a href="#create_json_string-60"><span class="linenos"> 60</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39;(&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;)&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="create_json_string-61"><a href="#create_json_string-61"><span class="linenos"> 61</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;cov&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ravel</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">))</span>
+</span><span id="create_json_string-62"><a href="#create_json_string-62"><span class="linenos"> 62</span></a>            <span class="n">ncov</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="create_json_string-63"><a href="#create_json_string-63"><span class="linenos"> 63</span></a>            <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_json_string-64"><a href="#create_json_string-64"><span class="linenos"> 64</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncov</span><span class="p">):</span>
+</span><span id="create_json_string-65"><a href="#create_json_string-65"><span class="linenos"> 65</span></a>                <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="create_json_string-66"><a href="#create_json_string-66"><span class="linenos"> 66</span></a>                <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">:</span>
+</span><span id="create_json_string-67"><a href="#create_json_string-67"><span class="linenos"> 67</span></a>                    <span class="n">ed</span><span class="p">[</span><span class="s1">&#39;grad&#39;</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span><span class="p">[</span><span class="n">i</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="create_json_string-68"><a href="#create_json_string-68"><span class="linenos"> 68</span></a>            <span class="n">dl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ed</span><span class="p">)</span>
+</span><span id="create_json_string-69"><a href="#create_json_string-69"><span class="linenos"> 69</span></a>        <span class="k">return</span> <span class="n">dl</span>
+</span><span id="create_json_string-70"><a href="#create_json_string-70"><span class="linenos"> 70</span></a>
+</span><span id="create_json_string-71"><a href="#create_json_string-71"><span class="linenos"> 71</span></a>    <span class="k">def</span> <span class="nf">write_Obs_to_dict</span><span class="p">(</span><span class="n">o</span><span class="p">):</span>
+</span><span id="create_json_string-72"><a href="#create_json_string-72"><span class="linenos"> 72</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_json_string-73"><a href="#create_json_string-73"><span class="linenos"> 73</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;Obs&#39;</span>
+</span><span id="create_json_string-74"><a href="#create_json_string-74"><span class="linenos"> 74</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1&#39;</span>
+</span><span id="create_json_string-75"><a href="#create_json_string-75"><span class="linenos"> 75</span></a>        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">tag</span><span class="p">:</span>
+</span><span id="create_json_string-76"><a href="#create_json_string-76"><span class="linenos"> 76</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">tag</span><span class="p">]</span>
+</span><span id="create_json_string-77"><a href="#create_json_string-77"><span class="linenos"> 77</span></a>        <span class="k">if</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
+</span><span id="create_json_string-78"><a href="#create_json_string-78"><span class="linenos"> 78</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;reweighted&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span>
+</span><span id="create_json_string-79"><a href="#create_json_string-79"><span class="linenos"> 79</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span><span class="p">]</span>
+</span><span id="create_json_string-80"><a href="#create_json_string-80"><span class="linenos"> 80</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">_gen_data_d_from_list</span><span class="p">([</span><span class="n">o</span><span class="p">])</span>
+</span><span id="create_json_string-81"><a href="#create_json_string-81"><span class="linenos"> 81</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="create_json_string-82"><a href="#create_json_string-82"><span class="linenos"> 82</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
+</span><span id="create_json_string-83"><a href="#create_json_string-83"><span class="linenos"> 83</span></a>        <span class="n">cdata</span> <span class="o">=</span> <span class="n">_gen_cdata_d_from_list</span><span class="p">([</span><span class="n">o</span><span class="p">])</span>
+</span><span id="create_json_string-84"><a href="#create_json_string-84"><span class="linenos"> 84</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">cdata</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="create_json_string-85"><a href="#create_json_string-85"><span class="linenos"> 85</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">cdata</span>
+</span><span id="create_json_string-86"><a href="#create_json_string-86"><span class="linenos"> 86</span></a>        <span class="k">return</span> <span class="n">d</span>
+</span><span id="create_json_string-87"><a href="#create_json_string-87"><span class="linenos"> 87</span></a>
+</span><span id="create_json_string-88"><a href="#create_json_string-88"><span class="linenos"> 88</span></a>    <span class="k">def</span> <span class="nf">write_List_to_dict</span><span class="p">(</span><span class="n">ol</span><span class="p">):</span>
+</span><span id="create_json_string-89"><a href="#create_json_string-89"><span class="linenos"> 89</span></a>        <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="create_json_string-90"><a href="#create_json_string-90"><span class="linenos"> 90</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_json_string-91"><a href="#create_json_string-91"><span class="linenos"> 91</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;List&#39;</span>
+</span><span id="create_json_string-92"><a href="#create_json_string-92"><span class="linenos"> 92</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;</span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="nb">len</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="create_json_string-93"><a href="#create_json_string-93"><span class="linenos"> 93</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">tag</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
+</span><span id="create_json_string-94"><a href="#create_json_string-94"><span class="linenos"> 94</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">tag</span> <span class="ow">in</span> <span class="n">taglist</span><span class="p">]):</span>
+</span><span id="create_json_string-95"><a href="#create_json_string-95"><span class="linenos"> 95</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span>
+</span><span id="create_json_string-96"><a href="#create_json_string-96"><span class="linenos"> 96</span></a>        <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
+</span><span id="create_json_string-97"><a href="#create_json_string-97"><span class="linenos"> 97</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;reweighted&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span>
+</span><span id="create_json_string-98"><a href="#create_json_string-98"><span class="linenos"> 98</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
+</span><span id="create_json_string-99"><a href="#create_json_string-99"><span class="linenos"> 99</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">_gen_data_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="create_json_string-100"><a href="#create_json_string-100"><span class="linenos">100</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="create_json_string-101"><a href="#create_json_string-101"><span class="linenos">101</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
+</span><span id="create_json_string-102"><a href="#create_json_string-102"><span class="linenos">102</span></a>        <span class="n">cdata</span> <span class="o">=</span> <span class="n">_gen_cdata_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="create_json_string-103"><a href="#create_json_string-103"><span class="linenos">103</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">cdata</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="create_json_string-104"><a href="#create_json_string-104"><span class="linenos">104</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">cdata</span>
+</span><span id="create_json_string-105"><a href="#create_json_string-105"><span class="linenos">105</span></a>        <span class="k">return</span> <span class="n">d</span>
+</span><span id="create_json_string-106"><a href="#create_json_string-106"><span class="linenos">106</span></a>
+</span><span id="create_json_string-107"><a href="#create_json_string-107"><span class="linenos">107</span></a>    <span class="k">def</span> <span class="nf">write_Array_to_dict</span><span class="p">(</span><span class="n">oa</span><span class="p">):</span>
+</span><span id="create_json_string-108"><a href="#create_json_string-108"><span class="linenos">108</span></a>        <span class="n">ol</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">ravel</span><span class="p">(</span><span class="n">oa</span><span class="p">)</span>
+</span><span id="create_json_string-109"><a href="#create_json_string-109"><span class="linenos">109</span></a>        <span class="n">_assert_equal_properties</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="create_json_string-110"><a href="#create_json_string-110"><span class="linenos">110</span></a>        <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_json_string-111"><a href="#create_json_string-111"><span class="linenos">111</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;Array&#39;</span>
+</span><span id="create_json_string-112"><a href="#create_json_string-112"><span class="linenos">112</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;layout&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">oa</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39;(&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;)&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="create_json_string-113"><a href="#create_json_string-113"><span class="linenos">113</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">tag</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
+</span><span id="create_json_string-114"><a href="#create_json_string-114"><span class="linenos">114</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">tag</span> <span class="ow">in</span> <span class="n">taglist</span><span class="p">]):</span>
+</span><span id="create_json_string-115"><a href="#create_json_string-115"><span class="linenos">115</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span>
+</span><span id="create_json_string-116"><a href="#create_json_string-116"><span class="linenos">116</span></a>        <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
+</span><span id="create_json_string-117"><a href="#create_json_string-117"><span class="linenos">117</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;reweighted&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span>
+</span><span id="create_json_string-118"><a href="#create_json_string-118"><span class="linenos">118</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;value&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">]</span>
+</span><span id="create_json_string-119"><a href="#create_json_string-119"><span class="linenos">119</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">_gen_data_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="create_json_string-120"><a href="#create_json_string-120"><span class="linenos">120</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="create_json_string-121"><a href="#create_json_string-121"><span class="linenos">121</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;data&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">data</span>
+</span><span id="create_json_string-122"><a href="#create_json_string-122"><span class="linenos">122</span></a>        <span class="n">cdata</span> <span class="o">=</span> <span class="n">_gen_cdata_d_from_list</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span>
+</span><span id="create_json_string-123"><a href="#create_json_string-123"><span class="linenos">123</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">cdata</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="create_json_string-124"><a href="#create_json_string-124"><span class="linenos">124</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;cdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">cdata</span>
+</span><span id="create_json_string-125"><a href="#create_json_string-125"><span class="linenos">125</span></a>        <span class="k">return</span> <span class="n">d</span>
+</span><span id="create_json_string-126"><a href="#create_json_string-126"><span class="linenos">126</span></a>
+</span><span id="create_json_string-127"><a href="#create_json_string-127"><span class="linenos">127</span></a>    <span class="k">def</span> <span class="nf">_nan_Obs_like</span><span class="p">(</span><span class="n">obs</span><span class="p">):</span>
+</span><span id="create_json_string-128"><a href="#create_json_string-128"><span class="linenos">128</span></a>        <span class="n">samples</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_json_string-129"><a href="#create_json_string-129"><span class="linenos">129</span></a>        <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_json_string-130"><a href="#create_json_string-130"><span class="linenos">130</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_json_string-131"><a href="#create_json_string-131"><span class="linenos">131</span></a>        <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
+</span><span id="create_json_string-132"><a href="#create_json_string-132"><span class="linenos">132</span></a>            <span class="n">samples</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">nan</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">value</span><span class="p">))</span>
+</span><span id="create_json_string-133"><a href="#create_json_string-133"><span class="linenos">133</span></a>            <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">key</span><span class="p">)</span>
+</span><span id="create_json_string-134"><a href="#create_json_string-134"><span class="linenos">134</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">value</span><span class="p">)</span>
+</span><span id="create_json_string-135"><a href="#create_json_string-135"><span class="linenos">135</span></a>        <span class="n">my_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="create_json_string-136"><a href="#create_json_string-136"><span class="linenos">136</span></a>        <span class="n">my_obs</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="n">obs</span><span class="o">.</span><span class="n">_covobs</span>
+</span><span id="create_json_string-137"><a href="#create_json_string-137"><span class="linenos">137</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">_covobs</span><span class="p">:</span>
+</span><span id="create_json_string-138"><a href="#create_json_string-138"><span class="linenos">138</span></a>            <span class="n">my_obs</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="create_json_string-139"><a href="#create_json_string-139"><span class="linenos">139</span></a>        <span class="n">my_obs</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">obs</span><span class="o">.</span><span class="n">reweighted</span>
+</span><span id="create_json_string-140"><a href="#create_json_string-140"><span class="linenos">140</span></a>        <span class="n">my_obs</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">obs</span><span class="o">.</span><span class="n">is_merged</span>
+</span><span id="create_json_string-141"><a href="#create_json_string-141"><span class="linenos">141</span></a>        <span class="k">return</span> <span class="n">my_obs</span>
+</span><span id="create_json_string-142"><a href="#create_json_string-142"><span class="linenos">142</span></a>
+</span><span id="create_json_string-143"><a href="#create_json_string-143"><span class="linenos">143</span></a>    <span class="k">def</span> <span class="nf">write_Corr_to_dict</span><span class="p">(</span><span class="n">my_corr</span><span class="p">):</span>
+</span><span id="create_json_string-144"><a href="#create_json_string-144"><span class="linenos">144</span></a>        <span class="n">first_not_none</span> <span class="o">=</span> <span class="nb">next</span><span class="p">(</span><span class="n">i</span> <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">my_corr</span><span class="o">.</span><span class="n">content</span><span class="p">)</span> <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">j</span><span class="p">))</span>
+</span><span id="create_json_string-145"><a href="#create_json_string-145"><span class="linenos">145</span></a>        <span class="n">dummy_array</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">((</span><span class="n">my_corr</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">N</span><span class="p">),</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="create_json_string-146"><a href="#create_json_string-146"><span class="linenos">146</span></a>        <span class="n">dummy_array</span><span class="p">[:]</span> <span class="o">=</span> <span class="n">_nan_Obs_like</span><span class="p">(</span><span class="n">my_corr</span><span class="o">.</span><span class="n">content</span><span class="p">[</span><span class="n">first_not_none</span><span class="p">]</span><span class="o">.</span><span class="n">ravel</span><span class="p">()[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="create_json_string-147"><a href="#create_json_string-147"><span class="linenos">147</span></a>        <span class="n">content</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">dummy_array</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">content</span><span class="p">]</span>
+</span><span id="create_json_string-148"><a href="#create_json_string-148"><span class="linenos">148</span></a>        <span class="n">dat</span> <span class="o">=</span> <span class="n">write_Array_to_dict</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">content</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">))</span>
+</span><span id="create_json_string-149"><a href="#create_json_string-149"><span class="linenos">149</span></a>        <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;type&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;Corr&#39;</span>
+</span><span id="create_json_string-150"><a href="#create_json_string-150"><span class="linenos">150</span></a>        <span class="n">corr_meta_data</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">my_corr</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
+</span><span id="create_json_string-151"><a href="#create_json_string-151"><span class="linenos">151</span></a>        <span class="k">if</span> <span class="s1">&#39;tag&#39;</span> <span class="ow">in</span> <span class="n">dat</span><span class="o">.</span><span class="n">keys</span><span class="p">():</span>
+</span><span id="create_json_string-152"><a href="#create_json_string-152"><span class="linenos">152</span></a>            <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">corr_meta_data</span><span class="p">)</span>
+</span><span id="create_json_string-153"><a href="#create_json_string-153"><span class="linenos">153</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="create_json_string-154"><a href="#create_json_string-154"><span class="linenos">154</span></a>            <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">corr_meta_data</span><span class="p">]</span>
+</span><span id="create_json_string-155"><a href="#create_json_string-155"><span class="linenos">155</span></a>        <span class="n">taglist</span> <span class="o">=</span> <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span>
+</span><span id="create_json_string-156"><a href="#create_json_string-156"><span class="linenos">156</span></a>        <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">{}</span>  <span class="c1"># tag is now a dictionary, that contains the previous taglist in the key &quot;tag&quot;</span>
+</span><span id="create_json_string-157"><a href="#create_json_string-157"><span class="linenos">157</span></a>        <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">][</span><span class="s1">&#39;tag&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">taglist</span>
+</span><span id="create_json_string-158"><a href="#create_json_string-158"><span class="linenos">158</span></a>        <span class="k">if</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">prange</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="create_json_string-159"><a href="#create_json_string-159"><span class="linenos">159</span></a>            <span class="n">dat</span><span class="p">[</span><span class="s1">&#39;tag&#39;</span><span class="p">][</span><span class="s1">&#39;prange&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">my_corr</span><span class="o">.</span><span class="n">prange</span>
+</span><span id="create_json_string-160"><a href="#create_json_string-160"><span class="linenos">160</span></a>        <span class="k">return</span> <span class="n">dat</span>
+</span><span id="create_json_string-161"><a href="#create_json_string-161"><span class="linenos">161</span></a>
+</span><span id="create_json_string-162"><a href="#create_json_string-162"><span class="linenos">162</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="create_json_string-163"><a href="#create_json_string-163"><span class="linenos">163</span></a>        <span class="n">ol</span> <span class="o">=</span> <span class="p">[</span><span class="n">ol</span><span class="p">]</span>
+</span><span id="create_json_string-164"><a href="#create_json_string-164"><span class="linenos">164</span></a>
+</span><span id="create_json_string-165"><a href="#create_json_string-165"><span class="linenos">165</span></a>    <span class="n">d</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="create_json_string-166"><a href="#create_json_string-166"><span class="linenos">166</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;program&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;pyerrors </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">pyerrorsversion</span><span class="o">.</span><span class="n">__version__</span><span class="p">)</span>
+</span><span id="create_json_string-167"><a href="#create_json_string-167"><span class="linenos">167</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;version&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;1.0&#39;</span>
+</span><span id="create_json_string-168"><a href="#create_json_string-168"><span class="linenos">168</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;who&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">getpass</span><span class="o">.</span><span class="n">getuser</span><span class="p">()</span>
+</span><span id="create_json_string-169"><a href="#create_json_string-169"><span class="linenos">169</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;date&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">datetime</span><span class="o">.</span><span class="n">datetime</span><span class="o">.</span><span class="n">now</span><span class="p">()</span><span class="o">.</span><span class="n">astimezone</span><span class="p">()</span><span class="o">.</span><span class="n">strftime</span><span class="p">(</span><span class="s1">&#39;%Y-%m-</span><span class="si">%d</span><span class="s1"> %H:%M:%S %z&#39;</span><span class="p">)</span>
+</span><span id="create_json_string-170"><a href="#create_json_string-170"><span class="linenos">170</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;host&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">socket</span><span class="o">.</span><span class="n">gethostname</span><span class="p">()</span> <span class="o">+</span> <span class="s1">&#39;, &#39;</span> <span class="o">+</span> <span class="n">platform</span><span class="o">.</span><span class="n">platform</span><span class="p">()</span>
+</span><span id="create_json_string-171"><a href="#create_json_string-171"><span class="linenos">171</span></a>
+</span><span id="create_json_string-172"><a href="#create_json_string-172"><span class="linenos">172</span></a>    <span class="k">if</span> <span class="n">description</span><span class="p">:</span>
+</span><span id="create_json_string-173"><a href="#create_json_string-173"><span class="linenos">173</span></a>        <span class="n">d</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">description</span>
+</span><span id="create_json_string-174"><a href="#create_json_string-174"><span class="linenos">174</span></a>
+</span><span id="create_json_string-175"><a href="#create_json_string-175"><span class="linenos">175</span></a>    <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="create_json_string-176"><a href="#create_json_string-176"><span class="linenos">176</span></a>    <span class="k">for</span> <span class="n">io</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">:</span>
+</span><span id="create_json_string-177"><a href="#create_json_string-177"><span class="linenos">177</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="create_json_string-178"><a href="#create_json_string-178"><span class="linenos">178</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_Obs_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
+</span><span id="create_json_string-179"><a href="#create_json_string-179"><span class="linenos">179</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="nb">list</span><span class="p">):</span>
+</span><span id="create_json_string-180"><a href="#create_json_string-180"><span class="linenos">180</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_List_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
+</span><span id="create_json_string-181"><a href="#create_json_string-181"><span class="linenos">181</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="create_json_string-182"><a href="#create_json_string-182"><span class="linenos">182</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_Array_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
+</span><span id="create_json_string-183"><a href="#create_json_string-183"><span class="linenos">183</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">io</span><span class="p">,</span> <span class="n">Corr</span><span class="p">):</span>
+</span><span id="create_json_string-184"><a href="#create_json_string-184"><span class="linenos">184</span></a>            <span class="n">d</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">write_Corr_to_dict</span><span class="p">(</span><span class="n">io</span><span class="p">))</span>
+</span><span id="create_json_string-185"><a href="#create_json_string-185"><span class="linenos">185</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="create_json_string-186"><a href="#create_json_string-186"><span class="linenos">186</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unkown datatype.&quot;</span><span class="p">)</span>
+</span><span id="create_json_string-187"><a href="#create_json_string-187"><span class="linenos">187</span></a>
+</span><span id="create_json_string-188"><a href="#create_json_string-188"><span class="linenos">188</span></a>    <span class="k">if</span> <span class="n">indent</span><span class="p">:</span>
+</span><span id="create_json_string-189"><a href="#create_json_string-189"><span class="linenos">189</span></a>        <span class="k">return</span> <span class="n">json</span><span class="o">.</span><span class="n">dumps</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="n">indent</span><span class="p">,</span> <span class="n">ensure_ascii</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">write_mode</span><span class="o">=</span><span class="n">json</span><span class="o">.</span><span class="n">WM_SINGLE_LINE_ARRAY</span><span class="p">)</span>
+</span><span id="create_json_string-190"><a href="#create_json_string-190"><span class="linenos">190</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="create_json_string-191"><a href="#create_json_string-191"><span class="linenos">191</span></a>        <span class="k">return</span> <span class="n">json</span><span class="o">.</span><span class="n">dumps</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="n">indent</span><span class="p">,</span> <span class="n">ensure_ascii</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">write_mode</span><span class="o">=</span><span class="n">json</span><span class="o">.</span><span class="n">WM_COMPACT</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Generate the string for the export of a list of Obs or structures containing Obs
 to a .json(.gz) file</p>
@@ -994,53 +995,53 @@ saves disk space.</li>
 
                 </section>
                 <section id="dump_to_json">
-                            <div class="attr function"><a class="headerlink" href="#dump_to_json">#&nbsp;&nbsp</a>
+                            <input id="dump_to_json-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">dump_to_json</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">ol</span>, </span><span class="param"><span class="n">fname</span>, </span><span class="param"><span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span>, </span><span class="param"><span class="n">indent</span><span class="o">=</span><span class="mi">1</span>, </span><span class="param"><span class="n">gz</span><span class="o">=</span><span class="kc">True</span></span>)</span>
+
+                <label class="view-source-button" for="dump_to_json-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">dump_to_json</span><span class="signature">(ol, fname, description=&#39;&#39;, indent=1, gz=True)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="dump_to_json-193"><a href="#dump_to_json-193"><span class="linenos">193</span></a><span class="k">def</span> <span class="nf">dump_to_json</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="dump_to_json-194"><a href="#dump_to_json-194"><span class="linenos">194</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to a .json(.gz) file</span>
-</span><span id="dump_to_json-195"><a href="#dump_to_json-195"><span class="linenos">195</span></a>
-</span><span id="dump_to_json-196"><a href="#dump_to_json-196"><span class="linenos">196</span></a><span class="sd">    Parameters</span>
-</span><span id="dump_to_json-197"><a href="#dump_to_json-197"><span class="linenos">197</span></a><span class="sd">    ----------</span>
-</span><span id="dump_to_json-198"><a href="#dump_to_json-198"><span class="linenos">198</span></a><span class="sd">    ol : list</span>
-</span><span id="dump_to_json-199"><a href="#dump_to_json-199"><span class="linenos">199</span></a><span class="sd">        List of objects that will be exported. At the moment, these objects can be</span>
-</span><span id="dump_to_json-200"><a href="#dump_to_json-200"><span class="linenos">200</span></a><span class="sd">        either of: Obs, list, numpy.ndarray, Corr.</span>
-</span><span id="dump_to_json-201"><a href="#dump_to_json-201"><span class="linenos">201</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
-</span><span id="dump_to_json-202"><a href="#dump_to_json-202"><span class="linenos">202</span></a><span class="sd">    fname : str</span>
-</span><span id="dump_to_json-203"><a href="#dump_to_json-203"><span class="linenos">203</span></a><span class="sd">        Filename of the output file.</span>
-</span><span id="dump_to_json-204"><a href="#dump_to_json-204"><span class="linenos">204</span></a><span class="sd">    description : str</span>
-</span><span id="dump_to_json-205"><a href="#dump_to_json-205"><span class="linenos">205</span></a><span class="sd">        Optional string that describes the contents of the json file.</span>
-</span><span id="dump_to_json-206"><a href="#dump_to_json-206"><span class="linenos">206</span></a><span class="sd">    indent : int</span>
-</span><span id="dump_to_json-207"><a href="#dump_to_json-207"><span class="linenos">207</span></a><span class="sd">        Specify the indentation level of the json file. None or 0 is permissible and</span>
-</span><span id="dump_to_json-208"><a href="#dump_to_json-208"><span class="linenos">208</span></a><span class="sd">        saves disk space.</span>
-</span><span id="dump_to_json-209"><a href="#dump_to_json-209"><span class="linenos">209</span></a><span class="sd">    gz : bool</span>
-</span><span id="dump_to_json-210"><a href="#dump_to_json-210"><span class="linenos">210</span></a><span class="sd">        If True, the output is a gzipped json. If False, the output is a json file.</span>
-</span><span id="dump_to_json-211"><a href="#dump_to_json-211"><span class="linenos">211</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="dump_to_json-212"><a href="#dump_to_json-212"><span class="linenos">212</span></a>
-</span><span id="dump_to_json-213"><a href="#dump_to_json-213"><span class="linenos">213</span></a>    <span class="n">jsonstring</span> <span class="o">=</span> <span class="n">create_json_string</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">description</span><span class="p">,</span> <span class="n">indent</span><span class="p">)</span>
-</span><span id="dump_to_json-214"><a href="#dump_to_json-214"><span class="linenos">214</span></a>
-</span><span id="dump_to_json-215"><a href="#dump_to_json-215"><span class="linenos">215</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.json&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="dump_to_json-216"><a href="#dump_to_json-216"><span class="linenos">216</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.json&#39;</span>
-</span><span id="dump_to_json-217"><a href="#dump_to_json-217"><span class="linenos">217</span></a>
-</span><span id="dump_to_json-218"><a href="#dump_to_json-218"><span class="linenos">218</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
-</span><span id="dump_to_json-219"><a href="#dump_to_json-219"><span class="linenos">219</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="dump_to_json-220"><a href="#dump_to_json-220"><span class="linenos">220</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
-</span><span id="dump_to_json-221"><a href="#dump_to_json-221"><span class="linenos">221</span></a>
-</span><span id="dump_to_json-222"><a href="#dump_to_json-222"><span class="linenos">222</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
-</span><span id="dump_to_json-223"><a href="#dump_to_json-223"><span class="linenos">223</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">jsonstring</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span>
-</span><span id="dump_to_json-224"><a href="#dump_to_json-224"><span class="linenos">224</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="dump_to_json-225"><a href="#dump_to_json-225"><span class="linenos">225</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
-</span><span id="dump_to_json-226"><a href="#dump_to_json-226"><span class="linenos">226</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">jsonstring</span><span class="p">)</span>
-</span><span id="dump_to_json-227"><a href="#dump_to_json-227"><span class="linenos">227</span></a>    <span class="n">fp</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+    <a class="headerlink" href="#dump_to_json"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="dump_to_json-194"><a href="#dump_to_json-194"><span class="linenos">194</span></a><span class="k">def</span> <span class="nf">dump_to_json</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="dump_to_json-195"><a href="#dump_to_json-195"><span class="linenos">195</span></a>    <span class="sd">&quot;&quot;&quot;Export a list of Obs or structures containing Obs to a .json(.gz) file</span>
+</span><span id="dump_to_json-196"><a href="#dump_to_json-196"><span class="linenos">196</span></a>
+</span><span id="dump_to_json-197"><a href="#dump_to_json-197"><span class="linenos">197</span></a><span class="sd">    Parameters</span>
+</span><span id="dump_to_json-198"><a href="#dump_to_json-198"><span class="linenos">198</span></a><span class="sd">    ----------</span>
+</span><span id="dump_to_json-199"><a href="#dump_to_json-199"><span class="linenos">199</span></a><span class="sd">    ol : list</span>
+</span><span id="dump_to_json-200"><a href="#dump_to_json-200"><span class="linenos">200</span></a><span class="sd">        List of objects that will be exported. At the moment, these objects can be</span>
+</span><span id="dump_to_json-201"><a href="#dump_to_json-201"><span class="linenos">201</span></a><span class="sd">        either of: Obs, list, numpy.ndarray, Corr.</span>
+</span><span id="dump_to_json-202"><a href="#dump_to_json-202"><span class="linenos">202</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
+</span><span id="dump_to_json-203"><a href="#dump_to_json-203"><span class="linenos">203</span></a><span class="sd">    fname : str</span>
+</span><span id="dump_to_json-204"><a href="#dump_to_json-204"><span class="linenos">204</span></a><span class="sd">        Filename of the output file.</span>
+</span><span id="dump_to_json-205"><a href="#dump_to_json-205"><span class="linenos">205</span></a><span class="sd">    description : str</span>
+</span><span id="dump_to_json-206"><a href="#dump_to_json-206"><span class="linenos">206</span></a><span class="sd">        Optional string that describes the contents of the json file.</span>
+</span><span id="dump_to_json-207"><a href="#dump_to_json-207"><span class="linenos">207</span></a><span class="sd">    indent : int</span>
+</span><span id="dump_to_json-208"><a href="#dump_to_json-208"><span class="linenos">208</span></a><span class="sd">        Specify the indentation level of the json file. None or 0 is permissible and</span>
+</span><span id="dump_to_json-209"><a href="#dump_to_json-209"><span class="linenos">209</span></a><span class="sd">        saves disk space.</span>
+</span><span id="dump_to_json-210"><a href="#dump_to_json-210"><span class="linenos">210</span></a><span class="sd">    gz : bool</span>
+</span><span id="dump_to_json-211"><a href="#dump_to_json-211"><span class="linenos">211</span></a><span class="sd">        If True, the output is a gzipped json. If False, the output is a json file.</span>
+</span><span id="dump_to_json-212"><a href="#dump_to_json-212"><span class="linenos">212</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="dump_to_json-213"><a href="#dump_to_json-213"><span class="linenos">213</span></a>
+</span><span id="dump_to_json-214"><a href="#dump_to_json-214"><span class="linenos">214</span></a>    <span class="n">jsonstring</span> <span class="o">=</span> <span class="n">create_json_string</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">description</span><span class="p">,</span> <span class="n">indent</span><span class="p">)</span>
+</span><span id="dump_to_json-215"><a href="#dump_to_json-215"><span class="linenos">215</span></a>
+</span><span id="dump_to_json-216"><a href="#dump_to_json-216"><span class="linenos">216</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.json&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="dump_to_json-217"><a href="#dump_to_json-217"><span class="linenos">217</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.json&#39;</span>
+</span><span id="dump_to_json-218"><a href="#dump_to_json-218"><span class="linenos">218</span></a>
+</span><span id="dump_to_json-219"><a href="#dump_to_json-219"><span class="linenos">219</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
+</span><span id="dump_to_json-220"><a href="#dump_to_json-220"><span class="linenos">220</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="dump_to_json-221"><a href="#dump_to_json-221"><span class="linenos">221</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
+</span><span id="dump_to_json-222"><a href="#dump_to_json-222"><span class="linenos">222</span></a>
+</span><span id="dump_to_json-223"><a href="#dump_to_json-223"><span class="linenos">223</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
+</span><span id="dump_to_json-224"><a href="#dump_to_json-224"><span class="linenos">224</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">jsonstring</span><span class="o">.</span><span class="n">encode</span><span class="p">(</span><span class="s1">&#39;utf-8&#39;</span><span class="p">))</span>
+</span><span id="dump_to_json-225"><a href="#dump_to_json-225"><span class="linenos">225</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="dump_to_json-226"><a href="#dump_to_json-226"><span class="linenos">226</span></a>        <span class="n">fp</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span>
+</span><span id="dump_to_json-227"><a href="#dump_to_json-227"><span class="linenos">227</span></a>        <span class="n">fp</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">jsonstring</span><span class="p">)</span>
+</span><span id="dump_to_json-228"><a href="#dump_to_json-228"><span class="linenos">228</span></a>    <span class="n">fp</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Export a list of Obs or structures containing Obs to a .json(.gz) file</p>
 
@@ -1066,36 +1067,36 @@ If True, the output is a gzipped json. If False, the output is a json file.</li>
 
                 </section>
                 <section id="import_json_string">
-                            <div class="attr function"><a class="headerlink" href="#import_json_string">#&nbsp;&nbsp</a>
+                            <input id="import_json_string-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">import_json_string</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">json_string</span>, </span><span class="param"><span class="n">verbose</span><span class="o">=</span><span class="kc">True</span>, </span><span class="param"><span class="n">full_output</span><span class="o">=</span><span class="kc">False</span></span>)</span>
+
+                <label class="view-source-button" for="import_json_string-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">import_json_string</span><span class="signature">(json_string, verbose=True, full_output=False)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="import_json_string-433"><a href="#import_json_string-433"><span class="linenos">433</span></a><span class="k">def</span> <span class="nf">import_json_string</span><span class="p">(</span><span class="n">json_string</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="import_json_string-434"><a href="#import_json_string-434"><span class="linenos">434</span></a>    <span class="sd">&quot;&quot;&quot;Reconstruct a list of Obs or structures containing Obs from a json string.</span>
-</span><span id="import_json_string-435"><a href="#import_json_string-435"><span class="linenos">435</span></a>
-</span><span id="import_json_string-436"><a href="#import_json_string-436"><span class="linenos">436</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
-</span><span id="import_json_string-437"><a href="#import_json_string-437"><span class="linenos">437</span></a><span class="sd">    If the list contains only one element, it is unpacked from the list.</span>
-</span><span id="import_json_string-438"><a href="#import_json_string-438"><span class="linenos">438</span></a>
-</span><span id="import_json_string-439"><a href="#import_json_string-439"><span class="linenos">439</span></a><span class="sd">    Parameters</span>
-</span><span id="import_json_string-440"><a href="#import_json_string-440"><span class="linenos">440</span></a><span class="sd">    ----------</span>
-</span><span id="import_json_string-441"><a href="#import_json_string-441"><span class="linenos">441</span></a><span class="sd">    json_string : str</span>
-</span><span id="import_json_string-442"><a href="#import_json_string-442"><span class="linenos">442</span></a><span class="sd">        json string containing the data.</span>
-</span><span id="import_json_string-443"><a href="#import_json_string-443"><span class="linenos">443</span></a><span class="sd">    verbose : bool</span>
-</span><span id="import_json_string-444"><a href="#import_json_string-444"><span class="linenos">444</span></a><span class="sd">        Print additional information that was written to the file.</span>
-</span><span id="import_json_string-445"><a href="#import_json_string-445"><span class="linenos">445</span></a><span class="sd">    full_output : bool</span>
-</span><span id="import_json_string-446"><a href="#import_json_string-446"><span class="linenos">446</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="import_json_string-447"><a href="#import_json_string-447"><span class="linenos">447</span></a><span class="sd">        If False, only the data is returned.</span>
-</span><span id="import_json_string-448"><a href="#import_json_string-448"><span class="linenos">448</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="import_json_string-449"><a href="#import_json_string-449"><span class="linenos">449</span></a>
-</span><span id="import_json_string-450"><a href="#import_json_string-450"><span class="linenos">450</span></a>    <span class="k">return</span> <span class="n">_parse_json_dict</span><span class="p">(</span><span class="n">json</span><span class="o">.</span><span class="n">loads</span><span class="p">(</span><span class="n">json_string</span><span class="p">),</span> <span class="n">verbose</span><span class="p">,</span> <span class="n">full_output</span><span class="p">)</span>
+    <a class="headerlink" href="#import_json_string"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="import_json_string-434"><a href="#import_json_string-434"><span class="linenos">434</span></a><span class="k">def</span> <span class="nf">import_json_string</span><span class="p">(</span><span class="n">json_string</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="import_json_string-435"><a href="#import_json_string-435"><span class="linenos">435</span></a>    <span class="sd">&quot;&quot;&quot;Reconstruct a list of Obs or structures containing Obs from a json string.</span>
+</span><span id="import_json_string-436"><a href="#import_json_string-436"><span class="linenos">436</span></a>
+</span><span id="import_json_string-437"><a href="#import_json_string-437"><span class="linenos">437</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
+</span><span id="import_json_string-438"><a href="#import_json_string-438"><span class="linenos">438</span></a><span class="sd">    If the list contains only one element, it is unpacked from the list.</span>
+</span><span id="import_json_string-439"><a href="#import_json_string-439"><span class="linenos">439</span></a>
+</span><span id="import_json_string-440"><a href="#import_json_string-440"><span class="linenos">440</span></a><span class="sd">    Parameters</span>
+</span><span id="import_json_string-441"><a href="#import_json_string-441"><span class="linenos">441</span></a><span class="sd">    ----------</span>
+</span><span id="import_json_string-442"><a href="#import_json_string-442"><span class="linenos">442</span></a><span class="sd">    json_string : str</span>
+</span><span id="import_json_string-443"><a href="#import_json_string-443"><span class="linenos">443</span></a><span class="sd">        json string containing the data.</span>
+</span><span id="import_json_string-444"><a href="#import_json_string-444"><span class="linenos">444</span></a><span class="sd">    verbose : bool</span>
+</span><span id="import_json_string-445"><a href="#import_json_string-445"><span class="linenos">445</span></a><span class="sd">        Print additional information that was written to the file.</span>
+</span><span id="import_json_string-446"><a href="#import_json_string-446"><span class="linenos">446</span></a><span class="sd">    full_output : bool</span>
+</span><span id="import_json_string-447"><a href="#import_json_string-447"><span class="linenos">447</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="import_json_string-448"><a href="#import_json_string-448"><span class="linenos">448</span></a><span class="sd">        If False, only the data is returned.</span>
+</span><span id="import_json_string-449"><a href="#import_json_string-449"><span class="linenos">449</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="import_json_string-450"><a href="#import_json_string-450"><span class="linenos">450</span></a>
+</span><span id="import_json_string-451"><a href="#import_json_string-451"><span class="linenos">451</span></a>    <span class="k">return</span> <span class="n">_parse_json_dict</span><span class="p">(</span><span class="n">json</span><span class="o">.</span><span class="n">loads</span><span class="p">(</span><span class="n">json_string</span><span class="p">),</span> <span class="n">verbose</span><span class="p">,</span> <span class="n">full_output</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Reconstruct a list of Obs or structures containing Obs from a json string.</p>
 
@@ -1118,50 +1119,50 @@ If False, only the data is returned.</li>
 
                 </section>
                 <section id="load_json">
-                            <div class="attr function"><a class="headerlink" href="#load_json">#&nbsp;&nbsp</a>
+                            <input id="load_json-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">load_json</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">fname</span>, </span><span class="param"><span class="n">verbose</span><span class="o">=</span><span class="kc">True</span>, </span><span class="param"><span class="n">gz</span><span class="o">=</span><span class="kc">True</span>, </span><span class="param"><span class="n">full_output</span><span class="o">=</span><span class="kc">False</span></span>)</span>
+
+                <label class="view-source-button" for="load_json-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">load_json</span><span class="signature">(fname, verbose=True, gz=True, full_output=False)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="load_json-453"><a href="#load_json-453"><span class="linenos">453</span></a><span class="k">def</span> <span class="nf">load_json</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="load_json-454"><a href="#load_json-454"><span class="linenos">454</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs or structures containing Obs from a .json(.gz) file.</span>
-</span><span id="load_json-455"><a href="#load_json-455"><span class="linenos">455</span></a>
-</span><span id="load_json-456"><a href="#load_json-456"><span class="linenos">456</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
-</span><span id="load_json-457"><a href="#load_json-457"><span class="linenos">457</span></a><span class="sd">    If the list contains only one element, it is unpacked from the list.</span>
-</span><span id="load_json-458"><a href="#load_json-458"><span class="linenos">458</span></a>
-</span><span id="load_json-459"><a href="#load_json-459"><span class="linenos">459</span></a><span class="sd">    Parameters</span>
-</span><span id="load_json-460"><a href="#load_json-460"><span class="linenos">460</span></a><span class="sd">    ----------</span>
-</span><span id="load_json-461"><a href="#load_json-461"><span class="linenos">461</span></a><span class="sd">    fname : str</span>
-</span><span id="load_json-462"><a href="#load_json-462"><span class="linenos">462</span></a><span class="sd">        Filename of the input file.</span>
-</span><span id="load_json-463"><a href="#load_json-463"><span class="linenos">463</span></a><span class="sd">    verbose : bool</span>
-</span><span id="load_json-464"><a href="#load_json-464"><span class="linenos">464</span></a><span class="sd">        Print additional information that was written to the file.</span>
-</span><span id="load_json-465"><a href="#load_json-465"><span class="linenos">465</span></a><span class="sd">    gz : bool</span>
-</span><span id="load_json-466"><a href="#load_json-466"><span class="linenos">466</span></a><span class="sd">        If True, assumes that data is gzipped. If False, assumes JSON file.</span>
-</span><span id="load_json-467"><a href="#load_json-467"><span class="linenos">467</span></a><span class="sd">    full_output : bool</span>
-</span><span id="load_json-468"><a href="#load_json-468"><span class="linenos">468</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="load_json-469"><a href="#load_json-469"><span class="linenos">469</span></a><span class="sd">        If False, only the data is returned.</span>
-</span><span id="load_json-470"><a href="#load_json-470"><span class="linenos">470</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="load_json-471"><a href="#load_json-471"><span class="linenos">471</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.json&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="load_json-472"><a href="#load_json-472"><span class="linenos">472</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.json&#39;</span>
-</span><span id="load_json-473"><a href="#load_json-473"><span class="linenos">473</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
-</span><span id="load_json-474"><a href="#load_json-474"><span class="linenos">474</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="load_json-475"><a href="#load_json-475"><span class="linenos">475</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
-</span><span id="load_json-476"><a href="#load_json-476"><span class="linenos">476</span></a>        <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
-</span><span id="load_json-477"><a href="#load_json-477"><span class="linenos">477</span></a>            <span class="n">d</span> <span class="o">=</span> <span class="n">json</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">fin</span><span class="p">)</span>
-</span><span id="load_json-478"><a href="#load_json-478"><span class="linenos">478</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="load_json-479"><a href="#load_json-479"><span class="linenos">479</span></a>        <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
-</span><span id="load_json-480"><a href="#load_json-480"><span class="linenos">480</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!&quot;</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
-</span><span id="load_json-481"><a href="#load_json-481"><span class="linenos">481</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
-</span><span id="load_json-482"><a href="#load_json-482"><span class="linenos">482</span></a>            <span class="n">d</span> <span class="o">=</span> <span class="n">json</span><span class="o">.</span><span class="n">loads</span><span class="p">(</span><span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">())</span>
-</span><span id="load_json-483"><a href="#load_json-483"><span class="linenos">483</span></a>
-</span><span id="load_json-484"><a href="#load_json-484"><span class="linenos">484</span></a>    <span class="k">return</span> <span class="n">_parse_json_dict</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">verbose</span><span class="p">,</span> <span class="n">full_output</span><span class="p">)</span>
+    <a class="headerlink" href="#load_json"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="load_json-454"><a href="#load_json-454"><span class="linenos">454</span></a><span class="k">def</span> <span class="nf">load_json</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="load_json-455"><a href="#load_json-455"><span class="linenos">455</span></a>    <span class="sd">&quot;&quot;&quot;Import a list of Obs or structures containing Obs from a .json(.gz) file.</span>
+</span><span id="load_json-456"><a href="#load_json-456"><span class="linenos">456</span></a>
+</span><span id="load_json-457"><a href="#load_json-457"><span class="linenos">457</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
+</span><span id="load_json-458"><a href="#load_json-458"><span class="linenos">458</span></a><span class="sd">    If the list contains only one element, it is unpacked from the list.</span>
+</span><span id="load_json-459"><a href="#load_json-459"><span class="linenos">459</span></a>
+</span><span id="load_json-460"><a href="#load_json-460"><span class="linenos">460</span></a><span class="sd">    Parameters</span>
+</span><span id="load_json-461"><a href="#load_json-461"><span class="linenos">461</span></a><span class="sd">    ----------</span>
+</span><span id="load_json-462"><a href="#load_json-462"><span class="linenos">462</span></a><span class="sd">    fname : str</span>
+</span><span id="load_json-463"><a href="#load_json-463"><span class="linenos">463</span></a><span class="sd">        Filename of the input file.</span>
+</span><span id="load_json-464"><a href="#load_json-464"><span class="linenos">464</span></a><span class="sd">    verbose : bool</span>
+</span><span id="load_json-465"><a href="#load_json-465"><span class="linenos">465</span></a><span class="sd">        Print additional information that was written to the file.</span>
+</span><span id="load_json-466"><a href="#load_json-466"><span class="linenos">466</span></a><span class="sd">    gz : bool</span>
+</span><span id="load_json-467"><a href="#load_json-467"><span class="linenos">467</span></a><span class="sd">        If True, assumes that data is gzipped. If False, assumes JSON file.</span>
+</span><span id="load_json-468"><a href="#load_json-468"><span class="linenos">468</span></a><span class="sd">    full_output : bool</span>
+</span><span id="load_json-469"><a href="#load_json-469"><span class="linenos">469</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="load_json-470"><a href="#load_json-470"><span class="linenos">470</span></a><span class="sd">        If False, only the data is returned.</span>
+</span><span id="load_json-471"><a href="#load_json-471"><span class="linenos">471</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="load_json-472"><a href="#load_json-472"><span class="linenos">472</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.json&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="load_json-473"><a href="#load_json-473"><span class="linenos">473</span></a>        <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.json&#39;</span>
+</span><span id="load_json-474"><a href="#load_json-474"><span class="linenos">474</span></a>    <span class="k">if</span> <span class="n">gz</span><span class="p">:</span>
+</span><span id="load_json-475"><a href="#load_json-475"><span class="linenos">475</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="load_json-476"><a href="#load_json-476"><span class="linenos">476</span></a>            <span class="n">fname</span> <span class="o">+=</span> <span class="s1">&#39;.gz&#39;</span>
+</span><span id="load_json-477"><a href="#load_json-477"><span class="linenos">477</span></a>        <span class="k">with</span> <span class="n">gzip</span><span class="o">.</span><span class="n">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+</span><span id="load_json-478"><a href="#load_json-478"><span class="linenos">478</span></a>            <span class="n">d</span> <span class="o">=</span> <span class="n">json</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">fin</span><span class="p">)</span>
+</span><span id="load_json-479"><a href="#load_json-479"><span class="linenos">479</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="load_json-480"><a href="#load_json-480"><span class="linenos">480</span></a>        <span class="k">if</span> <span class="n">fname</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="s1">&#39;.gz&#39;</span><span class="p">):</span>
+</span><span id="load_json-481"><a href="#load_json-481"><span class="linenos">481</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Trying to read from </span><span class="si">%s</span><span class="s2"> without unzipping!&quot;</span> <span class="o">%</span> <span class="n">fname</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
+</span><span id="load_json-482"><a href="#load_json-482"><span class="linenos">482</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">encoding</span><span class="o">=</span><span class="s1">&#39;utf-8&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+</span><span id="load_json-483"><a href="#load_json-483"><span class="linenos">483</span></a>            <span class="n">d</span> <span class="o">=</span> <span class="n">json</span><span class="o">.</span><span class="n">loads</span><span class="p">(</span><span class="n">fin</span><span class="o">.</span><span class="n">read</span><span class="p">())</span>
+</span><span id="load_json-484"><a href="#load_json-484"><span class="linenos">484</span></a>
+</span><span id="load_json-485"><a href="#load_json-485"><span class="linenos">485</span></a>    <span class="k">return</span> <span class="n">_parse_json_dict</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">verbose</span><span class="p">,</span> <span class="n">full_output</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Import a list of Obs or structures containing Obs from a .json(.gz) file.</p>
 
@@ -1186,52 +1187,52 @@ If False, only the data is returned.</li>
 
                 </section>
                 <section id="dump_dict_to_json">
-                            <div class="attr function"><a class="headerlink" href="#dump_dict_to_json">#&nbsp;&nbsp</a>
+                            <input id="dump_dict_to_json-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">dump_dict_to_json</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">od</span>, </span><span class="param"><span class="n">fname</span>, </span><span class="param"><span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span>, </span><span class="param"><span class="n">indent</span><span class="o">=</span><span class="mi">1</span>, </span><span class="param"><span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span>, </span><span class="param"><span class="n">gz</span><span class="o">=</span><span class="kc">True</span></span>)</span>
+
+                <label class="view-source-button" for="dump_dict_to_json-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">dump_dict_to_json</span><span class="signature">(od, fname, description=&#39;&#39;, indent=1, reps=&#39;DICTOBS&#39;, gz=True)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="dump_dict_to_json-567"><a href="#dump_dict_to_json-567"><span class="linenos">567</span></a><span class="k">def</span> <span class="nf">dump_dict_to_json</span><span class="p">(</span><span class="n">od</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="dump_dict_to_json-568"><a href="#dump_dict_to_json-568"><span class="linenos">568</span></a>    <span class="sd">&quot;&quot;&quot;Export a dict of Obs or structures containing Obs to a .json(.gz) file</span>
-</span><span id="dump_dict_to_json-569"><a href="#dump_dict_to_json-569"><span class="linenos">569</span></a>
-</span><span id="dump_dict_to_json-570"><a href="#dump_dict_to_json-570"><span class="linenos">570</span></a><span class="sd">    Parameters</span>
-</span><span id="dump_dict_to_json-571"><a href="#dump_dict_to_json-571"><span class="linenos">571</span></a><span class="sd">    ----------</span>
-</span><span id="dump_dict_to_json-572"><a href="#dump_dict_to_json-572"><span class="linenos">572</span></a><span class="sd">    od : dict</span>
-</span><span id="dump_dict_to_json-573"><a href="#dump_dict_to_json-573"><span class="linenos">573</span></a><span class="sd">        Dict of JSON valid structures and objects that will be exported.</span>
-</span><span id="dump_dict_to_json-574"><a href="#dump_dict_to_json-574"><span class="linenos">574</span></a><span class="sd">        At the moment, these objects can be either of: Obs, list, numpy.ndarray, Corr.</span>
-</span><span id="dump_dict_to_json-575"><a href="#dump_dict_to_json-575"><span class="linenos">575</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
-</span><span id="dump_dict_to_json-576"><a href="#dump_dict_to_json-576"><span class="linenos">576</span></a><span class="sd">    fname : str</span>
-</span><span id="dump_dict_to_json-577"><a href="#dump_dict_to_json-577"><span class="linenos">577</span></a><span class="sd">        Filename of the output file.</span>
-</span><span id="dump_dict_to_json-578"><a href="#dump_dict_to_json-578"><span class="linenos">578</span></a><span class="sd">    description : str</span>
-</span><span id="dump_dict_to_json-579"><a href="#dump_dict_to_json-579"><span class="linenos">579</span></a><span class="sd">        Optional string that describes the contents of the json file.</span>
-</span><span id="dump_dict_to_json-580"><a href="#dump_dict_to_json-580"><span class="linenos">580</span></a><span class="sd">    indent : int</span>
-</span><span id="dump_dict_to_json-581"><a href="#dump_dict_to_json-581"><span class="linenos">581</span></a><span class="sd">        Specify the indentation level of the json file. None or 0 is permissible and</span>
-</span><span id="dump_dict_to_json-582"><a href="#dump_dict_to_json-582"><span class="linenos">582</span></a><span class="sd">        saves disk space.</span>
-</span><span id="dump_dict_to_json-583"><a href="#dump_dict_to_json-583"><span class="linenos">583</span></a><span class="sd">    reps : str</span>
-</span><span id="dump_dict_to_json-584"><a href="#dump_dict_to_json-584"><span class="linenos">584</span></a><span class="sd">        Specify the structure of the placeholder in exported dict to be reps[0-9]+.</span>
-</span><span id="dump_dict_to_json-585"><a href="#dump_dict_to_json-585"><span class="linenos">585</span></a><span class="sd">    gz : bool</span>
-</span><span id="dump_dict_to_json-586"><a href="#dump_dict_to_json-586"><span class="linenos">586</span></a><span class="sd">        If True, the output is a gzipped json. If False, the output is a json file.</span>
-</span><span id="dump_dict_to_json-587"><a href="#dump_dict_to_json-587"><span class="linenos">587</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="dump_dict_to_json-588"><a href="#dump_dict_to_json-588"><span class="linenos">588</span></a>
-</span><span id="dump_dict_to_json-589"><a href="#dump_dict_to_json-589"><span class="linenos">589</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">od</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
-</span><span id="dump_dict_to_json-590"><a href="#dump_dict_to_json-590"><span class="linenos">590</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;od has to be a dictionary. Did you want to use dump_to_json?&#39;</span><span class="p">)</span>
-</span><span id="dump_dict_to_json-591"><a href="#dump_dict_to_json-591"><span class="linenos">591</span></a>
-</span><span id="dump_dict_to_json-592"><a href="#dump_dict_to_json-592"><span class="linenos">592</span></a>    <span class="n">infostring</span> <span class="o">=</span> <span class="p">(</span><span class="s1">&#39;This JSON file contains a python dictionary that has been parsed to a list of structures. &#39;</span>
-</span><span id="dump_dict_to_json-593"><a href="#dump_dict_to_json-593"><span class="linenos">593</span></a>                  <span class="s1">&#39;OBSDICT contains the dictionary, where Obs or other structures have been replaced by &#39;</span>
-</span><span id="dump_dict_to_json-594"><a href="#dump_dict_to_json-594"><span class="linenos">594</span></a>                  <span class="s1">&#39;&#39;</span> <span class="o">+</span> <span class="n">reps</span> <span class="o">+</span> <span class="s1">&#39;[0-9]+. The field description contains the additional description of this JSON file. &#39;</span>
-</span><span id="dump_dict_to_json-595"><a href="#dump_dict_to_json-595"><span class="linenos">595</span></a>                  <span class="s1">&#39;This file may be parsed to a dict with the pyerrors routine load_json_dict.&#39;</span><span class="p">)</span>
-</span><span id="dump_dict_to_json-596"><a href="#dump_dict_to_json-596"><span class="linenos">596</span></a>
-</span><span id="dump_dict_to_json-597"><a href="#dump_dict_to_json-597"><span class="linenos">597</span></a>    <span class="n">desc_dict</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;INFO&#39;</span><span class="p">:</span> <span class="n">infostring</span><span class="p">,</span> <span class="s1">&#39;OBSDICT&#39;</span><span class="p">:</span> <span class="p">{},</span> <span class="s1">&#39;description&#39;</span><span class="p">:</span> <span class="n">description</span><span class="p">}</span>
-</span><span id="dump_dict_to_json-598"><a href="#dump_dict_to_json-598"><span class="linenos">598</span></a>    <span class="n">ol</span><span class="p">,</span> <span class="n">desc_dict</span><span class="p">[</span><span class="s1">&#39;OBSDICT&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">_ol_from_dict</span><span class="p">(</span><span class="n">od</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="n">reps</span><span class="p">)</span>
-</span><span id="dump_dict_to_json-599"><a href="#dump_dict_to_json-599"><span class="linenos">599</span></a>
-</span><span id="dump_dict_to_json-600"><a href="#dump_dict_to_json-600"><span class="linenos">600</span></a>    <span class="n">dump_to_json</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="n">desc_dict</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="n">indent</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="n">gz</span><span class="p">)</span>
+    <a class="headerlink" href="#dump_dict_to_json"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="dump_dict_to_json-568"><a href="#dump_dict_to_json-568"><span class="linenos">568</span></a><span class="k">def</span> <span class="nf">dump_dict_to_json</span><span class="p">(</span><span class="n">od</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="dump_dict_to_json-569"><a href="#dump_dict_to_json-569"><span class="linenos">569</span></a>    <span class="sd">&quot;&quot;&quot;Export a dict of Obs or structures containing Obs to a .json(.gz) file</span>
+</span><span id="dump_dict_to_json-570"><a href="#dump_dict_to_json-570"><span class="linenos">570</span></a>
+</span><span id="dump_dict_to_json-571"><a href="#dump_dict_to_json-571"><span class="linenos">571</span></a><span class="sd">    Parameters</span>
+</span><span id="dump_dict_to_json-572"><a href="#dump_dict_to_json-572"><span class="linenos">572</span></a><span class="sd">    ----------</span>
+</span><span id="dump_dict_to_json-573"><a href="#dump_dict_to_json-573"><span class="linenos">573</span></a><span class="sd">    od : dict</span>
+</span><span id="dump_dict_to_json-574"><a href="#dump_dict_to_json-574"><span class="linenos">574</span></a><span class="sd">        Dict of JSON valid structures and objects that will be exported.</span>
+</span><span id="dump_dict_to_json-575"><a href="#dump_dict_to_json-575"><span class="linenos">575</span></a><span class="sd">        At the moment, these objects can be either of: Obs, list, numpy.ndarray, Corr.</span>
+</span><span id="dump_dict_to_json-576"><a href="#dump_dict_to_json-576"><span class="linenos">576</span></a><span class="sd">        All Obs inside a structure have to be defined on the same set of configurations.</span>
+</span><span id="dump_dict_to_json-577"><a href="#dump_dict_to_json-577"><span class="linenos">577</span></a><span class="sd">    fname : str</span>
+</span><span id="dump_dict_to_json-578"><a href="#dump_dict_to_json-578"><span class="linenos">578</span></a><span class="sd">        Filename of the output file.</span>
+</span><span id="dump_dict_to_json-579"><a href="#dump_dict_to_json-579"><span class="linenos">579</span></a><span class="sd">    description : str</span>
+</span><span id="dump_dict_to_json-580"><a href="#dump_dict_to_json-580"><span class="linenos">580</span></a><span class="sd">        Optional string that describes the contents of the json file.</span>
+</span><span id="dump_dict_to_json-581"><a href="#dump_dict_to_json-581"><span class="linenos">581</span></a><span class="sd">    indent : int</span>
+</span><span id="dump_dict_to_json-582"><a href="#dump_dict_to_json-582"><span class="linenos">582</span></a><span class="sd">        Specify the indentation level of the json file. None or 0 is permissible and</span>
+</span><span id="dump_dict_to_json-583"><a href="#dump_dict_to_json-583"><span class="linenos">583</span></a><span class="sd">        saves disk space.</span>
+</span><span id="dump_dict_to_json-584"><a href="#dump_dict_to_json-584"><span class="linenos">584</span></a><span class="sd">    reps : str</span>
+</span><span id="dump_dict_to_json-585"><a href="#dump_dict_to_json-585"><span class="linenos">585</span></a><span class="sd">        Specify the structure of the placeholder in exported dict to be reps[0-9]+.</span>
+</span><span id="dump_dict_to_json-586"><a href="#dump_dict_to_json-586"><span class="linenos">586</span></a><span class="sd">    gz : bool</span>
+</span><span id="dump_dict_to_json-587"><a href="#dump_dict_to_json-587"><span class="linenos">587</span></a><span class="sd">        If True, the output is a gzipped json. If False, the output is a json file.</span>
+</span><span id="dump_dict_to_json-588"><a href="#dump_dict_to_json-588"><span class="linenos">588</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="dump_dict_to_json-589"><a href="#dump_dict_to_json-589"><span class="linenos">589</span></a>
+</span><span id="dump_dict_to_json-590"><a href="#dump_dict_to_json-590"><span class="linenos">590</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">od</span><span class="p">,</span> <span class="nb">dict</span><span class="p">):</span>
+</span><span id="dump_dict_to_json-591"><a href="#dump_dict_to_json-591"><span class="linenos">591</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;od has to be a dictionary. Did you want to use dump_to_json?&#39;</span><span class="p">)</span>
+</span><span id="dump_dict_to_json-592"><a href="#dump_dict_to_json-592"><span class="linenos">592</span></a>
+</span><span id="dump_dict_to_json-593"><a href="#dump_dict_to_json-593"><span class="linenos">593</span></a>    <span class="n">infostring</span> <span class="o">=</span> <span class="p">(</span><span class="s1">&#39;This JSON file contains a python dictionary that has been parsed to a list of structures. &#39;</span>
+</span><span id="dump_dict_to_json-594"><a href="#dump_dict_to_json-594"><span class="linenos">594</span></a>                  <span class="s1">&#39;OBSDICT contains the dictionary, where Obs or other structures have been replaced by &#39;</span>
+</span><span id="dump_dict_to_json-595"><a href="#dump_dict_to_json-595"><span class="linenos">595</span></a>                  <span class="s1">&#39;&#39;</span> <span class="o">+</span> <span class="n">reps</span> <span class="o">+</span> <span class="s1">&#39;[0-9]+. The field description contains the additional description of this JSON file. &#39;</span>
+</span><span id="dump_dict_to_json-596"><a href="#dump_dict_to_json-596"><span class="linenos">596</span></a>                  <span class="s1">&#39;This file may be parsed to a dict with the pyerrors routine load_json_dict.&#39;</span><span class="p">)</span>
+</span><span id="dump_dict_to_json-597"><a href="#dump_dict_to_json-597"><span class="linenos">597</span></a>
+</span><span id="dump_dict_to_json-598"><a href="#dump_dict_to_json-598"><span class="linenos">598</span></a>    <span class="n">desc_dict</span> <span class="o">=</span> <span class="p">{</span><span class="s1">&#39;INFO&#39;</span><span class="p">:</span> <span class="n">infostring</span><span class="p">,</span> <span class="s1">&#39;OBSDICT&#39;</span><span class="p">:</span> <span class="p">{},</span> <span class="s1">&#39;description&#39;</span><span class="p">:</span> <span class="n">description</span><span class="p">}</span>
+</span><span id="dump_dict_to_json-599"><a href="#dump_dict_to_json-599"><span class="linenos">599</span></a>    <span class="n">ol</span><span class="p">,</span> <span class="n">desc_dict</span><span class="p">[</span><span class="s1">&#39;OBSDICT&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">_ol_from_dict</span><span class="p">(</span><span class="n">od</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="n">reps</span><span class="p">)</span>
+</span><span id="dump_dict_to_json-600"><a href="#dump_dict_to_json-600"><span class="linenos">600</span></a>
+</span><span id="dump_dict_to_json-601"><a href="#dump_dict_to_json-601"><span class="linenos">601</span></a>    <span class="n">dump_to_json</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">fname</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="n">desc_dict</span><span class="p">,</span> <span class="n">indent</span><span class="o">=</span><span class="n">indent</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="n">gz</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Export a dict of Obs or structures containing Obs to a .json(.gz) file</p>
 
@@ -1259,49 +1260,49 @@ If True, the output is a gzipped json. If False, the output is a json file.</li>
 
                 </section>
                 <section id="load_json_dict">
-                            <div class="attr function"><a class="headerlink" href="#load_json_dict">#&nbsp;&nbsp</a>
+                            <input id="load_json_dict-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">load_json_dict</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">fname</span>, </span><span class="param"><span class="n">verbose</span><span class="o">=</span><span class="kc">True</span>, </span><span class="param"><span class="n">gz</span><span class="o">=</span><span class="kc">True</span>, </span><span class="param"><span class="n">full_output</span><span class="o">=</span><span class="kc">False</span>, </span><span class="param"><span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span></span>)</span>
+
+                <label class="view-source-button" for="load_json_dict-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">load_json_dict</span><span class="signature">(fname, verbose=True, gz=True, full_output=False, reps=&#39;DICTOBS&#39;)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="load_json_dict-666"><a href="#load_json_dict-666"><span class="linenos">666</span></a><span class="k">def</span> <span class="nf">load_json_dict</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span><span class="p">):</span>
-</span><span id="load_json_dict-667"><a href="#load_json_dict-667"><span class="linenos">667</span></a>    <span class="sd">&quot;&quot;&quot;Import a dict of Obs or structures containing Obs from a .json(.gz) file.</span>
-</span><span id="load_json_dict-668"><a href="#load_json_dict-668"><span class="linenos">668</span></a>
-</span><span id="load_json_dict-669"><a href="#load_json_dict-669"><span class="linenos">669</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
-</span><span id="load_json_dict-670"><a href="#load_json_dict-670"><span class="linenos">670</span></a>
-</span><span id="load_json_dict-671"><a href="#load_json_dict-671"><span class="linenos">671</span></a><span class="sd">    Parameters</span>
-</span><span id="load_json_dict-672"><a href="#load_json_dict-672"><span class="linenos">672</span></a><span class="sd">    ----------</span>
-</span><span id="load_json_dict-673"><a href="#load_json_dict-673"><span class="linenos">673</span></a><span class="sd">    fname : str</span>
-</span><span id="load_json_dict-674"><a href="#load_json_dict-674"><span class="linenos">674</span></a><span class="sd">        Filename of the input file.</span>
-</span><span id="load_json_dict-675"><a href="#load_json_dict-675"><span class="linenos">675</span></a><span class="sd">    verbose : bool</span>
-</span><span id="load_json_dict-676"><a href="#load_json_dict-676"><span class="linenos">676</span></a><span class="sd">        Print additional information that was written to the file.</span>
-</span><span id="load_json_dict-677"><a href="#load_json_dict-677"><span class="linenos">677</span></a><span class="sd">    gz : bool</span>
-</span><span id="load_json_dict-678"><a href="#load_json_dict-678"><span class="linenos">678</span></a><span class="sd">        If True, assumes that data is gzipped. If False, assumes JSON file.</span>
-</span><span id="load_json_dict-679"><a href="#load_json_dict-679"><span class="linenos">679</span></a><span class="sd">    full_output : bool</span>
-</span><span id="load_json_dict-680"><a href="#load_json_dict-680"><span class="linenos">680</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
-</span><span id="load_json_dict-681"><a href="#load_json_dict-681"><span class="linenos">681</span></a><span class="sd">        If False, only the data is returned.</span>
-</span><span id="load_json_dict-682"><a href="#load_json_dict-682"><span class="linenos">682</span></a><span class="sd">    reps : str</span>
-</span><span id="load_json_dict-683"><a href="#load_json_dict-683"><span class="linenos">683</span></a><span class="sd">        Specify the structure of the placeholder in imported dict to be reps[0-9]+.</span>
-</span><span id="load_json_dict-684"><a href="#load_json_dict-684"><span class="linenos">684</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="load_json_dict-685"><a href="#load_json_dict-685"><span class="linenos">685</span></a>    <span class="n">indata</span> <span class="o">=</span> <span class="n">load_json</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="n">verbose</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="n">gz</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="load_json_dict-686"><a href="#load_json_dict-686"><span class="linenos">686</span></a>    <span class="n">description</span> <span class="o">=</span> <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">][</span><span class="s1">&#39;description&#39;</span><span class="p">]</span>
-</span><span id="load_json_dict-687"><a href="#load_json_dict-687"><span class="linenos">687</span></a>    <span class="n">indict</span> <span class="o">=</span> <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">][</span><span class="s1">&#39;OBSDICT&#39;</span><span class="p">]</span>
-</span><span id="load_json_dict-688"><a href="#load_json_dict-688"><span class="linenos">688</span></a>    <span class="n">ol</span> <span class="o">=</span> <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span>
-</span><span id="load_json_dict-689"><a href="#load_json_dict-689"><span class="linenos">689</span></a>    <span class="n">od</span> <span class="o">=</span> <span class="n">_od_from_list_and_dict</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">indict</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="n">reps</span><span class="p">)</span>
-</span><span id="load_json_dict-690"><a href="#load_json_dict-690"><span class="linenos">690</span></a>
-</span><span id="load_json_dict-691"><a href="#load_json_dict-691"><span class="linenos">691</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
-</span><span id="load_json_dict-692"><a href="#load_json_dict-692"><span class="linenos">692</span></a>        <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">description</span>
-</span><span id="load_json_dict-693"><a href="#load_json_dict-693"><span class="linenos">693</span></a>        <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">od</span>
-</span><span id="load_json_dict-694"><a href="#load_json_dict-694"><span class="linenos">694</span></a>        <span class="k">return</span> <span class="n">indata</span>
-</span><span id="load_json_dict-695"><a href="#load_json_dict-695"><span class="linenos">695</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="load_json_dict-696"><a href="#load_json_dict-696"><span class="linenos">696</span></a>        <span class="k">return</span> <span class="n">od</span>
+    <a class="headerlink" href="#load_json_dict"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="load_json_dict-667"><a href="#load_json_dict-667"><span class="linenos">667</span></a><span class="k">def</span> <span class="nf">load_json_dict</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="s1">&#39;DICTOBS&#39;</span><span class="p">):</span>
+</span><span id="load_json_dict-668"><a href="#load_json_dict-668"><span class="linenos">668</span></a>    <span class="sd">&quot;&quot;&quot;Import a dict of Obs or structures containing Obs from a .json(.gz) file.</span>
+</span><span id="load_json_dict-669"><a href="#load_json_dict-669"><span class="linenos">669</span></a>
+</span><span id="load_json_dict-670"><a href="#load_json_dict-670"><span class="linenos">670</span></a><span class="sd">    The following structures are supported: Obs, list, numpy.ndarray, Corr</span>
+</span><span id="load_json_dict-671"><a href="#load_json_dict-671"><span class="linenos">671</span></a>
+</span><span id="load_json_dict-672"><a href="#load_json_dict-672"><span class="linenos">672</span></a><span class="sd">    Parameters</span>
+</span><span id="load_json_dict-673"><a href="#load_json_dict-673"><span class="linenos">673</span></a><span class="sd">    ----------</span>
+</span><span id="load_json_dict-674"><a href="#load_json_dict-674"><span class="linenos">674</span></a><span class="sd">    fname : str</span>
+</span><span id="load_json_dict-675"><a href="#load_json_dict-675"><span class="linenos">675</span></a><span class="sd">        Filename of the input file.</span>
+</span><span id="load_json_dict-676"><a href="#load_json_dict-676"><span class="linenos">676</span></a><span class="sd">    verbose : bool</span>
+</span><span id="load_json_dict-677"><a href="#load_json_dict-677"><span class="linenos">677</span></a><span class="sd">        Print additional information that was written to the file.</span>
+</span><span id="load_json_dict-678"><a href="#load_json_dict-678"><span class="linenos">678</span></a><span class="sd">    gz : bool</span>
+</span><span id="load_json_dict-679"><a href="#load_json_dict-679"><span class="linenos">679</span></a><span class="sd">        If True, assumes that data is gzipped. If False, assumes JSON file.</span>
+</span><span id="load_json_dict-680"><a href="#load_json_dict-680"><span class="linenos">680</span></a><span class="sd">    full_output : bool</span>
+</span><span id="load_json_dict-681"><a href="#load_json_dict-681"><span class="linenos">681</span></a><span class="sd">        If True, a dict containing auxiliary information and the data is returned.</span>
+</span><span id="load_json_dict-682"><a href="#load_json_dict-682"><span class="linenos">682</span></a><span class="sd">        If False, only the data is returned.</span>
+</span><span id="load_json_dict-683"><a href="#load_json_dict-683"><span class="linenos">683</span></a><span class="sd">    reps : str</span>
+</span><span id="load_json_dict-684"><a href="#load_json_dict-684"><span class="linenos">684</span></a><span class="sd">        Specify the structure of the placeholder in imported dict to be reps[0-9]+.</span>
+</span><span id="load_json_dict-685"><a href="#load_json_dict-685"><span class="linenos">685</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="load_json_dict-686"><a href="#load_json_dict-686"><span class="linenos">686</span></a>    <span class="n">indata</span> <span class="o">=</span> <span class="n">load_json</span><span class="p">(</span><span class="n">fname</span><span class="p">,</span> <span class="n">verbose</span><span class="o">=</span><span class="n">verbose</span><span class="p">,</span> <span class="n">gz</span><span class="o">=</span><span class="n">gz</span><span class="p">,</span> <span class="n">full_output</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="load_json_dict-687"><a href="#load_json_dict-687"><span class="linenos">687</span></a>    <span class="n">description</span> <span class="o">=</span> <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">][</span><span class="s1">&#39;description&#39;</span><span class="p">]</span>
+</span><span id="load_json_dict-688"><a href="#load_json_dict-688"><span class="linenos">688</span></a>    <span class="n">indict</span> <span class="o">=</span> <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">][</span><span class="s1">&#39;OBSDICT&#39;</span><span class="p">]</span>
+</span><span id="load_json_dict-689"><a href="#load_json_dict-689"><span class="linenos">689</span></a>    <span class="n">ol</span> <span class="o">=</span> <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span>
+</span><span id="load_json_dict-690"><a href="#load_json_dict-690"><span class="linenos">690</span></a>    <span class="n">od</span> <span class="o">=</span> <span class="n">_od_from_list_and_dict</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">indict</span><span class="p">,</span> <span class="n">reps</span><span class="o">=</span><span class="n">reps</span><span class="p">)</span>
+</span><span id="load_json_dict-691"><a href="#load_json_dict-691"><span class="linenos">691</span></a>
+</span><span id="load_json_dict-692"><a href="#load_json_dict-692"><span class="linenos">692</span></a>    <span class="k">if</span> <span class="n">full_output</span><span class="p">:</span>
+</span><span id="load_json_dict-693"><a href="#load_json_dict-693"><span class="linenos">693</span></a>        <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;description&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">description</span>
+</span><span id="load_json_dict-694"><a href="#load_json_dict-694"><span class="linenos">694</span></a>        <span class="n">indata</span><span class="p">[</span><span class="s1">&#39;obsdata&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="n">od</span>
+</span><span id="load_json_dict-695"><a href="#load_json_dict-695"><span class="linenos">695</span></a>        <span class="k">return</span> <span class="n">indata</span>
+</span><span id="load_json_dict-696"><a href="#load_json_dict-696"><span class="linenos">696</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="load_json_dict-697"><a href="#load_json_dict-697"><span class="linenos">697</span></a>        <span class="k">return</span> <span class="n">od</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Import a dict of Obs or structures containing Obs from a .json(.gz) file.</p>
 
diff --git a/docs/pyerrors/input/misc.html b/docs/pyerrors/input/misc.html
index cb5429ad..7d65a20e 100644
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+++ b/docs/pyerrors/input/misc.html
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@@ -67,274 +67,275 @@
 <a href="./../../pyerrors.html">pyerrors</a><wbr>.<a href="./../input.html">input</a><wbr>.misc    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">  0</span></a><span class="kn">import</span> <span class="nn">os</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">fnmatch</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">re</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">struct</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>  <span class="c1"># Thinly-wrapped numpy</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a>
+                        <input id="misc-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="misc-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">os</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">fnmatch</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">re</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">struct</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>  <span class="c1"># Thinly-wrapped numpy</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
 </span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="k">def</span> <span class="nf">read_pbp</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a>    <span class="sd">&quot;&quot;&quot;Read pbp format from given folder structure. Returns a list of length nrw</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a>
-</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="sd">    Parameters</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd">    ----------</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd">    r_start : list</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">        list which contains the first config to be read for each replicum</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">    r_stop : list</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">        list which contains the last config to be read for each replicum</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a>
-</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>    <span class="n">extract_nfct</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a>
-</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>    <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>        <span class="k">break</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>
-</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>
-</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>    <span class="c1"># Exclude files with different names</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>    <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.dat&#39;</span><span class="p">):</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>            <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>    <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>
-</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>        <span class="c1"># Adjust Configuration numbering to python index</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="o">-</span> <span class="mi">1</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>
-</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>
-</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>    <span class="nb">print</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;Read &lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">,</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>
-</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>    <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>    <span class="k">if</span> <span class="s1">&#39;print_err&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>        <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>        <span class="nb">print</span><span class="p">()</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>
-</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>
-</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>    <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>        <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>
-</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>  <span class="c1"># number of reweighting factors</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>                <span class="n">nrw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>                <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>                    <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>                <span class="k">if</span> <span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]:</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: different number of factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>
-</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>                <span class="n">tmp_array</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>
-</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>            <span class="c1"># This block is necessary for openQCD1.6 ms1 files</span>
-</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>            <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>            <span class="k">if</span> <span class="n">extract_nfct</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nfct: &#39;</span><span class="p">,</span> <span class="n">nfct</span><span class="p">)</span>  <span class="c1"># Hasenbusch factor, 1 for rat reweighting</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>
-</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>            <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>                <span class="n">nsrc</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>
-</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>            <span class="c1"># body</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>            <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">:</span>
-</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>                    <span class="k">break</span>
-</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>                <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>                    <span class="n">config_no</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>                    <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
-</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>                    <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nfct</span><span class="p">[</span><span class="n">i</span><span class="p">]):</span>
-</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>                        <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="k">def</span> <span class="nf">read_pbp</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a>    <span class="sd">&quot;&quot;&quot;Read pbp format from given folder structure. Returns a list of length nrw</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a>
+</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd">    Parameters</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd">    ----------</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">    r_start : list</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">        list which contains the first config to be read for each replicum</span>
+</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">    r_stop : list</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">        list which contains the last config to be read for each replicum</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>
+</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a>    <span class="n">extract_nfct</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a>
+</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>    <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
+</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>        <span class="k">break</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>
+</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>
+</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>    <span class="c1"># Exclude files with different names</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>    <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.dat&#39;</span><span class="p">):</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>            <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>    <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>
+</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>        <span class="c1"># Adjust Configuration numbering to python index</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="o">-</span> <span class="mi">1</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>
+</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>
+</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>    <span class="nb">print</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;Read &lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">,</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>
+</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>    <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>    <span class="k">if</span> <span class="s1">&#39;print_err&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>        <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>        <span class="nb">print</span><span class="p">()</span>
+</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>
+</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>
+</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>    <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>        <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>
+</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>  <span class="c1"># number of reweighting factors</span>
+</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>                <span class="n">nrw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>                <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>                    <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>                <span class="k">if</span> <span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]:</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: different number of factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>
+</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>                <span class="n">tmp_array</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>
+</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>            <span class="c1"># This block is necessary for openQCD1.6 ms1 files</span>
+</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>            <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>            <span class="k">if</span> <span class="n">extract_nfct</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nfct: &#39;</span><span class="p">,</span> <span class="n">nfct</span><span class="p">)</span>  <span class="c1"># Hasenbusch factor, 1 for rat reweighting</span>
+</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>
+</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>            <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>                <span class="n">nsrc</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>
+</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>            <span class="c1"># body</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>            <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">:</span>
+</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>                    <span class="k">break</span>
+</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>                <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>                    <span class="n">config_no</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>                    <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
+</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>                    <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nfct</span><span class="p">[</span><span class="n">i</span><span class="p">]):</span>
 </span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>                        <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
-</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>                        <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>                        <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span>
-</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>                        <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
-</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>                            <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)),</span> <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
-</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>                            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span>
-</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>                            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>                    <span class="n">tmp_array</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_nfct</span><span class="p">)</span>
-</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>
-</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>                <span class="n">deltas</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_array</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]:</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]])</span>
-</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>
-</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>    <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>    <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>        <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>        <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
-</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>        <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">nrw</span><span class="p">,</span> <span class="sa">r</span><span class="s1">&#39;&lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; with&#39;</span><span class="p">,</span> <span class="n">nsrc</span><span class="p">,</span> <span class="s1">&#39;sources&#39;</span><span class="p">)</span>
-</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">rep_names</span><span class="p">))</span>
-</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>
-</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>    <span class="k">return</span> <span class="n">result</span>
+</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>                        <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>                        <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>                        <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span>
+</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>                        <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
+</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>                            <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)),</span> <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
+</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>                            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span>
+</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>                            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>                    <span class="n">tmp_array</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_nfct</span><span class="p">)</span>
+</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>
+</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>                <span class="n">deltas</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_array</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]:</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]])</span>
+</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>
+</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>    <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>    <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>        <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>        <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
+</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>        <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">nrw</span><span class="p">,</span> <span class="sa">r</span><span class="s1">&#39;&lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; with&#39;</span><span class="p">,</span> <span class="n">nsrc</span><span class="p">,</span> <span class="s1">&#39;sources&#39;</span><span class="p">)</span>
+</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">rep_names</span><span class="p">))</span>
+</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>
+</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="read_pbp">
-                            <div class="attr function"><a class="headerlink" href="#read_pbp">#&nbsp;&nbsp</a>
+                            <input id="read_pbp-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_pbp</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">prefix</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="read_pbp-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_pbp</span><span class="signature">(path, prefix, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_pbp-9"><a href="#read_pbp-9"><span class="linenos">  9</span></a><span class="k">def</span> <span class="nf">read_pbp</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="read_pbp-10"><a href="#read_pbp-10"><span class="linenos"> 10</span></a>    <span class="sd">&quot;&quot;&quot;Read pbp format from given folder structure. Returns a list of length nrw</span>
-</span><span id="read_pbp-11"><a href="#read_pbp-11"><span class="linenos"> 11</span></a>
-</span><span id="read_pbp-12"><a href="#read_pbp-12"><span class="linenos"> 12</span></a><span class="sd">    Parameters</span>
-</span><span id="read_pbp-13"><a href="#read_pbp-13"><span class="linenos"> 13</span></a><span class="sd">    ----------</span>
-</span><span id="read_pbp-14"><a href="#read_pbp-14"><span class="linenos"> 14</span></a><span class="sd">    r_start : list</span>
-</span><span id="read_pbp-15"><a href="#read_pbp-15"><span class="linenos"> 15</span></a><span class="sd">        list which contains the first config to be read for each replicum</span>
-</span><span id="read_pbp-16"><a href="#read_pbp-16"><span class="linenos"> 16</span></a><span class="sd">    r_stop : list</span>
-</span><span id="read_pbp-17"><a href="#read_pbp-17"><span class="linenos"> 17</span></a><span class="sd">        list which contains the last config to be read for each replicum</span>
-</span><span id="read_pbp-18"><a href="#read_pbp-18"><span class="linenos"> 18</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_pbp-19"><a href="#read_pbp-19"><span class="linenos"> 19</span></a>
-</span><span id="read_pbp-20"><a href="#read_pbp-20"><span class="linenos"> 20</span></a>    <span class="n">extract_nfct</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="read_pbp-21"><a href="#read_pbp-21"><span class="linenos"> 21</span></a>
-</span><span id="read_pbp-22"><a href="#read_pbp-22"><span class="linenos"> 22</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_pbp-23"><a href="#read_pbp-23"><span class="linenos"> 23</span></a>    <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
-</span><span id="read_pbp-24"><a href="#read_pbp-24"><span class="linenos"> 24</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
-</span><span id="read_pbp-25"><a href="#read_pbp-25"><span class="linenos"> 25</span></a>        <span class="k">break</span>
-</span><span id="read_pbp-26"><a href="#read_pbp-26"><span class="linenos"> 26</span></a>
-</span><span id="read_pbp-27"><a href="#read_pbp-27"><span class="linenos"> 27</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="read_pbp-28"><a href="#read_pbp-28"><span class="linenos"> 28</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
-</span><span id="read_pbp-29"><a href="#read_pbp-29"><span class="linenos"> 29</span></a>
-</span><span id="read_pbp-30"><a href="#read_pbp-30"><span class="linenos"> 30</span></a>    <span class="c1"># Exclude files with different names</span>
-</span><span id="read_pbp-31"><a href="#read_pbp-31"><span class="linenos"> 31</span></a>    <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="read_pbp-32"><a href="#read_pbp-32"><span class="linenos"> 32</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.dat&#39;</span><span class="p">):</span>
-</span><span id="read_pbp-33"><a href="#read_pbp-33"><span class="linenos"> 33</span></a>            <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="read_pbp-34"><a href="#read_pbp-34"><span class="linenos"> 34</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_pbp-35"><a href="#read_pbp-35"><span class="linenos"> 35</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
-</span><span id="read_pbp-36"><a href="#read_pbp-36"><span class="linenos"> 36</span></a>    <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
-</span><span id="read_pbp-37"><a href="#read_pbp-37"><span class="linenos"> 37</span></a>
-</span><span id="read_pbp-38"><a href="#read_pbp-38"><span class="linenos"> 38</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_pbp-39"><a href="#read_pbp-39"><span class="linenos"> 39</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
-</span><span id="read_pbp-40"><a href="#read_pbp-40"><span class="linenos"> 40</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="read_pbp-41"><a href="#read_pbp-41"><span class="linenos"> 41</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="read_pbp-42"><a href="#read_pbp-42"><span class="linenos"> 42</span></a>        <span class="c1"># Adjust Configuration numbering to python index</span>
-</span><span id="read_pbp-43"><a href="#read_pbp-43"><span class="linenos"> 43</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="o">-</span> <span class="mi">1</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
-</span><span id="read_pbp-44"><a href="#read_pbp-44"><span class="linenos"> 44</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_pbp-45"><a href="#read_pbp-45"><span class="linenos"> 45</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
-</span><span id="read_pbp-46"><a href="#read_pbp-46"><span class="linenos"> 46</span></a>
-</span><span id="read_pbp-47"><a href="#read_pbp-47"><span class="linenos"> 47</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_pbp-48"><a href="#read_pbp-48"><span class="linenos"> 48</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
-</span><span id="read_pbp-49"><a href="#read_pbp-49"><span class="linenos"> 49</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="read_pbp-50"><a href="#read_pbp-50"><span class="linenos"> 50</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="read_pbp-51"><a href="#read_pbp-51"><span class="linenos"> 51</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_pbp-52"><a href="#read_pbp-52"><span class="linenos"> 52</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
-</span><span id="read_pbp-53"><a href="#read_pbp-53"><span class="linenos"> 53</span></a>
-</span><span id="read_pbp-54"><a href="#read_pbp-54"><span class="linenos"> 54</span></a>    <span class="nb">print</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;Read &lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">,</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="read_pbp-55"><a href="#read_pbp-55"><span class="linenos"> 55</span></a>
-</span><span id="read_pbp-56"><a href="#read_pbp-56"><span class="linenos"> 56</span></a>    <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="read_pbp-57"><a href="#read_pbp-57"><span class="linenos"> 57</span></a>    <span class="k">if</span> <span class="s1">&#39;print_err&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_pbp-58"><a href="#read_pbp-58"><span class="linenos"> 58</span></a>        <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="read_pbp-59"><a href="#read_pbp-59"><span class="linenos"> 59</span></a>        <span class="nb">print</span><span class="p">()</span>
-</span><span id="read_pbp-60"><a href="#read_pbp-60"><span class="linenos"> 60</span></a>
-</span><span id="read_pbp-61"><a href="#read_pbp-61"><span class="linenos"> 61</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_pbp-62"><a href="#read_pbp-62"><span class="linenos"> 62</span></a>
-</span><span id="read_pbp-63"><a href="#read_pbp-63"><span class="linenos"> 63</span></a>    <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
-</span><span id="read_pbp-64"><a href="#read_pbp-64"><span class="linenos"> 64</span></a>        <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_pbp-65"><a href="#read_pbp-65"><span class="linenos"> 65</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="read_pbp-66"><a href="#read_pbp-66"><span class="linenos"> 66</span></a>
-</span><span id="read_pbp-67"><a href="#read_pbp-67"><span class="linenos"> 67</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>  <span class="c1"># number of reweighting factors</span>
-</span><span id="read_pbp-68"><a href="#read_pbp-68"><span class="linenos"> 68</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_pbp-69"><a href="#read_pbp-69"><span class="linenos"> 69</span></a>                <span class="n">nrw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="read_pbp-70"><a href="#read_pbp-70"><span class="linenos"> 70</span></a>                <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_pbp-71"><a href="#read_pbp-71"><span class="linenos"> 71</span></a>                    <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="read_pbp-72"><a href="#read_pbp-72"><span class="linenos"> 72</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_pbp-73"><a href="#read_pbp-73"><span class="linenos"> 73</span></a>                <span class="k">if</span> <span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]:</span>
-</span><span id="read_pbp-74"><a href="#read_pbp-74"><span class="linenos"> 74</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: different number of factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span>
-</span><span id="read_pbp-75"><a href="#read_pbp-75"><span class="linenos"> 75</span></a>
-</span><span id="read_pbp-76"><a href="#read_pbp-76"><span class="linenos"> 76</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_pbp-77"><a href="#read_pbp-77"><span class="linenos"> 77</span></a>                <span class="n">tmp_array</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="read_pbp-78"><a href="#read_pbp-78"><span class="linenos"> 78</span></a>
-</span><span id="read_pbp-79"><a href="#read_pbp-79"><span class="linenos"> 79</span></a>            <span class="c1"># This block is necessary for openQCD1.6 ms1 files</span>
-</span><span id="read_pbp-80"><a href="#read_pbp-80"><span class="linenos"> 80</span></a>            <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_pbp-81"><a href="#read_pbp-81"><span class="linenos"> 81</span></a>            <span class="k">if</span> <span class="n">extract_nfct</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_pbp-82"><a href="#read_pbp-82"><span class="linenos"> 82</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_pbp-83"><a href="#read_pbp-83"><span class="linenos"> 83</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="read_pbp-84"><a href="#read_pbp-84"><span class="linenos"> 84</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="read_pbp-85"><a href="#read_pbp-85"><span class="linenos"> 85</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nfct: &#39;</span><span class="p">,</span> <span class="n">nfct</span><span class="p">)</span>  <span class="c1"># Hasenbusch factor, 1 for rat reweighting</span>
-</span><span id="read_pbp-86"><a href="#read_pbp-86"><span class="linenos"> 86</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_pbp-87"><a href="#read_pbp-87"><span class="linenos"> 87</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_pbp-88"><a href="#read_pbp-88"><span class="linenos"> 88</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="read_pbp-89"><a href="#read_pbp-89"><span class="linenos"> 89</span></a>
-</span><span id="read_pbp-90"><a href="#read_pbp-90"><span class="linenos"> 90</span></a>            <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_pbp-91"><a href="#read_pbp-91"><span class="linenos"> 91</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_pbp-92"><a href="#read_pbp-92"><span class="linenos"> 92</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="read_pbp-93"><a href="#read_pbp-93"><span class="linenos"> 93</span></a>                <span class="n">nsrc</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="read_pbp-94"><a href="#read_pbp-94"><span class="linenos"> 94</span></a>
-</span><span id="read_pbp-95"><a href="#read_pbp-95"><span class="linenos"> 95</span></a>            <span class="c1"># body</span>
-</span><span id="read_pbp-96"><a href="#read_pbp-96"><span class="linenos"> 96</span></a>            <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_pbp-97"><a href="#read_pbp-97"><span class="linenos"> 97</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="read_pbp-98"><a href="#read_pbp-98"><span class="linenos"> 98</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">:</span>
-</span><span id="read_pbp-99"><a href="#read_pbp-99"><span class="linenos"> 99</span></a>                    <span class="k">break</span>
-</span><span id="read_pbp-100"><a href="#read_pbp-100"><span class="linenos">100</span></a>                <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
-</span><span id="read_pbp-101"><a href="#read_pbp-101"><span class="linenos">101</span></a>                    <span class="n">config_no</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="read_pbp-102"><a href="#read_pbp-102"><span class="linenos">102</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_pbp-103"><a href="#read_pbp-103"><span class="linenos">103</span></a>                    <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
-</span><span id="read_pbp-104"><a href="#read_pbp-104"><span class="linenos">104</span></a>                    <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nfct</span><span class="p">[</span><span class="n">i</span><span class="p">]):</span>
-</span><span id="read_pbp-105"><a href="#read_pbp-105"><span class="linenos">105</span></a>                        <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+    <a class="headerlink" href="#read_pbp"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_pbp-10"><a href="#read_pbp-10"><span class="linenos"> 10</span></a><span class="k">def</span> <span class="nf">read_pbp</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="read_pbp-11"><a href="#read_pbp-11"><span class="linenos"> 11</span></a>    <span class="sd">&quot;&quot;&quot;Read pbp format from given folder structure. Returns a list of length nrw</span>
+</span><span id="read_pbp-12"><a href="#read_pbp-12"><span class="linenos"> 12</span></a>
+</span><span id="read_pbp-13"><a href="#read_pbp-13"><span class="linenos"> 13</span></a><span class="sd">    Parameters</span>
+</span><span id="read_pbp-14"><a href="#read_pbp-14"><span class="linenos"> 14</span></a><span class="sd">    ----------</span>
+</span><span id="read_pbp-15"><a href="#read_pbp-15"><span class="linenos"> 15</span></a><span class="sd">    r_start : list</span>
+</span><span id="read_pbp-16"><a href="#read_pbp-16"><span class="linenos"> 16</span></a><span class="sd">        list which contains the first config to be read for each replicum</span>
+</span><span id="read_pbp-17"><a href="#read_pbp-17"><span class="linenos"> 17</span></a><span class="sd">    r_stop : list</span>
+</span><span id="read_pbp-18"><a href="#read_pbp-18"><span class="linenos"> 18</span></a><span class="sd">        list which contains the last config to be read for each replicum</span>
+</span><span id="read_pbp-19"><a href="#read_pbp-19"><span class="linenos"> 19</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_pbp-20"><a href="#read_pbp-20"><span class="linenos"> 20</span></a>
+</span><span id="read_pbp-21"><a href="#read_pbp-21"><span class="linenos"> 21</span></a>    <span class="n">extract_nfct</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="read_pbp-22"><a href="#read_pbp-22"><span class="linenos"> 22</span></a>
+</span><span id="read_pbp-23"><a href="#read_pbp-23"><span class="linenos"> 23</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_pbp-24"><a href="#read_pbp-24"><span class="linenos"> 24</span></a>    <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
+</span><span id="read_pbp-25"><a href="#read_pbp-25"><span class="linenos"> 25</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
+</span><span id="read_pbp-26"><a href="#read_pbp-26"><span class="linenos"> 26</span></a>        <span class="k">break</span>
+</span><span id="read_pbp-27"><a href="#read_pbp-27"><span class="linenos"> 27</span></a>
+</span><span id="read_pbp-28"><a href="#read_pbp-28"><span class="linenos"> 28</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="read_pbp-29"><a href="#read_pbp-29"><span class="linenos"> 29</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
+</span><span id="read_pbp-30"><a href="#read_pbp-30"><span class="linenos"> 30</span></a>
+</span><span id="read_pbp-31"><a href="#read_pbp-31"><span class="linenos"> 31</span></a>    <span class="c1"># Exclude files with different names</span>
+</span><span id="read_pbp-32"><a href="#read_pbp-32"><span class="linenos"> 32</span></a>    <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="read_pbp-33"><a href="#read_pbp-33"><span class="linenos"> 33</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.dat&#39;</span><span class="p">):</span>
+</span><span id="read_pbp-34"><a href="#read_pbp-34"><span class="linenos"> 34</span></a>            <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="read_pbp-35"><a href="#read_pbp-35"><span class="linenos"> 35</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_pbp-36"><a href="#read_pbp-36"><span class="linenos"> 36</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
+</span><span id="read_pbp-37"><a href="#read_pbp-37"><span class="linenos"> 37</span></a>    <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
+</span><span id="read_pbp-38"><a href="#read_pbp-38"><span class="linenos"> 38</span></a>
+</span><span id="read_pbp-39"><a href="#read_pbp-39"><span class="linenos"> 39</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_pbp-40"><a href="#read_pbp-40"><span class="linenos"> 40</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
+</span><span id="read_pbp-41"><a href="#read_pbp-41"><span class="linenos"> 41</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="read_pbp-42"><a href="#read_pbp-42"><span class="linenos"> 42</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="read_pbp-43"><a href="#read_pbp-43"><span class="linenos"> 43</span></a>        <span class="c1"># Adjust Configuration numbering to python index</span>
+</span><span id="read_pbp-44"><a href="#read_pbp-44"><span class="linenos"> 44</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="o">-</span> <span class="mi">1</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
+</span><span id="read_pbp-45"><a href="#read_pbp-45"><span class="linenos"> 45</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_pbp-46"><a href="#read_pbp-46"><span class="linenos"> 46</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
+</span><span id="read_pbp-47"><a href="#read_pbp-47"><span class="linenos"> 47</span></a>
+</span><span id="read_pbp-48"><a href="#read_pbp-48"><span class="linenos"> 48</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_pbp-49"><a href="#read_pbp-49"><span class="linenos"> 49</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
+</span><span id="read_pbp-50"><a href="#read_pbp-50"><span class="linenos"> 50</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="read_pbp-51"><a href="#read_pbp-51"><span class="linenos"> 51</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="read_pbp-52"><a href="#read_pbp-52"><span class="linenos"> 52</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_pbp-53"><a href="#read_pbp-53"><span class="linenos"> 53</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
+</span><span id="read_pbp-54"><a href="#read_pbp-54"><span class="linenos"> 54</span></a>
+</span><span id="read_pbp-55"><a href="#read_pbp-55"><span class="linenos"> 55</span></a>    <span class="nb">print</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;Read &lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">,</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="read_pbp-56"><a href="#read_pbp-56"><span class="linenos"> 56</span></a>
+</span><span id="read_pbp-57"><a href="#read_pbp-57"><span class="linenos"> 57</span></a>    <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="read_pbp-58"><a href="#read_pbp-58"><span class="linenos"> 58</span></a>    <span class="k">if</span> <span class="s1">&#39;print_err&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_pbp-59"><a href="#read_pbp-59"><span class="linenos"> 59</span></a>        <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="read_pbp-60"><a href="#read_pbp-60"><span class="linenos"> 60</span></a>        <span class="nb">print</span><span class="p">()</span>
+</span><span id="read_pbp-61"><a href="#read_pbp-61"><span class="linenos"> 61</span></a>
+</span><span id="read_pbp-62"><a href="#read_pbp-62"><span class="linenos"> 62</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_pbp-63"><a href="#read_pbp-63"><span class="linenos"> 63</span></a>
+</span><span id="read_pbp-64"><a href="#read_pbp-64"><span class="linenos"> 64</span></a>    <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
+</span><span id="read_pbp-65"><a href="#read_pbp-65"><span class="linenos"> 65</span></a>        <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_pbp-66"><a href="#read_pbp-66"><span class="linenos"> 66</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="read_pbp-67"><a href="#read_pbp-67"><span class="linenos"> 67</span></a>
+</span><span id="read_pbp-68"><a href="#read_pbp-68"><span class="linenos"> 68</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>  <span class="c1"># number of reweighting factors</span>
+</span><span id="read_pbp-69"><a href="#read_pbp-69"><span class="linenos"> 69</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_pbp-70"><a href="#read_pbp-70"><span class="linenos"> 70</span></a>                <span class="n">nrw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="read_pbp-71"><a href="#read_pbp-71"><span class="linenos"> 71</span></a>                <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_pbp-72"><a href="#read_pbp-72"><span class="linenos"> 72</span></a>                    <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="read_pbp-73"><a href="#read_pbp-73"><span class="linenos"> 73</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_pbp-74"><a href="#read_pbp-74"><span class="linenos"> 74</span></a>                <span class="k">if</span> <span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]:</span>
+</span><span id="read_pbp-75"><a href="#read_pbp-75"><span class="linenos"> 75</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: different number of factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span>
+</span><span id="read_pbp-76"><a href="#read_pbp-76"><span class="linenos"> 76</span></a>
+</span><span id="read_pbp-77"><a href="#read_pbp-77"><span class="linenos"> 77</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_pbp-78"><a href="#read_pbp-78"><span class="linenos"> 78</span></a>                <span class="n">tmp_array</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="read_pbp-79"><a href="#read_pbp-79"><span class="linenos"> 79</span></a>
+</span><span id="read_pbp-80"><a href="#read_pbp-80"><span class="linenos"> 80</span></a>            <span class="c1"># This block is necessary for openQCD1.6 ms1 files</span>
+</span><span id="read_pbp-81"><a href="#read_pbp-81"><span class="linenos"> 81</span></a>            <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_pbp-82"><a href="#read_pbp-82"><span class="linenos"> 82</span></a>            <span class="k">if</span> <span class="n">extract_nfct</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_pbp-83"><a href="#read_pbp-83"><span class="linenos"> 83</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_pbp-84"><a href="#read_pbp-84"><span class="linenos"> 84</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="read_pbp-85"><a href="#read_pbp-85"><span class="linenos"> 85</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="read_pbp-86"><a href="#read_pbp-86"><span class="linenos"> 86</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nfct: &#39;</span><span class="p">,</span> <span class="n">nfct</span><span class="p">)</span>  <span class="c1"># Hasenbusch factor, 1 for rat reweighting</span>
+</span><span id="read_pbp-87"><a href="#read_pbp-87"><span class="linenos"> 87</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_pbp-88"><a href="#read_pbp-88"><span class="linenos"> 88</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_pbp-89"><a href="#read_pbp-89"><span class="linenos"> 89</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="read_pbp-90"><a href="#read_pbp-90"><span class="linenos"> 90</span></a>
+</span><span id="read_pbp-91"><a href="#read_pbp-91"><span class="linenos"> 91</span></a>            <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_pbp-92"><a href="#read_pbp-92"><span class="linenos"> 92</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_pbp-93"><a href="#read_pbp-93"><span class="linenos"> 93</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="read_pbp-94"><a href="#read_pbp-94"><span class="linenos"> 94</span></a>                <span class="n">nsrc</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="read_pbp-95"><a href="#read_pbp-95"><span class="linenos"> 95</span></a>
+</span><span id="read_pbp-96"><a href="#read_pbp-96"><span class="linenos"> 96</span></a>            <span class="c1"># body</span>
+</span><span id="read_pbp-97"><a href="#read_pbp-97"><span class="linenos"> 97</span></a>            <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_pbp-98"><a href="#read_pbp-98"><span class="linenos"> 98</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="read_pbp-99"><a href="#read_pbp-99"><span class="linenos"> 99</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">:</span>
+</span><span id="read_pbp-100"><a href="#read_pbp-100"><span class="linenos">100</span></a>                    <span class="k">break</span>
+</span><span id="read_pbp-101"><a href="#read_pbp-101"><span class="linenos">101</span></a>                <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
+</span><span id="read_pbp-102"><a href="#read_pbp-102"><span class="linenos">102</span></a>                    <span class="n">config_no</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="read_pbp-103"><a href="#read_pbp-103"><span class="linenos">103</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_pbp-104"><a href="#read_pbp-104"><span class="linenos">104</span></a>                    <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
+</span><span id="read_pbp-105"><a href="#read_pbp-105"><span class="linenos">105</span></a>                    <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nfct</span><span class="p">[</span><span class="n">i</span><span class="p">]):</span>
 </span><span id="read_pbp-106"><a href="#read_pbp-106"><span class="linenos">106</span></a>                        <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
-</span><span id="read_pbp-107"><a href="#read_pbp-107"><span class="linenos">107</span></a>                        <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="read_pbp-108"><a href="#read_pbp-108"><span class="linenos">108</span></a>                        <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span>
-</span><span id="read_pbp-109"><a href="#read_pbp-109"><span class="linenos">109</span></a>                        <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
-</span><span id="read_pbp-110"><a href="#read_pbp-110"><span class="linenos">110</span></a>                            <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)),</span> <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
-</span><span id="read_pbp-111"><a href="#read_pbp-111"><span class="linenos">111</span></a>                            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span>
-</span><span id="read_pbp-112"><a href="#read_pbp-112"><span class="linenos">112</span></a>                            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
-</span><span id="read_pbp-113"><a href="#read_pbp-113"><span class="linenos">113</span></a>                    <span class="n">tmp_array</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_nfct</span><span class="p">)</span>
-</span><span id="read_pbp-114"><a href="#read_pbp-114"><span class="linenos">114</span></a>
-</span><span id="read_pbp-115"><a href="#read_pbp-115"><span class="linenos">115</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_pbp-116"><a href="#read_pbp-116"><span class="linenos">116</span></a>                <span class="n">deltas</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_array</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]:</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]])</span>
-</span><span id="read_pbp-117"><a href="#read_pbp-117"><span class="linenos">117</span></a>
-</span><span id="read_pbp-118"><a href="#read_pbp-118"><span class="linenos">118</span></a>    <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_pbp-119"><a href="#read_pbp-119"><span class="linenos">119</span></a>    <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="read_pbp-120"><a href="#read_pbp-120"><span class="linenos">120</span></a>        <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="read_pbp-121"><a href="#read_pbp-121"><span class="linenos">121</span></a>        <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
-</span><span id="read_pbp-122"><a href="#read_pbp-122"><span class="linenos">122</span></a>        <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="read_pbp-123"><a href="#read_pbp-123"><span class="linenos">123</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">nrw</span><span class="p">,</span> <span class="sa">r</span><span class="s1">&#39;&lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; with&#39;</span><span class="p">,</span> <span class="n">nsrc</span><span class="p">,</span> <span class="s1">&#39;sources&#39;</span><span class="p">)</span>
-</span><span id="read_pbp-124"><a href="#read_pbp-124"><span class="linenos">124</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_pbp-125"><a href="#read_pbp-125"><span class="linenos">125</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_pbp-126"><a href="#read_pbp-126"><span class="linenos">126</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">rep_names</span><span class="p">))</span>
-</span><span id="read_pbp-127"><a href="#read_pbp-127"><span class="linenos">127</span></a>
-</span><span id="read_pbp-128"><a href="#read_pbp-128"><span class="linenos">128</span></a>    <span class="k">return</span> <span class="n">result</span>
+</span><span id="read_pbp-107"><a href="#read_pbp-107"><span class="linenos">107</span></a>                        <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+</span><span id="read_pbp-108"><a href="#read_pbp-108"><span class="linenos">108</span></a>                        <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="read_pbp-109"><a href="#read_pbp-109"><span class="linenos">109</span></a>                        <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span>
+</span><span id="read_pbp-110"><a href="#read_pbp-110"><span class="linenos">110</span></a>                        <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
+</span><span id="read_pbp-111"><a href="#read_pbp-111"><span class="linenos">111</span></a>                            <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)),</span> <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
+</span><span id="read_pbp-112"><a href="#read_pbp-112"><span class="linenos">112</span></a>                            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span>
+</span><span id="read_pbp-113"><a href="#read_pbp-113"><span class="linenos">113</span></a>                            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
+</span><span id="read_pbp-114"><a href="#read_pbp-114"><span class="linenos">114</span></a>                    <span class="n">tmp_array</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_nfct</span><span class="p">)</span>
+</span><span id="read_pbp-115"><a href="#read_pbp-115"><span class="linenos">115</span></a>
+</span><span id="read_pbp-116"><a href="#read_pbp-116"><span class="linenos">116</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_pbp-117"><a href="#read_pbp-117"><span class="linenos">117</span></a>                <span class="n">deltas</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_array</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]:</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]])</span>
+</span><span id="read_pbp-118"><a href="#read_pbp-118"><span class="linenos">118</span></a>
+</span><span id="read_pbp-119"><a href="#read_pbp-119"><span class="linenos">119</span></a>    <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_pbp-120"><a href="#read_pbp-120"><span class="linenos">120</span></a>    <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="read_pbp-121"><a href="#read_pbp-121"><span class="linenos">121</span></a>        <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="read_pbp-122"><a href="#read_pbp-122"><span class="linenos">122</span></a>        <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
+</span><span id="read_pbp-123"><a href="#read_pbp-123"><span class="linenos">123</span></a>        <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="read_pbp-124"><a href="#read_pbp-124"><span class="linenos">124</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">nrw</span><span class="p">,</span> <span class="sa">r</span><span class="s1">&#39;&lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; with&#39;</span><span class="p">,</span> <span class="n">nsrc</span><span class="p">,</span> <span class="s1">&#39;sources&#39;</span><span class="p">)</span>
+</span><span id="read_pbp-125"><a href="#read_pbp-125"><span class="linenos">125</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_pbp-126"><a href="#read_pbp-126"><span class="linenos">126</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_pbp-127"><a href="#read_pbp-127"><span class="linenos">127</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">rep_names</span><span class="p">))</span>
+</span><span id="read_pbp-128"><a href="#read_pbp-128"><span class="linenos">128</span></a>
+</span><span id="read_pbp-129"><a href="#read_pbp-129"><span class="linenos">129</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Read pbp format from given folder structure. Returns a list of length nrw</p>
 
diff --git a/docs/pyerrors/input/openQCD.html b/docs/pyerrors/input/openQCD.html
index e0d3cecb..991e80fd 100644
--- a/docs/pyerrors/input/openQCD.html
+++ b/docs/pyerrors/input/openQCD.html
@@ -3,14 +3,14 @@
 <head>
     <meta charset="utf-8">
     <meta name="viewport" content="width=device-width, initial-scale=1">
-    <meta name="generator" content="pdoc 11.2.0"/>
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     <title>pyerrors.input.openQCD API documentation</title>
 
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@@ -79,1096 +79,1097 @@
 <a href="./../../pyerrors.html">pyerrors</a><wbr>.<a href="./../input.html">input</a><wbr>.openQCD    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">  0</span></a><span class="kn">import</span> <span class="nn">os</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">fnmatch</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">re</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">struct</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">warnings</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>  <span class="c1"># Thinly-wrapped numpy</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="k">as</span> <span class="nn">plt</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="kn">from</span> <span class="nn">matplotlib</span> <span class="kn">import</span> <span class="n">gridspec</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="kn">from</span> <span class="nn">..fits</span> <span class="kn">import</span> <span class="n">fit_lin</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a>
+                        <input id="openQCD-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="openQCD-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">os</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">fnmatch</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">re</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">struct</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">import</span> <span class="nn">warnings</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>  <span class="c1"># Thinly-wrapped numpy</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a><span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="k">as</span> <span class="nn">plt</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="kn">from</span> <span class="nn">matplotlib</span> <span class="kn">import</span> <span class="n">gridspec</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="kn">from</span> <span class="nn">..fits</span> <span class="kn">import</span> <span class="n">fit_lin</span>
 </span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a>
-</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="k">def</span> <span class="nf">read_rwms</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s1">&#39;2.0&#39;</span><span class="p">,</span> <span class="n">names</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a>    <span class="sd">&quot;&quot;&quot;Read rwms format from given folder structure. Returns a list of length nrw</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a>
-</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">    Parameters</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">    ----------</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">    path : str</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd">        path that contains the data files</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd">    prefix : str</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">        all files in path that start with prefix are considered as input files.</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">        May be used together postfix to consider only special file endings.</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd">        Prefix is ignored, if the keyword &#39;files&#39; is used.</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd">    version : str</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd">        version of openQCD, default 2.0</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd">    names : list</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a><span class="sd">        list of names that is assigned to the data according according</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a><span class="sd">        to the order in the file list. Use careful, if you do not provide file names!</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd">    r_start : list</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd">        list which contains the first config to be read for each replicum</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd">    r_stop : list</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a><span class="sd">        list which contains the last config to be read for each replicum</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a><span class="sd">    r_step : int</span>
-</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a><span class="sd">        integer that defines a fixed step size between two measurements (in units of configs)</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a><span class="sd">        If not given, r_step=1 is assumed.</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a><span class="sd">    postfix : str</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a><span class="sd">        postfix of the file to read, e.g. &#39;.ms1&#39; for openQCD-files</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a><span class="sd">    files : list</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a><span class="sd">        list which contains the filenames to be read. No automatic detection of</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a><span class="sd">        files performed if given.</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a><span class="sd">    print_err : bool</span>
-</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a><span class="sd">        Print additional information that is useful for debugging.</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>    <span class="n">known_oqcd_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;1.4&#39;</span><span class="p">,</span> <span class="s1">&#39;1.6&#39;</span><span class="p">,</span> <span class="s1">&#39;2.0&#39;</span><span class="p">]</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">version</span> <span class="ow">in</span> <span class="n">known_oqcd_versions</span><span class="p">):</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown openQCD version defined!&#39;</span><span class="p">)</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Working with openQCD version &quot;</span> <span class="o">+</span> <span class="n">version</span><span class="p">)</span>
-</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>    <span class="k">if</span> <span class="s1">&#39;postfix&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;postfix&#39;</span><span class="p">)</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>    <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
-</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>        <span class="k">break</span>
-</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>
-</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
-</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>    <span class="k">if</span> <span class="s1">&#39;files&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>        <span class="n">ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;files&#39;</span><span class="p">)</span>
-</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>        <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*&#39;</span> <span class="o">+</span> <span class="n">postfix</span> <span class="o">+</span> <span class="s1">&#39;.dat&#39;</span><span class="p">):</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>                <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
-</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>    <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>
-</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>
-</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>
-</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>    <span class="k">if</span> <span class="s1">&#39;r_step&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_step&#39;</span><span class="p">)</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>
-</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Read reweighting factors from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>          <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">,</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>
-</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>    <span class="k">if</span> <span class="n">names</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>        <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>            <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>            <span class="n">suffixes</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;.dat&quot;</span><span class="p">,</span> <span class="s2">&quot;.rwms&quot;</span><span class="p">,</span> <span class="s2">&quot;.ms1&quot;</span><span class="p">]</span>
-</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>            <span class="k">for</span> <span class="n">suffix</span> <span class="ow">in</span> <span class="n">suffixes</span><span class="p">:</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>                <span class="k">if</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="n">suffix</span><span class="p">):</span>
-</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>                    <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">suffix</span><span class="p">)]</span>
-</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>            <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>            <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="n">names</span>
-</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>
-</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>    <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>    <span class="k">if</span> <span class="s1">&#39;print_err&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>        <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>        <span class="nb">print</span><span class="p">()</span>
-</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>
-</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>
-</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>    <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>    <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>    <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>
-</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>    <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
-</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>        <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>
-</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>  <span class="c1"># number of reweighting factors</span>
-</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>                <span class="n">nrw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>                <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">:</span>
-</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>                    <span class="n">nrw</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">nrw</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>                <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>                    <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>                <span class="k">if</span> <span class="p">((</span><span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">and</span> <span class="p">(</span><span class="ow">not</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">))</span> <span class="ow">or</span> <span class="p">(</span><span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mi">2</span> <span class="ow">and</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">)):</span>
-</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: different number of reweighting factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span>
-</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>
-</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>                <span class="n">tmp_array</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>
-</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>            <span class="c1"># This block is necessary for openQCD1.6 and openQCD2.0 ms1 files</span>
-</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>            <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>            <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;1.6&#39;</span><span class="p">,</span> <span class="s1">&#39;2.0&#39;</span><span class="p">]:</span>
-</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>
-</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>            <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>                <span class="n">nsrc</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>            <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">:</span>
-</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">))[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;something is wrong!&#39;</span><span class="p">)</span>
-</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>
-</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>            <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>            <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">:</span>
-</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>                    <span class="k">break</span>
-</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>                <span class="n">config_no</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>                <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">config_no</span><span class="p">)</span>
-</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>                    <span class="k">if</span><span class="p">(</span><span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">):</span>
-</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>                        <span class="n">tmpd</span> <span class="o">=</span> <span class="n">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">)</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a>
+</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="k">def</span> <span class="nf">read_rwms</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s1">&#39;2.0&#39;</span><span class="p">,</span> <span class="n">names</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a>    <span class="sd">&quot;&quot;&quot;Read rwms format from given folder structure. Returns a list of length nrw</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a>
+</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">    Parameters</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">    ----------</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd">    path : str</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd">        path that contains the data files</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">    prefix : str</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">        all files in path that start with prefix are considered as input files.</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd">        May be used together postfix to consider only special file endings.</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd">        Prefix is ignored, if the keyword &#39;files&#39; is used.</span>
+</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd">    version : str</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd">        version of openQCD, default 2.0</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a><span class="sd">    names : list</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a><span class="sd">        list of names that is assigned to the data according according</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd">        to the order in the file list. Use careful, if you do not provide file names!</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd">    r_start : list</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd">        list which contains the first config to be read for each replicum</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a><span class="sd">    r_stop : list</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a><span class="sd">        list which contains the last config to be read for each replicum</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a><span class="sd">    r_step : int</span>
+</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a><span class="sd">        integer that defines a fixed step size between two measurements (in units of configs)</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a><span class="sd">        If not given, r_step=1 is assumed.</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a><span class="sd">    postfix : str</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a><span class="sd">        postfix of the file to read, e.g. &#39;.ms1&#39; for openQCD-files</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a><span class="sd">    files : list</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a><span class="sd">        list which contains the filenames to be read. No automatic detection of</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a><span class="sd">        files performed if given.</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a><span class="sd">    print_err : bool</span>
+</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a><span class="sd">        Print additional information that is useful for debugging.</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>    <span class="n">known_oqcd_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;1.4&#39;</span><span class="p">,</span> <span class="s1">&#39;1.6&#39;</span><span class="p">,</span> <span class="s1">&#39;2.0&#39;</span><span class="p">]</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">version</span> <span class="ow">in</span> <span class="n">known_oqcd_versions</span><span class="p">):</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown openQCD version defined!&#39;</span><span class="p">)</span>
+</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Working with openQCD version &quot;</span> <span class="o">+</span> <span class="n">version</span><span class="p">)</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>    <span class="k">if</span> <span class="s1">&#39;postfix&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;postfix&#39;</span><span class="p">)</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>    <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
+</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>        <span class="k">break</span>
+</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>
+</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
+</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>    <span class="k">if</span> <span class="s1">&#39;files&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>        <span class="n">ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;files&#39;</span><span class="p">)</span>
+</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>        <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*&#39;</span> <span class="o">+</span> <span class="n">postfix</span> <span class="o">+</span> <span class="s1">&#39;.dat&#39;</span><span class="p">):</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>                <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
+</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>    <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
+</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>
+</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>
+</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>
+</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>    <span class="k">if</span> <span class="s1">&#39;r_step&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_step&#39;</span><span class="p">)</span>
+</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>
+</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Read reweighting factors from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>          <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">,</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>
+</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>    <span class="k">if</span> <span class="n">names</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>        <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>            <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>            <span class="n">suffixes</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;.dat&quot;</span><span class="p">,</span> <span class="s2">&quot;.rwms&quot;</span><span class="p">,</span> <span class="s2">&quot;.ms1&quot;</span><span class="p">]</span>
+</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>            <span class="k">for</span> <span class="n">suffix</span> <span class="ow">in</span> <span class="n">suffixes</span><span class="p">:</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>                <span class="k">if</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="n">suffix</span><span class="p">):</span>
+</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>                    <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">suffix</span><span class="p">)]</span>
+</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>            <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>            <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="n">names</span>
+</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>
+</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>    <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>    <span class="k">if</span> <span class="s1">&#39;print_err&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>        <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>        <span class="nb">print</span><span class="p">()</span>
+</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>
+</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>
+</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>    <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>    <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>    <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>
+</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>    <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
+</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>        <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>
+</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>  <span class="c1"># number of reweighting factors</span>
+</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>                <span class="n">nrw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>                <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">:</span>
+</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>                    <span class="n">nrw</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">nrw</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>                <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>                    <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>                <span class="k">if</span> <span class="p">((</span><span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">and</span> <span class="p">(</span><span class="ow">not</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">))</span> <span class="ow">or</span> <span class="p">(</span><span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mi">2</span> <span class="ow">and</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">)):</span>
+</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: different number of reweighting factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span>
+</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>
+</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>                <span class="n">tmp_array</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>
+</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>            <span class="c1"># This block is necessary for openQCD1.6 and openQCD2.0 ms1 files</span>
+</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>            <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>            <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;1.6&#39;</span><span class="p">,</span> <span class="s1">&#39;2.0&#39;</span><span class="p">]:</span>
+</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>
+</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>            <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>                <span class="n">nsrc</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>            <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">:</span>
+</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">))[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;something is wrong!&#39;</span><span class="p">)</span>
+</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>
+</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>            <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>            <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">:</span>
+</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>                    <span class="k">break</span>
+</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>                <span class="n">config_no</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>                <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">config_no</span><span class="p">)</span>
+</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>                    <span class="k">if</span><span class="p">(</span><span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">):</span>
 </span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a>                        <span class="n">tmpd</span> <span class="o">=</span> <span class="n">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">)</span>
-</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>                        <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">tmpd</span><span class="p">[</span><span class="s1">&#39;arr&#39;</span><span class="p">]</span>
-</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>                        <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
-</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">tmpd</span><span class="p">[</span><span class="s1">&#39;n&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]):</span>
-</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>                            <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">])))</span>
-</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>                            <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
-</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span>
-</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">]))),</span>
-</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">]))))</span>
-</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span>
-</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">])))</span>
-</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
-</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>                    <span class="k">elif</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;1.6&#39;</span> <span class="ow">or</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;1.4&#39;</span><span class="p">:</span>
-</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>                        <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
-</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nfct</span><span class="p">[</span><span class="n">i</span><span class="p">]):</span>
-</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>                            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>                        <span class="n">tmpd</span> <span class="o">=</span> <span class="n">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">)</span>
+</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>                        <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">tmpd</span><span class="p">[</span><span class="s1">&#39;arr&#39;</span><span class="p">]</span>
+</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>                        <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
+</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">tmpd</span><span class="p">[</span><span class="s1">&#39;n&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]):</span>
+</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>                            <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">])))</span>
+</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>                            <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
+</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span>
+</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">]))),</span>
+</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">]))))</span>
+</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span>
+</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">])))</span>
+</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
+</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>                    <span class="k">elif</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;1.6&#39;</span> <span class="ow">or</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;1.4&#39;</span><span class="p">:</span>
+</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>                        <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
+</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nfct</span><span class="p">[</span><span class="n">i</span><span class="p">]):</span>
 </span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>                            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
-</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>                            <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>                            <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
-</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>                            <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
-</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span>
-</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))),</span>
-</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))))</span>
-</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
-</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
-</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>                    <span class="n">tmp_array</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_nfct</span><span class="p">)</span>
-</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>
-</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>            <span class="n">diffmeas</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>            <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">//</span> <span class="n">diffmeas</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>            <span class="k">if</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">diffmeas</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a>                <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config.&#39;</span><span class="p">)</span>
-</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a>                <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a>                <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>
-</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>            <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a>                <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>                    <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
-</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>                <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
-</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>                        <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>
-</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>            <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>                <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>                    <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
-</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>                <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
-</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>                        <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>
-</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>                <span class="n">deltas</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_array</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][::</span><span class="n">r_step</span><span class="p">])</span>
-</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>
-</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]):</span>
-</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Irregular spaced data in input file!&#39;</span><span class="p">,</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">])</span>
-</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>    <span class="n">stepsizes</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]</span>
-</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">step</span> <span class="ow">in</span> <span class="n">stepsizes</span><span class="p">]):</span>
-</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Stepsize between configurations is greater than one!&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">stepsizes</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>
-</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">nrw</span><span class="p">,</span> <span class="s1">&#39;reweighting factors with&#39;</span><span class="p">,</span> <span class="n">nsrc</span><span class="p">,</span> <span class="s1">&#39;sources&#39;</span><span class="p">)</span>
-</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]],</span> <span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">r_step</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">)]</span>
-</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>
-</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
-</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>    <span class="k">return</span> <span class="n">result</span>
-</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>
+</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>                            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>                            <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>                            <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
+</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>                            <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
+</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span>
+</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))),</span>
+</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))))</span>
+</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
+</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
+</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>                    <span class="n">tmp_array</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_nfct</span><span class="p">)</span>
+</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>
+</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>            <span class="n">diffmeas</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>            <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">//</span> <span class="n">diffmeas</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a>            <span class="k">if</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">diffmeas</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a>                <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config.&#39;</span><span class="p">)</span>
+</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a>                <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>                <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>
+</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a>            <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a>                <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>                    <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
+</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>                <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>                        <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>
+</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>            <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>                <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>                    <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
+</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>                <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>                        <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>
+</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>                <span class="n">deltas</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_array</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][::</span><span class="n">r_step</span><span class="p">])</span>
+</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>
+</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]):</span>
+</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Irregular spaced data in input file!&#39;</span><span class="p">,</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">])</span>
+</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>    <span class="n">stepsizes</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]</span>
+</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">step</span> <span class="ow">in</span> <span class="n">stepsizes</span><span class="p">]):</span>
+</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Stepsize between configurations is greater than one!&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">stepsizes</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>
+</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">nrw</span><span class="p">,</span> <span class="s1">&#39;reweighting factors with&#39;</span><span class="p">,</span> <span class="n">nsrc</span><span class="p">,</span> <span class="s1">&#39;sources&#39;</span><span class="p">)</span>
+</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]],</span> <span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">r_step</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">)]</span>
+</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>
+</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
+</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>
-</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a><span class="k">def</span> <span class="nf">extract_t0</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">fit_range</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>    <span class="sd">&quot;&quot;&quot;Extract t0 from given .ms.dat files. Returns t0 as Obs.</span>
-</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>
-</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a><span class="sd">    It is assumed that all boundary effects have</span>
-</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a><span class="sd">    sufficiently decayed at x0=xmin.</span>
-</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a><span class="sd">    The data around the zero crossing of t^2&lt;E&gt; - 0.3</span>
-</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a><span class="sd">    is fitted with a linear function</span>
-</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a><span class="sd">    from which the exact root is extracted.</span>
-</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a>
-</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a><span class="sd">    It is assumed that one measurement is performed for each config.</span>
-</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a><span class="sd">    If this is not the case, the resulting idl, as well as the handling</span>
-</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a><span class="sd">    of r_start, r_stop and r_step is wrong and the user has to correct</span>
-</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a><span class="sd">    this in the resulting observable.</span>
-</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a>
-</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a><span class="sd">    Parameters</span>
-</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a><span class="sd">    ----------</span>
-</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a><span class="sd">    path : str</span>
-</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a><span class="sd">        Path to .ms.dat files</span>
-</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a><span class="sd">    prefix : str</span>
-</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a><span class="sd">        Ensemble prefix</span>
-</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a><span class="sd">    dtr_read : int</span>
-</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a><span class="sd">        Determines how many trajectories should be skipped</span>
-</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a><span class="sd">        when reading the ms.dat files.</span>
-</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a><span class="sd">        Corresponds to dtr_cnfg / dtr_ms in the openQCD input file.</span>
-</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a><span class="sd">    xmin : int</span>
-</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a><span class="sd">        First timeslice where the boundary</span>
-</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a><span class="sd">        effects have sufficiently decayed.</span>
-</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a><span class="sd">    spatial_extent : int</span>
-</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a><span class="sd">        spatial extent of the lattice, required for normalization.</span>
-</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a><span class="sd">    fit_range : int</span>
-</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a><span class="sd">        Number of data points left and right of the zero</span>
-</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a><span class="sd">        crossing to be included in the linear fit. (Default: 5)</span>
-</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a><span class="sd">    r_start : list</span>
-</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a><span class="sd">        list which contains the first config to be read for each replicum.</span>
-</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a><span class="sd">    r_stop : list</span>
-</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a><span class="sd">        list which contains the last config to be read for each replicum.</span>
-</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a><span class="sd">    r_step : int</span>
-</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a><span class="sd">        integer that defines a fixed step size between two measurements (in units of configs)</span>
-</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a><span class="sd">        If not given, r_step=1 is assumed.</span>
-</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a><span class="sd">    plaquette : bool</span>
-</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a><span class="sd">        If true extract the plaquette estimate of t0 instead.</span>
-</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a><span class="sd">    names : list</span>
-</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a><span class="sd">        list of names that is assigned to the data according according</span>
-</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a><span class="sd">        to the order in the file list. Use careful, if you do not provide file names!</span>
-</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a><span class="sd">    files : list</span>
-</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a><span class="sd">        list which contains the filenames to be read. No automatic detection of</span>
-</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a><span class="sd">        files performed if given.</span>
-</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a><span class="sd">    plot_fit : bool</span>
-</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a><span class="sd">        If true, the fit for the extraction of t0 is shown together with the data.</span>
-</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a><span class="sd">    assume_thermalization : bool</span>
-</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a><span class="sd">        If True: If the first record divided by the distance between two measurements is larger than</span>
-</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a><span class="sd">        1, it is assumed that this is due to thermalization and the first measurement belongs</span>
-</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a><span class="sd">        to the first config (default).</span>
-</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a><span class="sd">        If False: The config numbers are assumed to be traj_number // difference</span>
-</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>
-</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>    <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
-</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
-</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a>        <span class="k">break</span>
-</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>
-</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
-</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a>
-</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a>    <span class="k">if</span> <span class="s1">&#39;files&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a>        <span class="n">ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;files&#39;</span><span class="p">)</span>
-</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a>        <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.ms.dat&#39;</span><span class="p">):</span>
-</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a>                <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
-</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a>    <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
-</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a>
-</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
-</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
-</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
-</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>
-</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
-</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
-</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>
-</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>    <span class="k">if</span> <span class="s1">&#39;r_step&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_step&#39;</span><span class="p">)</span>
-</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>
-</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Extract t0 from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">)</span>
-</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>
-</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>    <span class="k">if</span> <span class="s1">&#39;names&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;names&#39;</span><span class="p">)</span>
-</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>        <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>            <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>            <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
-</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>            <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>
-</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>    <span class="n">Ysum</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>
-</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>    <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>    <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>    <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>
-</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>    <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
-</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>
-</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
-</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>            <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>                <span class="n">dn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>                <span class="n">nn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>                <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>            <span class="k">elif</span> <span class="n">dn</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">or</span> <span class="n">nn</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="ow">or</span> <span class="n">tmax</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]:</span>
-</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Replica parameters do not match.&#39;</span><span class="p">)</span>
-</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>
-</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
-</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>                <span class="n">eps</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Step size:&#39;</span><span class="p">,</span> <span class="n">eps</span><span class="p">,</span> <span class="s1">&#39;, Maximal t value:&#39;</span><span class="p">,</span> <span class="n">dn</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span><span class="p">)</span> <span class="o">*</span> <span class="n">eps</span><span class="p">)</span>
-</span><span id="L-358"><a href="#L-358"><span class="linenos">358</span></a>            <span class="k">elif</span> <span class="n">eps</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]:</span>
-</span><span id="L-359"><a href="#L-359"><span class="linenos">359</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Values for eps do not match among replica.&#39;</span><span class="p">)</span>
-</span><span id="L-360"><a href="#L-360"><span class="linenos">360</span></a>
-</span><span id="L-361"><a href="#L-361"><span class="linenos">361</span></a>            <span class="n">Ysl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-362"><a href="#L-362"><span class="linenos">362</span></a>
-</span><span id="L-363"><a href="#L-363"><span class="linenos">363</span></a>            <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-364"><a href="#L-364"><span class="linenos">364</span></a>            <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-365"><a href="#L-365"><span class="linenos">365</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="L-366"><a href="#L-366"><span class="linenos">366</span></a>                <span class="k">if</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
-</span><span id="L-367"><a href="#L-367"><span class="linenos">367</span></a>                    <span class="k">break</span>
-</span><span id="L-368"><a href="#L-368"><span class="linenos">368</span></a>                <span class="n">nc</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-369"><a href="#L-369"><span class="linenos">369</span></a>                <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">nc</span><span class="p">)</span>
-</span><span id="L-370"><a href="#L-370"><span class="linenos">370</span></a>
-</span><span id="L-371"><a href="#L-371"><span class="linenos">371</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-372"><a href="#L-372"><span class="linenos">372</span></a>                <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plaquette&#39;</span><span class="p">):</span>
-</span><span id="L-373"><a href="#L-373"><span class="linenos">373</span></a>                    <span class="k">if</span> <span class="n">nc</span> <span class="o">%</span> <span class="n">dtr_read</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-374"><a href="#L-374"><span class="linenos">374</span></a>                        <span class="n">Ysl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">))</span>
-</span><span id="L-375"><a href="#L-375"><span class="linenos">375</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-376"><a href="#L-376"><span class="linenos">376</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plaquette&#39;</span><span class="p">):</span>
-</span><span id="L-377"><a href="#L-377"><span class="linenos">377</span></a>                    <span class="k">if</span> <span class="n">nc</span> <span class="o">%</span> <span class="n">dtr_read</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-378"><a href="#L-378"><span class="linenos">378</span></a>                        <span class="n">Ysl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">))</span>
-</span><span id="L-379"><a href="#L-379"><span class="linenos">379</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-380"><a href="#L-380"><span class="linenos">380</span></a>
-</span><span id="L-381"><a href="#L-381"><span class="linenos">381</span></a>        <span class="n">Ysum</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-382"><a href="#L-382"><span class="linenos">382</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Ysl</span><span class="p">):</span>
-</span><span id="L-383"><a href="#L-383"><span class="linenos">383</span></a>            <span class="n">Ysum</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="n">current</span> <span class="o">+</span> <span class="n">xmin</span><span class="p">:</span>
-</span><span id="L-384"><a href="#L-384"><span class="linenos">384</span></a>                             <span class="n">current</span> <span class="o">+</span> <span class="n">tmax</span> <span class="o">-</span> <span class="n">xmin</span><span class="p">])</span>
-</span><span id="L-385"><a href="#L-385"><span class="linenos">385</span></a>                            <span class="k">for</span> <span class="n">current</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">item</span><span class="p">),</span> <span class="n">tmax</span><span class="p">)])</span>
-</span><span id="L-386"><a href="#L-386"><span class="linenos">386</span></a>
-</span><span id="L-387"><a href="#L-387"><span class="linenos">387</span></a>        <span class="n">diffmeas</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="L-388"><a href="#L-388"><span class="linenos">388</span></a>        <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">//</span> <span class="n">diffmeas</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="L-389"><a href="#L-389"><span class="linenos">389</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;assume_thermalization&#39;</span><span class="p">,</span> <span class="kc">True</span><span class="p">)</span> <span class="ow">and</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-390"><a href="#L-390"><span class="linenos">390</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config.&#39;</span><span class="p">)</span>
-</span><span id="L-391"><a href="#L-391"><span class="linenos">391</span></a>            <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="L-392"><a href="#L-392"><span class="linenos">392</span></a>            <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="L-393"><a href="#L-393"><span class="linenos">393</span></a>
-</span><span id="L-394"><a href="#L-394"><span class="linenos">394</span></a>        <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-395"><a href="#L-395"><span class="linenos">395</span></a>            <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="L-396"><a href="#L-396"><span class="linenos">396</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-397"><a href="#L-397"><span class="linenos">397</span></a>            <span class="k">try</span><span class="p">:</span>
-</span><span id="L-398"><a href="#L-398"><span class="linenos">398</span></a>                <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
-</span><span id="L-399"><a href="#L-399"><span class="linenos">399</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
-</span><span id="L-400"><a href="#L-400"><span class="linenos">400</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="L-401"><a href="#L-401"><span class="linenos">401</span></a>                    <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="L-402"><a href="#L-402"><span class="linenos">402</span></a>
-</span><span id="L-403"><a href="#L-403"><span class="linenos">403</span></a>        <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-404"><a href="#L-404"><span class="linenos">404</span></a>            <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-405"><a href="#L-405"><span class="linenos">405</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-406"><a href="#L-406"><span class="linenos">406</span></a>            <span class="k">try</span><span class="p">:</span>
-</span><span id="L-407"><a href="#L-407"><span class="linenos">407</span></a>                <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
-</span><span id="L-408"><a href="#L-408"><span class="linenos">408</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
-</span><span id="L-409"><a href="#L-409"><span class="linenos">409</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="L-410"><a href="#L-410"><span class="linenos">410</span></a>                    <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="L-411"><a href="#L-411"><span class="linenos">411</span></a>
-</span><span id="L-412"><a href="#L-412"><span class="linenos">412</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]):</span>
-</span><span id="L-413"><a href="#L-413"><span class="linenos">413</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Irregular spaced data in input file!&#39;</span><span class="p">,</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">])</span>
-</span><span id="L-414"><a href="#L-414"><span class="linenos">414</span></a>    <span class="n">stepsizes</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]</span>
-</span><span id="L-415"><a href="#L-415"><span class="linenos">415</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">step</span> <span class="ow">in</span> <span class="n">stepsizes</span><span class="p">]):</span>
-</span><span id="L-416"><a href="#L-416"><span class="linenos">416</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Stepsize between configurations is greater than one!&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">stepsizes</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-417"><a href="#L-417"><span class="linenos">417</span></a>
-</span><span id="L-418"><a href="#L-418"><span class="linenos">418</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]],</span> <span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">r_step</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">)]</span>
-</span><span id="L-419"><a href="#L-419"><span class="linenos">419</span></a>    <span class="n">t2E_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-420"><a href="#L-420"><span class="linenos">420</span></a>    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="L-421"><a href="#L-421"><span class="linenos">421</span></a>        <span class="n">samples</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-422"><a href="#L-422"><span class="linenos">422</span></a>        <span class="k">for</span> <span class="n">nrep</span><span class="p">,</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Ysum</span><span class="p">):</span>
-</span><span id="L-423"><a href="#L-423"><span class="linenos">423</span></a>            <span class="n">samples</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-424"><a href="#L-424"><span class="linenos">424</span></a>            <span class="k">for</span> <span class="n">cnfg</span> <span class="ow">in</span> <span class="n">rep</span><span class="p">:</span>
-</span><span id="L-425"><a href="#L-425"><span class="linenos">425</span></a>                <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg</span><span class="p">[</span><span class="n">n</span><span class="p">])</span>
-</span><span id="L-426"><a href="#L-426"><span class="linenos">426</span></a>            <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][::</span><span class="n">r_step</span><span class="p">]</span>
-</span><span id="L-427"><a href="#L-427"><span class="linenos">427</span></a>        <span class="n">new_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span>
-</span><span id="L-428"><a href="#L-428"><span class="linenos">428</span></a>        <span class="n">t2E_dict</span><span class="p">[</span><span class="n">n</span> <span class="o">*</span> <span class="n">dn</span> <span class="o">*</span> <span class="n">eps</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="n">n</span> <span class="o">*</span> <span class="n">dn</span> <span class="o">*</span> <span class="n">eps</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">new_obs</span> <span class="o">/</span> <span class="p">(</span><span class="n">spatial_extent</span> <span class="o">**</span> <span class="mi">3</span><span class="p">)</span> <span class="o">-</span> <span class="mf">0.3</span>
-</span><span id="L-429"><a href="#L-429"><span class="linenos">429</span></a>
-</span><span id="L-430"><a href="#L-430"><span class="linenos">430</span></a>    <span class="n">zero_crossing</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
-</span><span id="L-431"><a href="#L-431"><span class="linenos">431</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">()])</span> <span class="o">&gt;</span> <span class="mf">0.0</span><span class="p">)</span>
-</span><span id="L-432"><a href="#L-432"><span class="linenos">432</span></a>
-</span><span id="L-433"><a href="#L-433"><span class="linenos">433</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span><span class="p">:</span>
-</span><span id="L-434"><a href="#L-434"><span class="linenos">434</span></a>                              <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span><span class="p">]</span>
-</span><span id="L-435"><a href="#L-435"><span class="linenos">435</span></a>    <span class="n">y</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span><span class="p">:</span>
-</span><span id="L-436"><a href="#L-436"><span class="linenos">436</span></a>                                <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span><span class="p">]</span>
-</span><span id="L-437"><a href="#L-437"><span class="linenos">437</span></a>    <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
-</span><span id="L-438"><a href="#L-438"><span class="linenos">438</span></a>
-</span><span id="L-439"><a href="#L-439"><span class="linenos">439</span></a>    <span class="n">fit_result</span> <span class="o">=</span> <span class="n">fit_lin</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span>
-</span><span id="L-440"><a href="#L-440"><span class="linenos">440</span></a>
-</span><span id="L-441"><a href="#L-441"><span class="linenos">441</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plot_fit&#39;</span><span class="p">):</span>
-</span><span id="L-442"><a href="#L-442"><span class="linenos">442</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="L-443"><a href="#L-443"><span class="linenos">443</span></a>        <span class="n">gs</span> <span class="o">=</span> <span class="n">gridspec</span><span class="o">.</span><span class="n">GridSpec</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">height_ratios</span><span class="o">=</span><span class="p">[</span><span class="mi">3</span><span class="p">,</span> <span class="mi">1</span><span class="p">],</span> <span class="n">wspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">)</span>
-</span><span id="L-444"><a href="#L-444"><span class="linenos">444</span></a>        <span class="n">ax0</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-445"><a href="#L-445"><span class="linenos">445</span></a>        <span class="n">xmore</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
-</span><span id="L-446"><a href="#L-446"><span class="linenos">446</span></a>        <span class="n">ymore</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
-</span><span id="L-447"><a href="#L-447"><span class="linenos">447</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">]</span>
-</span><span id="L-448"><a href="#L-448"><span class="linenos">448</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">xmore</span><span class="p">,</span> <span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">],</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;x&#39;</span><span class="p">)</span>
-</span><span id="L-449"><a href="#L-449"><span class="linenos">449</span></a>        <span class="n">xplot</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">x</span><span class="p">))</span>
-</span><span id="L-450"><a href="#L-450"><span class="linenos">450</span></a>        <span class="n">yplot</span> <span class="o">=</span> <span class="p">[</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">xi</span> <span class="k">for</span> <span class="n">xi</span> <span class="ow">in</span> <span class="n">xplot</span><span class="p">]</span>
-</span><span id="L-451"><a href="#L-451"><span class="linenos">451</span></a>        <span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">]</span>
-</span><span id="L-452"><a href="#L-452"><span class="linenos">452</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">xplot</span><span class="p">,</span> <span class="n">y1</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">],</span> <span class="n">y2</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">])</span>
-</span><span id="L-453"><a href="#L-453"><span class="linenos">453</span></a>        <span class="n">retval</span> <span class="o">=</span> <span class="p">(</span><span class="o">-</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-454"><a href="#L-454"><span class="linenos">454</span></a>        <span class="n">retval</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="L-455"><a href="#L-455"><span class="linenos">455</span></a>        <span class="n">ylim</span> <span class="o">=</span> <span class="n">ax0</span><span class="o">.</span><span class="n">get_ylim</span><span class="p">()</span>
-</span><span id="L-456"><a href="#L-456"><span class="linenos">456</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">fill_betweenx</span><span class="p">(</span><span class="n">ylim</span><span class="p">,</span> <span class="n">x1</span><span class="o">=</span><span class="n">retval</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">retval</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">x2</span><span class="o">=</span><span class="n">retval</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">retval</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;gray&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.4</span><span class="p">)</span>
-</span><span id="L-457"><a href="#L-457"><span class="linenos">457</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">(</span><span class="n">ylim</span><span class="p">)</span>
-</span><span id="L-458"><a href="#L-458"><span class="linenos">458</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$t^2 \langle E(t) \rangle - 0.3 $&#39;</span><span class="p">)</span>
-</span><span id="L-459"><a href="#L-459"><span class="linenos">459</span></a>        <span class="n">xlim</span> <span class="o">=</span> <span class="n">ax0</span><span class="o">.</span><span class="n">get_xlim</span><span class="p">()</span>
-</span><span id="L-460"><a href="#L-460"><span class="linenos">460</span></a>
-</span><span id="L-461"><a href="#L-461"><span class="linenos">461</span></a>        <span class="n">fit_res</span> <span class="o">=</span> <span class="p">[</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">xi</span> <span class="k">for</span> <span class="n">xi</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]</span>
-</span><span id="L-462"><a href="#L-462"><span class="linenos">462</span></a>        <span class="n">residuals</span> <span class="o">=</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span> <span class="o">-</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="p">])</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="L-463"><a href="#L-463"><span class="linenos">463</span></a>        <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-464"><a href="#L-464"><span class="linenos">464</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">residuals</span><span class="p">,</span> <span class="s1">&#39;ko&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">)</span>
-</span><span id="L-465"><a href="#L-465"><span class="linenos">465</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">direction</span><span class="o">=</span><span class="s1">&#39;out&#39;</span><span class="p">)</span>
-</span><span id="L-466"><a href="#L-466"><span class="linenos">466</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="s2">&quot;x&quot;</span><span class="p">,</span> <span class="n">bottom</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">labelbottom</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="L-467"><a href="#L-467"><span class="linenos">467</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
-</span><span id="L-468"><a href="#L-468"><span class="linenos">468</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">xlim</span><span class="p">,</span> <span class="o">-</span><span class="mf">1.0</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.1</span><span class="p">,</span> <span class="n">facecolor</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
-</span><span id="L-469"><a href="#L-469"><span class="linenos">469</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">(</span><span class="n">xlim</span><span class="p">)</span>
-</span><span id="L-470"><a href="#L-470"><span class="linenos">470</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="s1">&#39;Residuals&#39;</span><span class="p">)</span>
-</span><span id="L-471"><a href="#L-471"><span class="linenos">471</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$t/a^2$&#39;</span><span class="p">)</span>
-</span><span id="L-472"><a href="#L-472"><span class="linenos">472</span></a>
-</span><span id="L-473"><a href="#L-473"><span class="linenos">473</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="L-474"><a href="#L-474"><span class="linenos">474</span></a>    <span class="k">return</span> <span class="o">-</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-475"><a href="#L-475"><span class="linenos">475</span></a>
+</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>
+</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a><span class="k">def</span> <span class="nf">extract_t0</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">fit_range</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>    <span class="sd">&quot;&quot;&quot;Extract t0 from given .ms.dat files. Returns t0 as Obs.</span>
+</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a>
+</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a><span class="sd">    It is assumed that all boundary effects have</span>
+</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a><span class="sd">    sufficiently decayed at x0=xmin.</span>
+</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a><span class="sd">    The data around the zero crossing of t^2&lt;E&gt; - 0.3</span>
+</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a><span class="sd">    is fitted with a linear function</span>
+</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a><span class="sd">    from which the exact root is extracted.</span>
+</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a>
+</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a><span class="sd">    It is assumed that one measurement is performed for each config.</span>
+</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a><span class="sd">    If this is not the case, the resulting idl, as well as the handling</span>
+</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a><span class="sd">    of r_start, r_stop and r_step is wrong and the user has to correct</span>
+</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a><span class="sd">    this in the resulting observable.</span>
+</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a>
+</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a><span class="sd">    Parameters</span>
+</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a><span class="sd">    ----------</span>
+</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a><span class="sd">    path : str</span>
+</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a><span class="sd">        Path to .ms.dat files</span>
+</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a><span class="sd">    prefix : str</span>
+</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a><span class="sd">        Ensemble prefix</span>
+</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a><span class="sd">    dtr_read : int</span>
+</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a><span class="sd">        Determines how many trajectories should be skipped</span>
+</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a><span class="sd">        when reading the ms.dat files.</span>
+</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a><span class="sd">        Corresponds to dtr_cnfg / dtr_ms in the openQCD input file.</span>
+</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a><span class="sd">    xmin : int</span>
+</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a><span class="sd">        First timeslice where the boundary</span>
+</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a><span class="sd">        effects have sufficiently decayed.</span>
+</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a><span class="sd">    spatial_extent : int</span>
+</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a><span class="sd">        spatial extent of the lattice, required for normalization.</span>
+</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a><span class="sd">    fit_range : int</span>
+</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a><span class="sd">        Number of data points left and right of the zero</span>
+</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a><span class="sd">        crossing to be included in the linear fit. (Default: 5)</span>
+</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a><span class="sd">    r_start : list</span>
+</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a><span class="sd">        list which contains the first config to be read for each replicum.</span>
+</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a><span class="sd">    r_stop : list</span>
+</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a><span class="sd">        list which contains the last config to be read for each replicum.</span>
+</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a><span class="sd">    r_step : int</span>
+</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a><span class="sd">        integer that defines a fixed step size between two measurements (in units of configs)</span>
+</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a><span class="sd">        If not given, r_step=1 is assumed.</span>
+</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a><span class="sd">    plaquette : bool</span>
+</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a><span class="sd">        If true extract the plaquette estimate of t0 instead.</span>
+</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a><span class="sd">    names : list</span>
+</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a><span class="sd">        list of names that is assigned to the data according according</span>
+</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a><span class="sd">        to the order in the file list. Use careful, if you do not provide file names!</span>
+</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a><span class="sd">    files : list</span>
+</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a><span class="sd">        list which contains the filenames to be read. No automatic detection of</span>
+</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a><span class="sd">        files performed if given.</span>
+</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a><span class="sd">    plot_fit : bool</span>
+</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a><span class="sd">        If true, the fit for the extraction of t0 is shown together with the data.</span>
+</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a><span class="sd">    assume_thermalization : bool</span>
+</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a><span class="sd">        If True: If the first record divided by the distance between two measurements is larger than</span>
+</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a><span class="sd">        1, it is assumed that this is due to thermalization and the first measurement belongs</span>
+</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a><span class="sd">        to the first config (default).</span>
+</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a><span class="sd">        If False: The config numbers are assumed to be traj_number // difference</span>
+</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>
+</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a>    <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
+</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
+</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>        <span class="k">break</span>
+</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>
+</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
+</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a>
+</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a>    <span class="k">if</span> <span class="s1">&#39;files&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a>        <span class="n">ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;files&#39;</span><span class="p">)</span>
+</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a>        <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.ms.dat&#39;</span><span class="p">):</span>
+</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a>                <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
+</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a>    <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
+</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a>
+</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
+</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
+</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
+</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>
+</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
+</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
+</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>
+</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>    <span class="k">if</span> <span class="s1">&#39;r_step&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_step&#39;</span><span class="p">)</span>
+</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>
+</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Extract t0 from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">)</span>
+</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>
+</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>    <span class="k">if</span> <span class="s1">&#39;names&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;names&#39;</span><span class="p">)</span>
+</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>        <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>            <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>            <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
+</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>            <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>
+</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>    <span class="n">Ysum</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>
+</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>    <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>    <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>    <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>
+</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>    <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
+</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>
+</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
+</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>            <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>                <span class="n">dn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>                <span class="n">nn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>                <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>            <span class="k">elif</span> <span class="n">dn</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">or</span> <span class="n">nn</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="ow">or</span> <span class="n">tmax</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]:</span>
+</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Replica parameters do not match.&#39;</span><span class="p">)</span>
+</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>
+</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
+</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>                <span class="n">eps</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-358"><a href="#L-358"><span class="linenos">358</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Step size:&#39;</span><span class="p">,</span> <span class="n">eps</span><span class="p">,</span> <span class="s1">&#39;, Maximal t value:&#39;</span><span class="p">,</span> <span class="n">dn</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span><span class="p">)</span> <span class="o">*</span> <span class="n">eps</span><span class="p">)</span>
+</span><span id="L-359"><a href="#L-359"><span class="linenos">359</span></a>            <span class="k">elif</span> <span class="n">eps</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]:</span>
+</span><span id="L-360"><a href="#L-360"><span class="linenos">360</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Values for eps do not match among replica.&#39;</span><span class="p">)</span>
+</span><span id="L-361"><a href="#L-361"><span class="linenos">361</span></a>
+</span><span id="L-362"><a href="#L-362"><span class="linenos">362</span></a>            <span class="n">Ysl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-363"><a href="#L-363"><span class="linenos">363</span></a>
+</span><span id="L-364"><a href="#L-364"><span class="linenos">364</span></a>            <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-365"><a href="#L-365"><span class="linenos">365</span></a>            <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-366"><a href="#L-366"><span class="linenos">366</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="L-367"><a href="#L-367"><span class="linenos">367</span></a>                <span class="k">if</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
+</span><span id="L-368"><a href="#L-368"><span class="linenos">368</span></a>                    <span class="k">break</span>
+</span><span id="L-369"><a href="#L-369"><span class="linenos">369</span></a>                <span class="n">nc</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-370"><a href="#L-370"><span class="linenos">370</span></a>                <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">nc</span><span class="p">)</span>
+</span><span id="L-371"><a href="#L-371"><span class="linenos">371</span></a>
+</span><span id="L-372"><a href="#L-372"><span class="linenos">372</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-373"><a href="#L-373"><span class="linenos">373</span></a>                <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plaquette&#39;</span><span class="p">):</span>
+</span><span id="L-374"><a href="#L-374"><span class="linenos">374</span></a>                    <span class="k">if</span> <span class="n">nc</span> <span class="o">%</span> <span class="n">dtr_read</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-375"><a href="#L-375"><span class="linenos">375</span></a>                        <span class="n">Ysl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">))</span>
+</span><span id="L-376"><a href="#L-376"><span class="linenos">376</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-377"><a href="#L-377"><span class="linenos">377</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plaquette&#39;</span><span class="p">):</span>
+</span><span id="L-378"><a href="#L-378"><span class="linenos">378</span></a>                    <span class="k">if</span> <span class="n">nc</span> <span class="o">%</span> <span class="n">dtr_read</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-379"><a href="#L-379"><span class="linenos">379</span></a>                        <span class="n">Ysl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">))</span>
+</span><span id="L-380"><a href="#L-380"><span class="linenos">380</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-381"><a href="#L-381"><span class="linenos">381</span></a>
+</span><span id="L-382"><a href="#L-382"><span class="linenos">382</span></a>        <span class="n">Ysum</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-383"><a href="#L-383"><span class="linenos">383</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Ysl</span><span class="p">):</span>
+</span><span id="L-384"><a href="#L-384"><span class="linenos">384</span></a>            <span class="n">Ysum</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="n">current</span> <span class="o">+</span> <span class="n">xmin</span><span class="p">:</span>
+</span><span id="L-385"><a href="#L-385"><span class="linenos">385</span></a>                             <span class="n">current</span> <span class="o">+</span> <span class="n">tmax</span> <span class="o">-</span> <span class="n">xmin</span><span class="p">])</span>
+</span><span id="L-386"><a href="#L-386"><span class="linenos">386</span></a>                            <span class="k">for</span> <span class="n">current</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">item</span><span class="p">),</span> <span class="n">tmax</span><span class="p">)])</span>
+</span><span id="L-387"><a href="#L-387"><span class="linenos">387</span></a>
+</span><span id="L-388"><a href="#L-388"><span class="linenos">388</span></a>        <span class="n">diffmeas</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="L-389"><a href="#L-389"><span class="linenos">389</span></a>        <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">//</span> <span class="n">diffmeas</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="L-390"><a href="#L-390"><span class="linenos">390</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;assume_thermalization&#39;</span><span class="p">,</span> <span class="kc">True</span><span class="p">)</span> <span class="ow">and</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-391"><a href="#L-391"><span class="linenos">391</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config.&#39;</span><span class="p">)</span>
+</span><span id="L-392"><a href="#L-392"><span class="linenos">392</span></a>            <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="L-393"><a href="#L-393"><span class="linenos">393</span></a>            <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="L-394"><a href="#L-394"><span class="linenos">394</span></a>
+</span><span id="L-395"><a href="#L-395"><span class="linenos">395</span></a>        <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-396"><a href="#L-396"><span class="linenos">396</span></a>            <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="L-397"><a href="#L-397"><span class="linenos">397</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-398"><a href="#L-398"><span class="linenos">398</span></a>            <span class="k">try</span><span class="p">:</span>
+</span><span id="L-399"><a href="#L-399"><span class="linenos">399</span></a>                <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
+</span><span id="L-400"><a href="#L-400"><span class="linenos">400</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+</span><span id="L-401"><a href="#L-401"><span class="linenos">401</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="L-402"><a href="#L-402"><span class="linenos">402</span></a>                    <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="L-403"><a href="#L-403"><span class="linenos">403</span></a>
+</span><span id="L-404"><a href="#L-404"><span class="linenos">404</span></a>        <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-405"><a href="#L-405"><span class="linenos">405</span></a>            <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-406"><a href="#L-406"><span class="linenos">406</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-407"><a href="#L-407"><span class="linenos">407</span></a>            <span class="k">try</span><span class="p">:</span>
+</span><span id="L-408"><a href="#L-408"><span class="linenos">408</span></a>                <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
+</span><span id="L-409"><a href="#L-409"><span class="linenos">409</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+</span><span id="L-410"><a href="#L-410"><span class="linenos">410</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="L-411"><a href="#L-411"><span class="linenos">411</span></a>                    <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="L-412"><a href="#L-412"><span class="linenos">412</span></a>
+</span><span id="L-413"><a href="#L-413"><span class="linenos">413</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]):</span>
+</span><span id="L-414"><a href="#L-414"><span class="linenos">414</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Irregular spaced data in input file!&#39;</span><span class="p">,</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">])</span>
+</span><span id="L-415"><a href="#L-415"><span class="linenos">415</span></a>    <span class="n">stepsizes</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]</span>
+</span><span id="L-416"><a href="#L-416"><span class="linenos">416</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">step</span> <span class="ow">in</span> <span class="n">stepsizes</span><span class="p">]):</span>
+</span><span id="L-417"><a href="#L-417"><span class="linenos">417</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Stepsize between configurations is greater than one!&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">stepsizes</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-418"><a href="#L-418"><span class="linenos">418</span></a>
+</span><span id="L-419"><a href="#L-419"><span class="linenos">419</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]],</span> <span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">r_step</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">)]</span>
+</span><span id="L-420"><a href="#L-420"><span class="linenos">420</span></a>    <span class="n">t2E_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-421"><a href="#L-421"><span class="linenos">421</span></a>    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="L-422"><a href="#L-422"><span class="linenos">422</span></a>        <span class="n">samples</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-423"><a href="#L-423"><span class="linenos">423</span></a>        <span class="k">for</span> <span class="n">nrep</span><span class="p">,</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Ysum</span><span class="p">):</span>
+</span><span id="L-424"><a href="#L-424"><span class="linenos">424</span></a>            <span class="n">samples</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-425"><a href="#L-425"><span class="linenos">425</span></a>            <span class="k">for</span> <span class="n">cnfg</span> <span class="ow">in</span> <span class="n">rep</span><span class="p">:</span>
+</span><span id="L-426"><a href="#L-426"><span class="linenos">426</span></a>                <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg</span><span class="p">[</span><span class="n">n</span><span class="p">])</span>
+</span><span id="L-427"><a href="#L-427"><span class="linenos">427</span></a>            <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][::</span><span class="n">r_step</span><span class="p">]</span>
+</span><span id="L-428"><a href="#L-428"><span class="linenos">428</span></a>        <span class="n">new_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span>
+</span><span id="L-429"><a href="#L-429"><span class="linenos">429</span></a>        <span class="n">t2E_dict</span><span class="p">[</span><span class="n">n</span> <span class="o">*</span> <span class="n">dn</span> <span class="o">*</span> <span class="n">eps</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="n">n</span> <span class="o">*</span> <span class="n">dn</span> <span class="o">*</span> <span class="n">eps</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">new_obs</span> <span class="o">/</span> <span class="p">(</span><span class="n">spatial_extent</span> <span class="o">**</span> <span class="mi">3</span><span class="p">)</span> <span class="o">-</span> <span class="mf">0.3</span>
+</span><span id="L-430"><a href="#L-430"><span class="linenos">430</span></a>
+</span><span id="L-431"><a href="#L-431"><span class="linenos">431</span></a>    <span class="n">zero_crossing</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
+</span><span id="L-432"><a href="#L-432"><span class="linenos">432</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">()])</span> <span class="o">&gt;</span> <span class="mf">0.0</span><span class="p">)</span>
+</span><span id="L-433"><a href="#L-433"><span class="linenos">433</span></a>
+</span><span id="L-434"><a href="#L-434"><span class="linenos">434</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span><span class="p">:</span>
+</span><span id="L-435"><a href="#L-435"><span class="linenos">435</span></a>                              <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span><span class="p">]</span>
+</span><span id="L-436"><a href="#L-436"><span class="linenos">436</span></a>    <span class="n">y</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span><span class="p">:</span>
+</span><span id="L-437"><a href="#L-437"><span class="linenos">437</span></a>                                <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span><span class="p">]</span>
+</span><span id="L-438"><a href="#L-438"><span class="linenos">438</span></a>    <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
+</span><span id="L-439"><a href="#L-439"><span class="linenos">439</span></a>
+</span><span id="L-440"><a href="#L-440"><span class="linenos">440</span></a>    <span class="n">fit_result</span> <span class="o">=</span> <span class="n">fit_lin</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span>
+</span><span id="L-441"><a href="#L-441"><span class="linenos">441</span></a>
+</span><span id="L-442"><a href="#L-442"><span class="linenos">442</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plot_fit&#39;</span><span class="p">):</span>
+</span><span id="L-443"><a href="#L-443"><span class="linenos">443</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="L-444"><a href="#L-444"><span class="linenos">444</span></a>        <span class="n">gs</span> <span class="o">=</span> <span class="n">gridspec</span><span class="o">.</span><span class="n">GridSpec</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">height_ratios</span><span class="o">=</span><span class="p">[</span><span class="mi">3</span><span class="p">,</span> <span class="mi">1</span><span class="p">],</span> <span class="n">wspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">)</span>
+</span><span id="L-445"><a href="#L-445"><span class="linenos">445</span></a>        <span class="n">ax0</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-446"><a href="#L-446"><span class="linenos">446</span></a>        <span class="n">xmore</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
+</span><span id="L-447"><a href="#L-447"><span class="linenos">447</span></a>        <span class="n">ymore</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
+</span><span id="L-448"><a href="#L-448"><span class="linenos">448</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">]</span>
+</span><span id="L-449"><a href="#L-449"><span class="linenos">449</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">xmore</span><span class="p">,</span> <span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">],</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;x&#39;</span><span class="p">)</span>
+</span><span id="L-450"><a href="#L-450"><span class="linenos">450</span></a>        <span class="n">xplot</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">x</span><span class="p">))</span>
+</span><span id="L-451"><a href="#L-451"><span class="linenos">451</span></a>        <span class="n">yplot</span> <span class="o">=</span> <span class="p">[</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">xi</span> <span class="k">for</span> <span class="n">xi</span> <span class="ow">in</span> <span class="n">xplot</span><span class="p">]</span>
+</span><span id="L-452"><a href="#L-452"><span class="linenos">452</span></a>        <span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">]</span>
+</span><span id="L-453"><a href="#L-453"><span class="linenos">453</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">xplot</span><span class="p">,</span> <span class="n">y1</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">],</span> <span class="n">y2</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">])</span>
+</span><span id="L-454"><a href="#L-454"><span class="linenos">454</span></a>        <span class="n">retval</span> <span class="o">=</span> <span class="p">(</span><span class="o">-</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-455"><a href="#L-455"><span class="linenos">455</span></a>        <span class="n">retval</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="L-456"><a href="#L-456"><span class="linenos">456</span></a>        <span class="n">ylim</span> <span class="o">=</span> <span class="n">ax0</span><span class="o">.</span><span class="n">get_ylim</span><span class="p">()</span>
+</span><span id="L-457"><a href="#L-457"><span class="linenos">457</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">fill_betweenx</span><span class="p">(</span><span class="n">ylim</span><span class="p">,</span> <span class="n">x1</span><span class="o">=</span><span class="n">retval</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">retval</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">x2</span><span class="o">=</span><span class="n">retval</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">retval</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;gray&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.4</span><span class="p">)</span>
+</span><span id="L-458"><a href="#L-458"><span class="linenos">458</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">(</span><span class="n">ylim</span><span class="p">)</span>
+</span><span id="L-459"><a href="#L-459"><span class="linenos">459</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$t^2 \langle E(t) \rangle - 0.3 $&#39;</span><span class="p">)</span>
+</span><span id="L-460"><a href="#L-460"><span class="linenos">460</span></a>        <span class="n">xlim</span> <span class="o">=</span> <span class="n">ax0</span><span class="o">.</span><span class="n">get_xlim</span><span class="p">()</span>
+</span><span id="L-461"><a href="#L-461"><span class="linenos">461</span></a>
+</span><span id="L-462"><a href="#L-462"><span class="linenos">462</span></a>        <span class="n">fit_res</span> <span class="o">=</span> <span class="p">[</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">xi</span> <span class="k">for</span> <span class="n">xi</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]</span>
+</span><span id="L-463"><a href="#L-463"><span class="linenos">463</span></a>        <span class="n">residuals</span> <span class="o">=</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span> <span class="o">-</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="p">])</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="L-464"><a href="#L-464"><span class="linenos">464</span></a>        <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-465"><a href="#L-465"><span class="linenos">465</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">residuals</span><span class="p">,</span> <span class="s1">&#39;ko&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">)</span>
+</span><span id="L-466"><a href="#L-466"><span class="linenos">466</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">direction</span><span class="o">=</span><span class="s1">&#39;out&#39;</span><span class="p">)</span>
+</span><span id="L-467"><a href="#L-467"><span class="linenos">467</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="s2">&quot;x&quot;</span><span class="p">,</span> <span class="n">bottom</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">labelbottom</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="L-468"><a href="#L-468"><span class="linenos">468</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
+</span><span id="L-469"><a href="#L-469"><span class="linenos">469</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">xlim</span><span class="p">,</span> <span class="o">-</span><span class="mf">1.0</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.1</span><span class="p">,</span> <span class="n">facecolor</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
+</span><span id="L-470"><a href="#L-470"><span class="linenos">470</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">(</span><span class="n">xlim</span><span class="p">)</span>
+</span><span id="L-471"><a href="#L-471"><span class="linenos">471</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="s1">&#39;Residuals&#39;</span><span class="p">)</span>
+</span><span id="L-472"><a href="#L-472"><span class="linenos">472</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$t/a^2$&#39;</span><span class="p">)</span>
+</span><span id="L-473"><a href="#L-473"><span class="linenos">473</span></a>
+</span><span id="L-474"><a href="#L-474"><span class="linenos">474</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="L-475"><a href="#L-475"><span class="linenos">475</span></a>    <span class="k">return</span> <span class="o">-</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
 </span><span id="L-476"><a href="#L-476"><span class="linenos">476</span></a>
-</span><span id="L-477"><a href="#L-477"><span class="linenos">477</span></a><span class="k">def</span> <span class="nf">_parse_array_openQCD2</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">n</span><span class="p">,</span> <span class="n">size</span><span class="p">,</span> <span class="n">wa</span><span class="p">,</span> <span class="n">quadrupel</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
-</span><span id="L-478"><a href="#L-478"><span class="linenos">478</span></a>    <span class="n">arr</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-479"><a href="#L-479"><span class="linenos">479</span></a>    <span class="k">if</span> <span class="n">d</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="L-480"><a href="#L-480"><span class="linenos">480</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">n</span><span class="p">[</span><span class="mi">0</span><span class="p">]):</span>
-</span><span id="L-481"><a href="#L-481"><span class="linenos">481</span></a>            <span class="n">tmp</span> <span class="o">=</span> <span class="n">wa</span><span class="p">[</span><span class="n">i</span> <span class="o">*</span> <span class="n">n</span><span class="p">[</span><span class="mi">1</span><span class="p">]:(</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">n</span><span class="p">[</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="L-482"><a href="#L-482"><span class="linenos">482</span></a>            <span class="k">if</span> <span class="n">quadrupel</span><span class="p">:</span>
-</span><span id="L-483"><a href="#L-483"><span class="linenos">483</span></a>                <span class="n">tmp2</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-484"><a href="#L-484"><span class="linenos">484</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">tmp</span><span class="p">),</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="L-485"><a href="#L-485"><span class="linenos">485</span></a>                    <span class="n">tmp2</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="n">j</span><span class="p">])</span>
-</span><span id="L-486"><a href="#L-486"><span class="linenos">486</span></a>                <span class="n">arr</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp2</span><span class="p">)</span>
-</span><span id="L-487"><a href="#L-487"><span class="linenos">487</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-488"><a href="#L-488"><span class="linenos">488</span></a>                <span class="n">arr</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp</span><span class="p">))</span>
-</span><span id="L-489"><a href="#L-489"><span class="linenos">489</span></a>
-</span><span id="L-490"><a href="#L-490"><span class="linenos">490</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-491"><a href="#L-491"><span class="linenos">491</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Only two-dimensional arrays supported!&#39;</span><span class="p">)</span>
-</span><span id="L-492"><a href="#L-492"><span class="linenos">492</span></a>
-</span><span id="L-493"><a href="#L-493"><span class="linenos">493</span></a>    <span class="k">return</span> <span class="n">arr</span>
-</span><span id="L-494"><a href="#L-494"><span class="linenos">494</span></a>
+</span><span id="L-477"><a href="#L-477"><span class="linenos">477</span></a>
+</span><span id="L-478"><a href="#L-478"><span class="linenos">478</span></a><span class="k">def</span> <span class="nf">_parse_array_openQCD2</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">n</span><span class="p">,</span> <span class="n">size</span><span class="p">,</span> <span class="n">wa</span><span class="p">,</span> <span class="n">quadrupel</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
+</span><span id="L-479"><a href="#L-479"><span class="linenos">479</span></a>    <span class="n">arr</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-480"><a href="#L-480"><span class="linenos">480</span></a>    <span class="k">if</span> <span class="n">d</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="L-481"><a href="#L-481"><span class="linenos">481</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">n</span><span class="p">[</span><span class="mi">0</span><span class="p">]):</span>
+</span><span id="L-482"><a href="#L-482"><span class="linenos">482</span></a>            <span class="n">tmp</span> <span class="o">=</span> <span class="n">wa</span><span class="p">[</span><span class="n">i</span> <span class="o">*</span> <span class="n">n</span><span class="p">[</span><span class="mi">1</span><span class="p">]:(</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">n</span><span class="p">[</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="L-483"><a href="#L-483"><span class="linenos">483</span></a>            <span class="k">if</span> <span class="n">quadrupel</span><span class="p">:</span>
+</span><span id="L-484"><a href="#L-484"><span class="linenos">484</span></a>                <span class="n">tmp2</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-485"><a href="#L-485"><span class="linenos">485</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">tmp</span><span class="p">),</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="L-486"><a href="#L-486"><span class="linenos">486</span></a>                    <span class="n">tmp2</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="n">j</span><span class="p">])</span>
+</span><span id="L-487"><a href="#L-487"><span class="linenos">487</span></a>                <span class="n">arr</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp2</span><span class="p">)</span>
+</span><span id="L-488"><a href="#L-488"><span class="linenos">488</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-489"><a href="#L-489"><span class="linenos">489</span></a>                <span class="n">arr</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp</span><span class="p">))</span>
+</span><span id="L-490"><a href="#L-490"><span class="linenos">490</span></a>
+</span><span id="L-491"><a href="#L-491"><span class="linenos">491</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-492"><a href="#L-492"><span class="linenos">492</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Only two-dimensional arrays supported!&#39;</span><span class="p">)</span>
+</span><span id="L-493"><a href="#L-493"><span class="linenos">493</span></a>
+</span><span id="L-494"><a href="#L-494"><span class="linenos">494</span></a>    <span class="k">return</span> <span class="n">arr</span>
 </span><span id="L-495"><a href="#L-495"><span class="linenos">495</span></a>
-</span><span id="L-496"><a href="#L-496"><span class="linenos">496</span></a><span class="k">def</span> <span class="nf">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">):</span>
-</span><span id="L-497"><a href="#L-497"><span class="linenos">497</span></a>    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="L-498"><a href="#L-498"><span class="linenos">498</span></a>    <span class="n">d</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-499"><a href="#L-499"><span class="linenos">499</span></a>    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span> <span class="o">*</span> <span class="n">d</span><span class="p">)</span>
-</span><span id="L-500"><a href="#L-500"><span class="linenos">500</span></a>    <span class="n">n</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;</span><span class="si">%d</span><span class="s1">i&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">d</span><span class="p">),</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="L-501"><a href="#L-501"><span class="linenos">501</span></a>    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="L-502"><a href="#L-502"><span class="linenos">502</span></a>    <span class="n">size</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-503"><a href="#L-503"><span class="linenos">503</span></a>    <span class="k">if</span> <span class="n">size</span> <span class="o">==</span> <span class="mi">4</span><span class="p">:</span>
-</span><span id="L-504"><a href="#L-504"><span class="linenos">504</span></a>        <span class="n">types</span> <span class="o">=</span> <span class="s1">&#39;i&#39;</span>
-</span><span id="L-505"><a href="#L-505"><span class="linenos">505</span></a>    <span class="k">elif</span> <span class="n">size</span> <span class="o">==</span> <span class="mi">8</span><span class="p">:</span>
-</span><span id="L-506"><a href="#L-506"><span class="linenos">506</span></a>        <span class="n">types</span> <span class="o">=</span> <span class="s1">&#39;d&#39;</span>
-</span><span id="L-507"><a href="#L-507"><span class="linenos">507</span></a>    <span class="k">elif</span> <span class="n">size</span> <span class="o">==</span> <span class="mi">16</span><span class="p">:</span>
-</span><span id="L-508"><a href="#L-508"><span class="linenos">508</span></a>        <span class="n">types</span> <span class="o">=</span> <span class="s1">&#39;dd&#39;</span>
-</span><span id="L-509"><a href="#L-509"><span class="linenos">509</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-510"><a href="#L-510"><span class="linenos">510</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Type for size &#39;&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">size</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;&#39; not known.&quot;</span><span class="p">)</span>
-</span><span id="L-511"><a href="#L-511"><span class="linenos">511</span></a>    <span class="n">m</span> <span class="o">=</span> <span class="n">n</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-512"><a href="#L-512"><span class="linenos">512</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">d</span><span class="p">):</span>
-</span><span id="L-513"><a href="#L-513"><span class="linenos">513</span></a>        <span class="n">m</span> <span class="o">*=</span> <span class="n">n</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="L-514"><a href="#L-514"><span class="linenos">514</span></a>
-</span><span id="L-515"><a href="#L-515"><span class="linenos">515</span></a>    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="n">m</span> <span class="o">*</span> <span class="n">size</span><span class="p">)</span>
-</span><span id="L-516"><a href="#L-516"><span class="linenos">516</span></a>    <span class="n">tmp</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;</span><span class="si">%d%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">m</span><span class="p">,</span> <span class="n">types</span><span class="p">),</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="L-517"><a href="#L-517"><span class="linenos">517</span></a>
-</span><span id="L-518"><a href="#L-518"><span class="linenos">518</span></a>    <span class="n">arr</span> <span class="o">=</span> <span class="n">_parse_array_openQCD2</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">n</span><span class="p">,</span> <span class="n">size</span><span class="p">,</span> <span class="n">tmp</span><span class="p">,</span> <span class="n">quadrupel</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="L-519"><a href="#L-519"><span class="linenos">519</span></a>    <span class="k">return</span> <span class="p">{</span><span class="s1">&#39;d&#39;</span><span class="p">:</span> <span class="n">d</span><span class="p">,</span> <span class="s1">&#39;n&#39;</span><span class="p">:</span> <span class="n">n</span><span class="p">,</span> <span class="s1">&#39;size&#39;</span><span class="p">:</span> <span class="n">size</span><span class="p">,</span> <span class="s1">&#39;arr&#39;</span><span class="p">:</span> <span class="n">arr</span><span class="p">}</span>
-</span><span id="L-520"><a href="#L-520"><span class="linenos">520</span></a>
+</span><span id="L-496"><a href="#L-496"><span class="linenos">496</span></a>
+</span><span id="L-497"><a href="#L-497"><span class="linenos">497</span></a><span class="k">def</span> <span class="nf">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">):</span>
+</span><span id="L-498"><a href="#L-498"><span class="linenos">498</span></a>    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="L-499"><a href="#L-499"><span class="linenos">499</span></a>    <span class="n">d</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-500"><a href="#L-500"><span class="linenos">500</span></a>    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span> <span class="o">*</span> <span class="n">d</span><span class="p">)</span>
+</span><span id="L-501"><a href="#L-501"><span class="linenos">501</span></a>    <span class="n">n</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;</span><span class="si">%d</span><span class="s1">i&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">d</span><span class="p">),</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="L-502"><a href="#L-502"><span class="linenos">502</span></a>    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="L-503"><a href="#L-503"><span class="linenos">503</span></a>    <span class="n">size</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-504"><a href="#L-504"><span class="linenos">504</span></a>    <span class="k">if</span> <span class="n">size</span> <span class="o">==</span> <span class="mi">4</span><span class="p">:</span>
+</span><span id="L-505"><a href="#L-505"><span class="linenos">505</span></a>        <span class="n">types</span> <span class="o">=</span> <span class="s1">&#39;i&#39;</span>
+</span><span id="L-506"><a href="#L-506"><span class="linenos">506</span></a>    <span class="k">elif</span> <span class="n">size</span> <span class="o">==</span> <span class="mi">8</span><span class="p">:</span>
+</span><span id="L-507"><a href="#L-507"><span class="linenos">507</span></a>        <span class="n">types</span> <span class="o">=</span> <span class="s1">&#39;d&#39;</span>
+</span><span id="L-508"><a href="#L-508"><span class="linenos">508</span></a>    <span class="k">elif</span> <span class="n">size</span> <span class="o">==</span> <span class="mi">16</span><span class="p">:</span>
+</span><span id="L-509"><a href="#L-509"><span class="linenos">509</span></a>        <span class="n">types</span> <span class="o">=</span> <span class="s1">&#39;dd&#39;</span>
+</span><span id="L-510"><a href="#L-510"><span class="linenos">510</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-511"><a href="#L-511"><span class="linenos">511</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Type for size &#39;&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">size</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;&#39; not known.&quot;</span><span class="p">)</span>
+</span><span id="L-512"><a href="#L-512"><span class="linenos">512</span></a>    <span class="n">m</span> <span class="o">=</span> <span class="n">n</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-513"><a href="#L-513"><span class="linenos">513</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">d</span><span class="p">):</span>
+</span><span id="L-514"><a href="#L-514"><span class="linenos">514</span></a>        <span class="n">m</span> <span class="o">*=</span> <span class="n">n</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="L-515"><a href="#L-515"><span class="linenos">515</span></a>
+</span><span id="L-516"><a href="#L-516"><span class="linenos">516</span></a>    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="n">m</span> <span class="o">*</span> <span class="n">size</span><span class="p">)</span>
+</span><span id="L-517"><a href="#L-517"><span class="linenos">517</span></a>    <span class="n">tmp</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;</span><span class="si">%d%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">m</span><span class="p">,</span> <span class="n">types</span><span class="p">),</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="L-518"><a href="#L-518"><span class="linenos">518</span></a>
+</span><span id="L-519"><a href="#L-519"><span class="linenos">519</span></a>    <span class="n">arr</span> <span class="o">=</span> <span class="n">_parse_array_openQCD2</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">n</span><span class="p">,</span> <span class="n">size</span><span class="p">,</span> <span class="n">tmp</span><span class="p">,</span> <span class="n">quadrupel</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="L-520"><a href="#L-520"><span class="linenos">520</span></a>    <span class="k">return</span> <span class="p">{</span><span class="s1">&#39;d&#39;</span><span class="p">:</span> <span class="n">d</span><span class="p">,</span> <span class="s1">&#39;n&#39;</span><span class="p">:</span> <span class="n">n</span><span class="p">,</span> <span class="s1">&#39;size&#39;</span><span class="p">:</span> <span class="n">size</span><span class="p">,</span> <span class="s1">&#39;arr&#39;</span><span class="p">:</span> <span class="n">arr</span><span class="p">}</span>
 </span><span id="L-521"><a href="#L-521"><span class="linenos">521</span></a>
-</span><span id="L-522"><a href="#L-522"><span class="linenos">522</span></a><span class="k">def</span> <span class="nf">read_qtop</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;openQCD&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-523"><a href="#L-523"><span class="linenos">523</span></a>    <span class="sd">&quot;&quot;&quot;Read the topologial charge based on openQCD gradient flow measurements.</span>
-</span><span id="L-524"><a href="#L-524"><span class="linenos">524</span></a>
-</span><span id="L-525"><a href="#L-525"><span class="linenos">525</span></a><span class="sd">    Parameters</span>
-</span><span id="L-526"><a href="#L-526"><span class="linenos">526</span></a><span class="sd">    ----------</span>
-</span><span id="L-527"><a href="#L-527"><span class="linenos">527</span></a><span class="sd">    path : str</span>
-</span><span id="L-528"><a href="#L-528"><span class="linenos">528</span></a><span class="sd">        path of the measurement files</span>
-</span><span id="L-529"><a href="#L-529"><span class="linenos">529</span></a><span class="sd">    prefix : str</span>
-</span><span id="L-530"><a href="#L-530"><span class="linenos">530</span></a><span class="sd">        prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat.</span>
-</span><span id="L-531"><a href="#L-531"><span class="linenos">531</span></a><span class="sd">        Ignored if file names are passed explicitly via keyword files.</span>
-</span><span id="L-532"><a href="#L-532"><span class="linenos">532</span></a><span class="sd">    c : double</span>
-</span><span id="L-533"><a href="#L-533"><span class="linenos">533</span></a><span class="sd">        Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</span>
-</span><span id="L-534"><a href="#L-534"><span class="linenos">534</span></a><span class="sd">    dtr_cnfg : int</span>
-</span><span id="L-535"><a href="#L-535"><span class="linenos">535</span></a><span class="sd">        (optional) parameter that specifies the number of measurements</span>
-</span><span id="L-536"><a href="#L-536"><span class="linenos">536</span></a><span class="sd">        between two configs.</span>
-</span><span id="L-537"><a href="#L-537"><span class="linenos">537</span></a><span class="sd">        If it is not set, the distance between two measurements</span>
-</span><span id="L-538"><a href="#L-538"><span class="linenos">538</span></a><span class="sd">        in the file is assumed to be the distance between two configurations.</span>
-</span><span id="L-539"><a href="#L-539"><span class="linenos">539</span></a><span class="sd">    steps : int</span>
-</span><span id="L-540"><a href="#L-540"><span class="linenos">540</span></a><span class="sd">        (optional) Distance between two configurations in units of trajectories /</span>
-</span><span id="L-541"><a href="#L-541"><span class="linenos">541</span></a><span class="sd">         cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
-</span><span id="L-542"><a href="#L-542"><span class="linenos">542</span></a><span class="sd">    version : str</span>
-</span><span id="L-543"><a href="#L-543"><span class="linenos">543</span></a><span class="sd">        Either openQCD or sfqcd, depending on the data.</span>
-</span><span id="L-544"><a href="#L-544"><span class="linenos">544</span></a><span class="sd">    L : int</span>
-</span><span id="L-545"><a href="#L-545"><span class="linenos">545</span></a><span class="sd">        spatial length of the lattice in L/a.</span>
-</span><span id="L-546"><a href="#L-546"><span class="linenos">546</span></a><span class="sd">        HAS to be set if version != sfqcd, since openQCD does not provide</span>
-</span><span id="L-547"><a href="#L-547"><span class="linenos">547</span></a><span class="sd">        this in the header</span>
-</span><span id="L-548"><a href="#L-548"><span class="linenos">548</span></a><span class="sd">    r_start : list</span>
-</span><span id="L-549"><a href="#L-549"><span class="linenos">549</span></a><span class="sd">        list which contains the first config to be read for each replicum.</span>
-</span><span id="L-550"><a href="#L-550"><span class="linenos">550</span></a><span class="sd">    r_stop : list</span>
-</span><span id="L-551"><a href="#L-551"><span class="linenos">551</span></a><span class="sd">        list which contains the last config to be read for each replicum.</span>
-</span><span id="L-552"><a href="#L-552"><span class="linenos">552</span></a><span class="sd">    files : list</span>
-</span><span id="L-553"><a href="#L-553"><span class="linenos">553</span></a><span class="sd">        specify the exact files that need to be read</span>
-</span><span id="L-554"><a href="#L-554"><span class="linenos">554</span></a><span class="sd">        from path, practical if e.g. only one replicum is needed</span>
-</span><span id="L-555"><a href="#L-555"><span class="linenos">555</span></a><span class="sd">    names : list</span>
-</span><span id="L-556"><a href="#L-556"><span class="linenos">556</span></a><span class="sd">        Alternative labeling for replicas/ensembles.</span>
-</span><span id="L-557"><a href="#L-557"><span class="linenos">557</span></a><span class="sd">        Has to have the appropriate length.</span>
-</span><span id="L-558"><a href="#L-558"><span class="linenos">558</span></a><span class="sd">    Zeuthen_flow : bool</span>
-</span><span id="L-559"><a href="#L-559"><span class="linenos">559</span></a><span class="sd">        (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
-</span><span id="L-560"><a href="#L-560"><span class="linenos">560</span></a><span class="sd">        for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
-</span><span id="L-561"><a href="#L-561"><span class="linenos">561</span></a><span class="sd">    integer_charge : bool</span>
-</span><span id="L-562"><a href="#L-562"><span class="linenos">562</span></a><span class="sd">        If True, the charge is rounded towards the nearest integer on each config.</span>
-</span><span id="L-563"><a href="#L-563"><span class="linenos">563</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-564"><a href="#L-564"><span class="linenos">564</span></a>    <span class="n">known_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;openQCD&quot;</span><span class="p">,</span> <span class="s2">&quot;sfqcd&quot;</span><span class="p">]</span>
-</span><span id="L-565"><a href="#L-565"><span class="linenos">565</span></a>
-</span><span id="L-566"><a href="#L-566"><span class="linenos">566</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">known_versions</span><span class="p">:</span>
-</span><span id="L-567"><a href="#L-567"><span class="linenos">567</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown openQCD version.&quot;</span><span class="p">)</span>
-</span><span id="L-568"><a href="#L-568"><span class="linenos">568</span></a>    <span class="k">if</span> <span class="s2">&quot;steps&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-569"><a href="#L-569"><span class="linenos">569</span></a>        <span class="n">steps</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;steps&quot;</span><span class="p">)</span>
-</span><span id="L-570"><a href="#L-570"><span class="linenos">570</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;sfqcd&quot;</span><span class="p">:</span>
-</span><span id="L-571"><a href="#L-571"><span class="linenos">571</span></a>        <span class="k">if</span> <span class="s2">&quot;L&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-572"><a href="#L-572"><span class="linenos">572</span></a>            <span class="n">supposed_L</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;L&quot;</span><span class="p">)</span>
-</span><span id="L-573"><a href="#L-573"><span class="linenos">573</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-574"><a href="#L-574"><span class="linenos">574</span></a>            <span class="n">supposed_L</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-575"><a href="#L-575"><span class="linenos">575</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s2">&quot;.gfms.dat&quot;</span>
-</span><span id="L-576"><a href="#L-576"><span class="linenos">576</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-577"><a href="#L-577"><span class="linenos">577</span></a>        <span class="k">if</span> <span class="s2">&quot;L&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-578"><a href="#L-578"><span class="linenos">578</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;This version of openQCD needs you to provide the spatial length of the lattice as parameter &#39;L&#39;.&quot;</span><span class="p">)</span>
-</span><span id="L-579"><a href="#L-579"><span class="linenos">579</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-580"><a href="#L-580"><span class="linenos">580</span></a>            <span class="n">L</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;L&quot;</span><span class="p">)</span>
-</span><span id="L-581"><a href="#L-581"><span class="linenos">581</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s2">&quot;.ms.dat&quot;</span>
-</span><span id="L-582"><a href="#L-582"><span class="linenos">582</span></a>
-</span><span id="L-583"><a href="#L-583"><span class="linenos">583</span></a>    <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-584"><a href="#L-584"><span class="linenos">584</span></a>        <span class="n">files</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
-</span><span id="L-585"><a href="#L-585"><span class="linenos">585</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="L-586"><a href="#L-586"><span class="linenos">586</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-587"><a href="#L-587"><span class="linenos">587</span></a>        <span class="n">found</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-588"><a href="#L-588"><span class="linenos">588</span></a>        <span class="n">files</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-589"><a href="#L-589"><span class="linenos">589</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s2">&quot;/&quot;</span><span class="p">):</span>
-</span><span id="L-590"><a href="#L-590"><span class="linenos">590</span></a>            <span class="n">found</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
-</span><span id="L-591"><a href="#L-591"><span class="linenos">591</span></a>            <span class="k">break</span>
-</span><span id="L-592"><a href="#L-592"><span class="linenos">592</span></a>        <span class="k">for</span> <span class="n">f</span> <span class="ow">in</span> <span class="n">found</span><span class="p">:</span>
-</span><span id="L-593"><a href="#L-593"><span class="linenos">593</span></a>            <span class="k">if</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">f</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s2">&quot;*&quot;</span> <span class="o">+</span> <span class="n">postfix</span><span class="p">):</span>
-</span><span id="L-594"><a href="#L-594"><span class="linenos">594</span></a>                <span class="n">files</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">f</span><span class="p">)</span>
-</span><span id="L-595"><a href="#L-595"><span class="linenos">595</span></a>
-</span><span id="L-596"><a href="#L-596"><span class="linenos">596</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-597"><a href="#L-597"><span class="linenos">597</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
-</span><span id="L-598"><a href="#L-598"><span class="linenos">598</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
-</span><span id="L-599"><a href="#L-599"><span class="linenos">599</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="L-600"><a href="#L-600"><span class="linenos">600</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
-</span><span id="L-601"><a href="#L-601"><span class="linenos">601</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-602"><a href="#L-602"><span class="linenos">602</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
-</span><span id="L-603"><a href="#L-603"><span class="linenos">603</span></a>
-</span><span id="L-604"><a href="#L-604"><span class="linenos">604</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-605"><a href="#L-605"><span class="linenos">605</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
-</span><span id="L-606"><a href="#L-606"><span class="linenos">606</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
-</span><span id="L-607"><a href="#L-607"><span class="linenos">607</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="L-608"><a href="#L-608"><span class="linenos">608</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-609"><a href="#L-609"><span class="linenos">609</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
-</span><span id="L-610"><a href="#L-610"><span class="linenos">610</span></a>    <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-611"><a href="#L-611"><span class="linenos">611</span></a>
-</span><span id="L-612"><a href="#L-612"><span class="linenos">612</span></a>    <span class="n">zeuthen</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;Zeuthen_flow&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
-</span><span id="L-613"><a href="#L-613"><span class="linenos">613</span></a>    <span class="k">if</span> <span class="n">zeuthen</span> <span class="ow">and</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
-</span><span id="L-614"><a href="#L-614"><span class="linenos">614</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Zeuthen flow can only be used for version==sfqcd&#39;</span><span class="p">)</span>
-</span><span id="L-615"><a href="#L-615"><span class="linenos">615</span></a>
-</span><span id="L-616"><a href="#L-616"><span class="linenos">616</span></a>    <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-617"><a href="#L-617"><span class="linenos">617</span></a>    <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-618"><a href="#L-618"><span class="linenos">618</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-619"><a href="#L-619"><span class="linenos">619</span></a>    <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-620"><a href="#L-620"><span class="linenos">620</span></a>    <span class="k">for</span> <span class="n">rep</span><span class="p">,</span> <span class="n">file</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
-</span><span id="L-621"><a href="#L-621"><span class="linenos">621</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s2">&quot;/&quot;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="s2">&quot;rb&quot;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="L-622"><a href="#L-622"><span class="linenos">622</span></a>
-</span><span id="L-623"><a href="#L-623"><span class="linenos">623</span></a>            <span class="n">Q</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-624"><a href="#L-624"><span class="linenos">624</span></a>            <span class="n">traj_list</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-625"><a href="#L-625"><span class="linenos">625</span></a>            <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
-</span><span id="L-626"><a href="#L-626"><span class="linenos">626</span></a>                <span class="k">if</span> <span class="n">zeuthen</span><span class="p">:</span>
-</span><span id="L-627"><a href="#L-627"><span class="linenos">627</span></a>                    <span class="n">obspos</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-628"><a href="#L-628"><span class="linenos">628</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-629"><a href="#L-629"><span class="linenos">629</span></a>                    <span class="n">obspos</span> <span class="o">=</span> <span class="mi">8</span>
-</span><span id="L-630"><a href="#L-630"><span class="linenos">630</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
-</span><span id="L-631"><a href="#L-631"><span class="linenos">631</span></a>                <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="L-632"><a href="#L-632"><span class="linenos">632</span></a>                <span class="n">zthfl</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>  <span class="c1"># Zeuthen flow -&gt; if it&#39;s equal to 2 it means that the Zeuthen flow is also &#39;measured&#39; (apart from the Wilson flow)</span>
-</span><span id="L-633"><a href="#L-633"><span class="linenos">633</span></a>                <span class="n">ncs</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>  <span class="c1"># number of different values for c in t_flow=1/8 c² L² -&gt; measurements done for ncs c&#39;s</span>
-</span><span id="L-634"><a href="#L-634"><span class="linenos">634</span></a>                <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>  <span class="c1"># lattice T/a</span>
-</span><span id="L-635"><a href="#L-635"><span class="linenos">635</span></a>
-</span><span id="L-636"><a href="#L-636"><span class="linenos">636</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
-</span><span id="L-637"><a href="#L-637"><span class="linenos">637</span></a>                <span class="n">Ls</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="L-638"><a href="#L-638"><span class="linenos">638</span></a>                <span class="k">if</span><span class="p">(</span><span class="n">Ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="ow">and</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">2</span><span class="p">]):</span>
-</span><span id="L-639"><a href="#L-639"><span class="linenos">639</span></a>                    <span class="n">L</span> <span class="o">=</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-640"><a href="#L-640"><span class="linenos">640</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">supposed_L</span> <span class="o">==</span> <span class="n">L</span><span class="p">)</span> <span class="ow">and</span> <span class="n">supposed_L</span><span class="p">:</span>
-</span><span id="L-641"><a href="#L-641"><span class="linenos">641</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It seems the length given in the header and by you contradict each other&quot;</span><span class="p">)</span>
-</span><span id="L-642"><a href="#L-642"><span class="linenos">642</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-643"><a href="#L-643"><span class="linenos">643</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Found more than one spatial length in header!&quot;</span><span class="p">)</span>
-</span><span id="L-644"><a href="#L-644"><span class="linenos">644</span></a>
-</span><span id="L-645"><a href="#L-645"><span class="linenos">645</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">16</span><span class="p">)</span>
-</span><span id="L-646"><a href="#L-646"><span class="linenos">646</span></a>                <span class="n">header2</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;dd&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="L-647"><a href="#L-647"><span class="linenos">647</span></a>                <span class="n">tol</span> <span class="o">=</span> <span class="n">header2</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-648"><a href="#L-648"><span class="linenos">648</span></a>                <span class="n">cmax</span> <span class="o">=</span> <span class="n">header2</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>  <span class="c1"># highest value of c used</span>
-</span><span id="L-649"><a href="#L-649"><span class="linenos">649</span></a>
-</span><span id="L-650"><a href="#L-650"><span class="linenos">650</span></a>                <span class="k">if</span> <span class="n">c</span> <span class="o">&gt;</span> <span class="n">cmax</span><span class="p">:</span>
-</span><span id="L-651"><a href="#L-651"><span class="linenos">651</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Flow has been determined between c=0 and c=</span><span class="si">%lf</span><span class="s1"> with tolerance </span><span class="si">%lf</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">cmax</span><span class="p">,</span> <span class="n">tol</span><span class="p">))</span>
-</span><span id="L-652"><a href="#L-652"><span class="linenos">652</span></a>
-</span><span id="L-653"><a href="#L-653"><span class="linenos">653</span></a>                <span class="k">if</span><span class="p">(</span><span class="n">zthfl</span> <span class="o">==</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="L-654"><a href="#L-654"><span class="linenos">654</span></a>                    <span class="n">nfl</span> <span class="o">=</span> <span class="mi">2</span>  <span class="c1"># number of flows</span>
-</span><span id="L-655"><a href="#L-655"><span class="linenos">655</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-656"><a href="#L-656"><span class="linenos">656</span></a>                    <span class="n">nfl</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-657"><a href="#L-657"><span class="linenos">657</span></a>                <span class="n">iobs</span> <span class="o">=</span> <span class="mi">8</span> <span class="o">*</span> <span class="n">nfl</span>  <span class="c1"># number of flow observables calculated</span>
-</span><span id="L-658"><a href="#L-658"><span class="linenos">658</span></a>
-</span><span id="L-659"><a href="#L-659"><span class="linenos">659</span></a>                <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-660"><a href="#L-660"><span class="linenos">660</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="L-661"><a href="#L-661"><span class="linenos">661</span></a>                    <span class="k">if</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
-</span><span id="L-662"><a href="#L-662"><span class="linenos">662</span></a>                        <span class="k">break</span>
-</span><span id="L-663"><a href="#L-663"><span class="linenos">663</span></a>                    <span class="n">traj_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>   <span class="c1"># trajectory number when measurement was done</span>
-</span><span id="L-664"><a href="#L-664"><span class="linenos">664</span></a>
-</span><span id="L-665"><a href="#L-665"><span class="linenos">665</span></a>                    <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="L-666"><a href="#L-666"><span class="linenos">666</span></a>                        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">iobs</span><span class="p">):</span>
-</span><span id="L-667"><a href="#L-667"><span class="linenos">667</span></a>                            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span><span class="p">)</span>
-</span><span id="L-668"><a href="#L-668"><span class="linenos">668</span></a>                            <span class="k">if</span> <span class="p">(</span><span class="n">i</span> <span class="o">==</span> <span class="n">obspos</span><span class="p">):</span>  <span class="c1"># determines the flow observable -&gt; i=0 &lt;-&gt; Zeuthen flow</span>
-</span><span id="L-669"><a href="#L-669"><span class="linenos">669</span></a>                                <span class="n">Q</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span><span class="p">,</span> <span class="n">t</span><span class="p">))</span>
-</span><span id="L-670"><a href="#L-670"><span class="linenos">670</span></a>
-</span><span id="L-671"><a href="#L-671"><span class="linenos">671</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-672"><a href="#L-672"><span class="linenos">672</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
-</span><span id="L-673"><a href="#L-673"><span class="linenos">673</span></a>                <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="L-674"><a href="#L-674"><span class="linenos">674</span></a>                <span class="c1"># step size in integration steps &quot;dnms&quot;</span>
-</span><span id="L-675"><a href="#L-675"><span class="linenos">675</span></a>                <span class="n">dn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-676"><a href="#L-676"><span class="linenos">676</span></a>                <span class="c1"># number of measurements, so &quot;ntot&quot;/dn</span>
-</span><span id="L-677"><a href="#L-677"><span class="linenos">677</span></a>                <span class="n">nn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-678"><a href="#L-678"><span class="linenos">678</span></a>                <span class="c1"># lattice T/a</span>
-</span><span id="L-679"><a href="#L-679"><span class="linenos">679</span></a>                <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="L-680"><a href="#L-680"><span class="linenos">680</span></a>
-</span><span id="L-681"><a href="#L-681"><span class="linenos">681</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
-</span><span id="L-682"><a href="#L-682"><span class="linenos">682</span></a>                <span class="n">eps</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-683"><a href="#L-683"><span class="linenos">683</span></a>
-</span><span id="L-684"><a href="#L-684"><span class="linenos">684</span></a>                <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-685"><a href="#L-685"><span class="linenos">685</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="L-686"><a href="#L-686"><span class="linenos">686</span></a>                    <span class="k">if</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
-</span><span id="L-687"><a href="#L-687"><span class="linenos">687</span></a>                        <span class="k">break</span>
-</span><span id="L-688"><a href="#L-688"><span class="linenos">688</span></a>                    <span class="n">traj_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-689"><a href="#L-689"><span class="linenos">689</span></a>                    <span class="c1"># Wsl</span>
-</span><span id="L-690"><a href="#L-690"><span class="linenos">690</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-691"><a href="#L-691"><span class="linenos">691</span></a>                    <span class="c1"># Ysl</span>
-</span><span id="L-692"><a href="#L-692"><span class="linenos">692</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-693"><a href="#L-693"><span class="linenos">693</span></a>                    <span class="c1"># Qsl, which is asked for in this method</span>
-</span><span id="L-694"><a href="#L-694"><span class="linenos">694</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-695"><a href="#L-695"><span class="linenos">695</span></a>                    <span class="c1"># unpack the array of Qtops,</span>
-</span><span id="L-696"><a href="#L-696"><span class="linenos">696</span></a>                    <span class="c1"># on each timeslice t=0,...,tmax-1 and the</span>
-</span><span id="L-697"><a href="#L-697"><span class="linenos">697</span></a>                    <span class="c1"># measurement number in = 0...nn (see README.qcd1)</span>
-</span><span id="L-698"><a href="#L-698"><span class="linenos">698</span></a>                    <span class="n">tmpd</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="L-699"><a href="#L-699"><span class="linenos">699</span></a>                    <span class="n">Q</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmpd</span><span class="p">)</span>
-</span><span id="L-700"><a href="#L-700"><span class="linenos">700</span></a>
-</span><span id="L-701"><a href="#L-701"><span class="linenos">701</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">traj_list</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-702"><a href="#L-702"><span class="linenos">702</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Irregularities in stepsize found&quot;</span><span class="p">)</span>
-</span><span id="L-703"><a href="#L-703"><span class="linenos">703</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-704"><a href="#L-704"><span class="linenos">704</span></a>            <span class="k">if</span> <span class="s1">&#39;steps&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-705"><a href="#L-705"><span class="linenos">705</span></a>                <span class="k">if</span> <span class="n">steps</span> <span class="o">!=</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span>
-</span><span id="L-706"><a href="#L-706"><span class="linenos">706</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;steps and the found stepsize are not the same&quot;</span><span class="p">)</span>
-</span><span id="L-707"><a href="#L-707"><span class="linenos">707</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-708"><a href="#L-708"><span class="linenos">708</span></a>                <span class="n">steps</span> <span class="o">=</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-709"><a href="#L-709"><span class="linenos">709</span></a>
-</span><span id="L-710"><a href="#L-710"><span class="linenos">710</span></a>        <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">tr</span> <span class="o">//</span> <span class="n">steps</span> <span class="o">//</span> <span class="n">dtr_cnfg</span> <span class="k">for</span> <span class="n">tr</span> <span class="ow">in</span> <span class="n">traj_list</span><span class="p">])</span>
-</span><span id="L-711"><a href="#L-711"><span class="linenos">711</span></a>        <span class="k">if</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-712"><a href="#L-712"><span class="linenos">712</span></a>            <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="L-713"><a href="#L-713"><span class="linenos">713</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config. Offset = </span><span class="si">%d</span><span class="s1"> configs (</span><span class="si">%d</span><span class="s1"> trajectories / cycles)&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="L-714"><a href="#L-714"><span class="linenos">714</span></a>                <span class="n">offset</span><span class="p">,</span> <span class="n">offset</span> <span class="o">*</span> <span class="n">steps</span><span class="p">))</span>
-</span><span id="L-715"><a href="#L-715"><span class="linenos">715</span></a>            <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="L-716"><a href="#L-716"><span class="linenos">716</span></a>
-</span><span id="L-717"><a href="#L-717"><span class="linenos">717</span></a>        <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-718"><a href="#L-718"><span class="linenos">718</span></a>            <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="L-719"><a href="#L-719"><span class="linenos">719</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-720"><a href="#L-720"><span class="linenos">720</span></a>            <span class="k">try</span><span class="p">:</span>
-</span><span id="L-721"><a href="#L-721"><span class="linenos">721</span></a>                <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
-</span><span id="L-722"><a href="#L-722"><span class="linenos">722</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
-</span><span id="L-723"><a href="#L-723"><span class="linenos">723</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="L-724"><a href="#L-724"><span class="linenos">724</span></a>                    <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="L-725"><a href="#L-725"><span class="linenos">725</span></a>
-</span><span id="L-726"><a href="#L-726"><span class="linenos">726</span></a>        <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-727"><a href="#L-727"><span class="linenos">727</span></a>            <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-728"><a href="#L-728"><span class="linenos">728</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-729"><a href="#L-729"><span class="linenos">729</span></a>            <span class="k">try</span><span class="p">:</span>
-</span><span id="L-730"><a href="#L-730"><span class="linenos">730</span></a>                <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
-</span><span id="L-731"><a href="#L-731"><span class="linenos">731</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
-</span><span id="L-732"><a href="#L-732"><span class="linenos">732</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="L-733"><a href="#L-733"><span class="linenos">733</span></a>                    <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="L-734"><a href="#L-734"><span class="linenos">734</span></a>
-</span><span id="L-735"><a href="#L-735"><span class="linenos">735</span></a>        <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
-</span><span id="L-736"><a href="#L-736"><span class="linenos">736</span></a>            <span class="n">cstepsize</span> <span class="o">=</span> <span class="n">cmax</span> <span class="o">/</span> <span class="n">ncs</span>
-</span><span id="L-737"><a href="#L-737"><span class="linenos">737</span></a>            <span class="n">index_aim</span> <span class="o">=</span> <span class="nb">round</span><span class="p">(</span><span class="n">c</span> <span class="o">/</span> <span class="n">cstepsize</span><span class="p">)</span>
-</span><span id="L-738"><a href="#L-738"><span class="linenos">738</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-739"><a href="#L-739"><span class="linenos">739</span></a>            <span class="n">t_aim</span> <span class="o">=</span> <span class="p">(</span><span class="n">c</span> <span class="o">*</span> <span class="n">L</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">/</span> <span class="mi">8</span>
-</span><span id="L-740"><a href="#L-740"><span class="linenos">740</span></a>            <span class="n">index_aim</span> <span class="o">=</span> <span class="nb">round</span><span class="p">(</span><span class="n">t_aim</span> <span class="o">/</span> <span class="n">eps</span> <span class="o">/</span> <span class="n">dn</span><span class="p">)</span>
-</span><span id="L-741"><a href="#L-741"><span class="linenos">741</span></a>
-</span><span id="L-742"><a href="#L-742"><span class="linenos">742</span></a>        <span class="n">Q_sum</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-743"><a href="#L-743"><span class="linenos">743</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Q</span><span class="p">):</span>
-</span><span id="L-744"><a href="#L-744"><span class="linenos">744</span></a>            <span class="n">Q_sum</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="nb">sum</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="n">current</span><span class="p">:</span><span class="n">current</span> <span class="o">+</span> <span class="n">tmax</span><span class="p">])</span>
-</span><span id="L-745"><a href="#L-745"><span class="linenos">745</span></a>                         <span class="k">for</span> <span class="n">current</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">item</span><span class="p">),</span> <span class="n">tmax</span><span class="p">)])</span>
-</span><span id="L-746"><a href="#L-746"><span class="linenos">746</span></a>        <span class="n">Q_top</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-747"><a href="#L-747"><span class="linenos">747</span></a>        <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
-</span><span id="L-748"><a href="#L-748"><span class="linenos">748</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">)</span> <span class="o">//</span> <span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)):</span>
-</span><span id="L-749"><a href="#L-749"><span class="linenos">749</span></a>                <span class="n">Q_top</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">[</span><span class="n">i</span> <span class="o">*</span> <span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">+</span> <span class="n">index_aim</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-750"><a href="#L-750"><span class="linenos">750</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-751"><a href="#L-751"><span class="linenos">751</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">Q</span><span class="p">)</span> <span class="o">//</span> <span class="n">dtr_cnfg</span><span class="p">):</span>
-</span><span id="L-752"><a href="#L-752"><span class="linenos">752</span></a>                <span class="n">Q_top</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">[</span><span class="n">dtr_cnfg</span> <span class="o">*</span> <span class="n">i</span><span class="p">][</span><span class="n">index_aim</span><span class="p">])</span>
-</span><span id="L-753"><a href="#L-753"><span class="linenos">753</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">Q_top</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">traj_list</span><span class="p">)</span> <span class="o">//</span> <span class="n">dtr_cnfg</span><span class="p">:</span>
-</span><span id="L-754"><a href="#L-754"><span class="linenos">754</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;qtops and traj_list dont have the same length&quot;</span><span class="p">)</span>
-</span><span id="L-755"><a href="#L-755"><span class="linenos">755</span></a>
-</span><span id="L-756"><a href="#L-756"><span class="linenos">756</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;integer_charge&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">):</span>
-</span><span id="L-757"><a href="#L-757"><span class="linenos">757</span></a>            <span class="n">Q_top</span> <span class="o">=</span> <span class="p">[</span><span class="nb">round</span><span class="p">(</span><span class="n">q</span><span class="p">)</span> <span class="k">for</span> <span class="n">q</span> <span class="ow">in</span> <span class="n">Q_top</span><span class="p">]</span>
-</span><span id="L-758"><a href="#L-758"><span class="linenos">758</span></a>
-</span><span id="L-759"><a href="#L-759"><span class="linenos">759</span></a>        <span class="n">truncated_file</span> <span class="o">=</span> <span class="n">file</span><span class="p">[:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">postfix</span><span class="p">)]</span>
-</span><span id="L-760"><a href="#L-760"><span class="linenos">760</span></a>
-</span><span id="L-761"><a href="#L-761"><span class="linenos">761</span></a>        <span class="k">if</span> <span class="s2">&quot;names&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-762"><a href="#L-762"><span class="linenos">762</span></a>            <span class="k">try</span><span class="p">:</span>
-</span><span id="L-763"><a href="#L-763"><span class="linenos">763</span></a>                <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_file</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
-</span><span id="L-764"><a href="#L-764"><span class="linenos">764</span></a>            <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="L-765"><a href="#L-765"><span class="linenos">765</span></a>                <span class="k">if</span> <span class="s2">&quot;names&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-766"><a href="#L-766"><span class="linenos">766</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
-</span><span id="L-767"><a href="#L-767"><span class="linenos">767</span></a>            <span class="n">ens_name</span> <span class="o">=</span> <span class="n">truncated_file</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span>
-</span><span id="L-768"><a href="#L-768"><span class="linenos">768</span></a>            <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ens_name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_file</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="L-769"><a href="#L-769"><span class="linenos">769</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-770"><a href="#L-770"><span class="linenos">770</span></a>            <span class="n">names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;names&quot;</span><span class="p">)</span>
-</span><span id="L-771"><a href="#L-771"><span class="linenos">771</span></a>            <span class="n">rep_names</span> <span class="o">=</span> <span class="n">names</span>
-</span><span id="L-772"><a href="#L-772"><span class="linenos">772</span></a>        <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_top</span><span class="p">)</span>
-</span><span id="L-773"><a href="#L-773"><span class="linenos">773</span></a>
-</span><span id="L-774"><a href="#L-774"><span class="linenos">774</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]),</span> <span class="nb">int</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]])</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">))]</span>
-</span><span id="L-775"><a href="#L-775"><span class="linenos">775</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">deltas</span><span class="p">[</span><span class="n">nrep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">nrep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">))]</span>
-</span><span id="L-776"><a href="#L-776"><span class="linenos">776</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span>
-</span><span id="L-777"><a href="#L-777"><span class="linenos">777</span></a>    <span class="k">return</span> <span class="n">result</span>
-</span><span id="L-778"><a href="#L-778"><span class="linenos">778</span></a>
+</span><span id="L-522"><a href="#L-522"><span class="linenos">522</span></a>
+</span><span id="L-523"><a href="#L-523"><span class="linenos">523</span></a><span class="k">def</span> <span class="nf">read_qtop</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;openQCD&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-524"><a href="#L-524"><span class="linenos">524</span></a>    <span class="sd">&quot;&quot;&quot;Read the topologial charge based on openQCD gradient flow measurements.</span>
+</span><span id="L-525"><a href="#L-525"><span class="linenos">525</span></a>
+</span><span id="L-526"><a href="#L-526"><span class="linenos">526</span></a><span class="sd">    Parameters</span>
+</span><span id="L-527"><a href="#L-527"><span class="linenos">527</span></a><span class="sd">    ----------</span>
+</span><span id="L-528"><a href="#L-528"><span class="linenos">528</span></a><span class="sd">    path : str</span>
+</span><span id="L-529"><a href="#L-529"><span class="linenos">529</span></a><span class="sd">        path of the measurement files</span>
+</span><span id="L-530"><a href="#L-530"><span class="linenos">530</span></a><span class="sd">    prefix : str</span>
+</span><span id="L-531"><a href="#L-531"><span class="linenos">531</span></a><span class="sd">        prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat.</span>
+</span><span id="L-532"><a href="#L-532"><span class="linenos">532</span></a><span class="sd">        Ignored if file names are passed explicitly via keyword files.</span>
+</span><span id="L-533"><a href="#L-533"><span class="linenos">533</span></a><span class="sd">    c : double</span>
+</span><span id="L-534"><a href="#L-534"><span class="linenos">534</span></a><span class="sd">        Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</span>
+</span><span id="L-535"><a href="#L-535"><span class="linenos">535</span></a><span class="sd">    dtr_cnfg : int</span>
+</span><span id="L-536"><a href="#L-536"><span class="linenos">536</span></a><span class="sd">        (optional) parameter that specifies the number of measurements</span>
+</span><span id="L-537"><a href="#L-537"><span class="linenos">537</span></a><span class="sd">        between two configs.</span>
+</span><span id="L-538"><a href="#L-538"><span class="linenos">538</span></a><span class="sd">        If it is not set, the distance between two measurements</span>
+</span><span id="L-539"><a href="#L-539"><span class="linenos">539</span></a><span class="sd">        in the file is assumed to be the distance between two configurations.</span>
+</span><span id="L-540"><a href="#L-540"><span class="linenos">540</span></a><span class="sd">    steps : int</span>
+</span><span id="L-541"><a href="#L-541"><span class="linenos">541</span></a><span class="sd">        (optional) Distance between two configurations in units of trajectories /</span>
+</span><span id="L-542"><a href="#L-542"><span class="linenos">542</span></a><span class="sd">         cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
+</span><span id="L-543"><a href="#L-543"><span class="linenos">543</span></a><span class="sd">    version : str</span>
+</span><span id="L-544"><a href="#L-544"><span class="linenos">544</span></a><span class="sd">        Either openQCD or sfqcd, depending on the data.</span>
+</span><span id="L-545"><a href="#L-545"><span class="linenos">545</span></a><span class="sd">    L : int</span>
+</span><span id="L-546"><a href="#L-546"><span class="linenos">546</span></a><span class="sd">        spatial length of the lattice in L/a.</span>
+</span><span id="L-547"><a href="#L-547"><span class="linenos">547</span></a><span class="sd">        HAS to be set if version != sfqcd, since openQCD does not provide</span>
+</span><span id="L-548"><a href="#L-548"><span class="linenos">548</span></a><span class="sd">        this in the header</span>
+</span><span id="L-549"><a href="#L-549"><span class="linenos">549</span></a><span class="sd">    r_start : list</span>
+</span><span id="L-550"><a href="#L-550"><span class="linenos">550</span></a><span class="sd">        list which contains the first config to be read for each replicum.</span>
+</span><span id="L-551"><a href="#L-551"><span class="linenos">551</span></a><span class="sd">    r_stop : list</span>
+</span><span id="L-552"><a href="#L-552"><span class="linenos">552</span></a><span class="sd">        list which contains the last config to be read for each replicum.</span>
+</span><span id="L-553"><a href="#L-553"><span class="linenos">553</span></a><span class="sd">    files : list</span>
+</span><span id="L-554"><a href="#L-554"><span class="linenos">554</span></a><span class="sd">        specify the exact files that need to be read</span>
+</span><span id="L-555"><a href="#L-555"><span class="linenos">555</span></a><span class="sd">        from path, practical if e.g. only one replicum is needed</span>
+</span><span id="L-556"><a href="#L-556"><span class="linenos">556</span></a><span class="sd">    names : list</span>
+</span><span id="L-557"><a href="#L-557"><span class="linenos">557</span></a><span class="sd">        Alternative labeling for replicas/ensembles.</span>
+</span><span id="L-558"><a href="#L-558"><span class="linenos">558</span></a><span class="sd">        Has to have the appropriate length.</span>
+</span><span id="L-559"><a href="#L-559"><span class="linenos">559</span></a><span class="sd">    Zeuthen_flow : bool</span>
+</span><span id="L-560"><a href="#L-560"><span class="linenos">560</span></a><span class="sd">        (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
+</span><span id="L-561"><a href="#L-561"><span class="linenos">561</span></a><span class="sd">        for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
+</span><span id="L-562"><a href="#L-562"><span class="linenos">562</span></a><span class="sd">    integer_charge : bool</span>
+</span><span id="L-563"><a href="#L-563"><span class="linenos">563</span></a><span class="sd">        If True, the charge is rounded towards the nearest integer on each config.</span>
+</span><span id="L-564"><a href="#L-564"><span class="linenos">564</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-565"><a href="#L-565"><span class="linenos">565</span></a>    <span class="n">known_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;openQCD&quot;</span><span class="p">,</span> <span class="s2">&quot;sfqcd&quot;</span><span class="p">]</span>
+</span><span id="L-566"><a href="#L-566"><span class="linenos">566</span></a>
+</span><span id="L-567"><a href="#L-567"><span class="linenos">567</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">known_versions</span><span class="p">:</span>
+</span><span id="L-568"><a href="#L-568"><span class="linenos">568</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown openQCD version.&quot;</span><span class="p">)</span>
+</span><span id="L-569"><a href="#L-569"><span class="linenos">569</span></a>    <span class="k">if</span> <span class="s2">&quot;steps&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-570"><a href="#L-570"><span class="linenos">570</span></a>        <span class="n">steps</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;steps&quot;</span><span class="p">)</span>
+</span><span id="L-571"><a href="#L-571"><span class="linenos">571</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;sfqcd&quot;</span><span class="p">:</span>
+</span><span id="L-572"><a href="#L-572"><span class="linenos">572</span></a>        <span class="k">if</span> <span class="s2">&quot;L&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-573"><a href="#L-573"><span class="linenos">573</span></a>            <span class="n">supposed_L</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;L&quot;</span><span class="p">)</span>
+</span><span id="L-574"><a href="#L-574"><span class="linenos">574</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-575"><a href="#L-575"><span class="linenos">575</span></a>            <span class="n">supposed_L</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-576"><a href="#L-576"><span class="linenos">576</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s2">&quot;.gfms.dat&quot;</span>
+</span><span id="L-577"><a href="#L-577"><span class="linenos">577</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-578"><a href="#L-578"><span class="linenos">578</span></a>        <span class="k">if</span> <span class="s2">&quot;L&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-579"><a href="#L-579"><span class="linenos">579</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;This version of openQCD needs you to provide the spatial length of the lattice as parameter &#39;L&#39;.&quot;</span><span class="p">)</span>
+</span><span id="L-580"><a href="#L-580"><span class="linenos">580</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-581"><a href="#L-581"><span class="linenos">581</span></a>            <span class="n">L</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;L&quot;</span><span class="p">)</span>
+</span><span id="L-582"><a href="#L-582"><span class="linenos">582</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s2">&quot;.ms.dat&quot;</span>
+</span><span id="L-583"><a href="#L-583"><span class="linenos">583</span></a>
+</span><span id="L-584"><a href="#L-584"><span class="linenos">584</span></a>    <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-585"><a href="#L-585"><span class="linenos">585</span></a>        <span class="n">files</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
+</span><span id="L-586"><a href="#L-586"><span class="linenos">586</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="L-587"><a href="#L-587"><span class="linenos">587</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-588"><a href="#L-588"><span class="linenos">588</span></a>        <span class="n">found</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-589"><a href="#L-589"><span class="linenos">589</span></a>        <span class="n">files</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-590"><a href="#L-590"><span class="linenos">590</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s2">&quot;/&quot;</span><span class="p">):</span>
+</span><span id="L-591"><a href="#L-591"><span class="linenos">591</span></a>            <span class="n">found</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
+</span><span id="L-592"><a href="#L-592"><span class="linenos">592</span></a>            <span class="k">break</span>
+</span><span id="L-593"><a href="#L-593"><span class="linenos">593</span></a>        <span class="k">for</span> <span class="n">f</span> <span class="ow">in</span> <span class="n">found</span><span class="p">:</span>
+</span><span id="L-594"><a href="#L-594"><span class="linenos">594</span></a>            <span class="k">if</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">f</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s2">&quot;*&quot;</span> <span class="o">+</span> <span class="n">postfix</span><span class="p">):</span>
+</span><span id="L-595"><a href="#L-595"><span class="linenos">595</span></a>                <span class="n">files</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">f</span><span class="p">)</span>
+</span><span id="L-596"><a href="#L-596"><span class="linenos">596</span></a>
+</span><span id="L-597"><a href="#L-597"><span class="linenos">597</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-598"><a href="#L-598"><span class="linenos">598</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
+</span><span id="L-599"><a href="#L-599"><span class="linenos">599</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
+</span><span id="L-600"><a href="#L-600"><span class="linenos">600</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="L-601"><a href="#L-601"><span class="linenos">601</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
+</span><span id="L-602"><a href="#L-602"><span class="linenos">602</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-603"><a href="#L-603"><span class="linenos">603</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
+</span><span id="L-604"><a href="#L-604"><span class="linenos">604</span></a>
+</span><span id="L-605"><a href="#L-605"><span class="linenos">605</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-606"><a href="#L-606"><span class="linenos">606</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
+</span><span id="L-607"><a href="#L-607"><span class="linenos">607</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
+</span><span id="L-608"><a href="#L-608"><span class="linenos">608</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="L-609"><a href="#L-609"><span class="linenos">609</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-610"><a href="#L-610"><span class="linenos">610</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
+</span><span id="L-611"><a href="#L-611"><span class="linenos">611</span></a>    <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-612"><a href="#L-612"><span class="linenos">612</span></a>
+</span><span id="L-613"><a href="#L-613"><span class="linenos">613</span></a>    <span class="n">zeuthen</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;Zeuthen_flow&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
+</span><span id="L-614"><a href="#L-614"><span class="linenos">614</span></a>    <span class="k">if</span> <span class="n">zeuthen</span> <span class="ow">and</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
+</span><span id="L-615"><a href="#L-615"><span class="linenos">615</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Zeuthen flow can only be used for version==sfqcd&#39;</span><span class="p">)</span>
+</span><span id="L-616"><a href="#L-616"><span class="linenos">616</span></a>
+</span><span id="L-617"><a href="#L-617"><span class="linenos">617</span></a>    <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-618"><a href="#L-618"><span class="linenos">618</span></a>    <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-619"><a href="#L-619"><span class="linenos">619</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-620"><a href="#L-620"><span class="linenos">620</span></a>    <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-621"><a href="#L-621"><span class="linenos">621</span></a>    <span class="k">for</span> <span class="n">rep</span><span class="p">,</span> <span class="n">file</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
+</span><span id="L-622"><a href="#L-622"><span class="linenos">622</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s2">&quot;/&quot;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="s2">&quot;rb&quot;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="L-623"><a href="#L-623"><span class="linenos">623</span></a>
+</span><span id="L-624"><a href="#L-624"><span class="linenos">624</span></a>            <span class="n">Q</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-625"><a href="#L-625"><span class="linenos">625</span></a>            <span class="n">traj_list</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-626"><a href="#L-626"><span class="linenos">626</span></a>            <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
+</span><span id="L-627"><a href="#L-627"><span class="linenos">627</span></a>                <span class="k">if</span> <span class="n">zeuthen</span><span class="p">:</span>
+</span><span id="L-628"><a href="#L-628"><span class="linenos">628</span></a>                    <span class="n">obspos</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-629"><a href="#L-629"><span class="linenos">629</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-630"><a href="#L-630"><span class="linenos">630</span></a>                    <span class="n">obspos</span> <span class="o">=</span> <span class="mi">8</span>
+</span><span id="L-631"><a href="#L-631"><span class="linenos">631</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
+</span><span id="L-632"><a href="#L-632"><span class="linenos">632</span></a>                <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="L-633"><a href="#L-633"><span class="linenos">633</span></a>                <span class="n">zthfl</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>  <span class="c1"># Zeuthen flow -&gt; if it&#39;s equal to 2 it means that the Zeuthen flow is also &#39;measured&#39; (apart from the Wilson flow)</span>
+</span><span id="L-634"><a href="#L-634"><span class="linenos">634</span></a>                <span class="n">ncs</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>  <span class="c1"># number of different values for c in t_flow=1/8 c² L² -&gt; measurements done for ncs c&#39;s</span>
+</span><span id="L-635"><a href="#L-635"><span class="linenos">635</span></a>                <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>  <span class="c1"># lattice T/a</span>
+</span><span id="L-636"><a href="#L-636"><span class="linenos">636</span></a>
+</span><span id="L-637"><a href="#L-637"><span class="linenos">637</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
+</span><span id="L-638"><a href="#L-638"><span class="linenos">638</span></a>                <span class="n">Ls</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="L-639"><a href="#L-639"><span class="linenos">639</span></a>                <span class="k">if</span><span class="p">(</span><span class="n">Ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="ow">and</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">2</span><span class="p">]):</span>
+</span><span id="L-640"><a href="#L-640"><span class="linenos">640</span></a>                    <span class="n">L</span> <span class="o">=</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-641"><a href="#L-641"><span class="linenos">641</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">supposed_L</span> <span class="o">==</span> <span class="n">L</span><span class="p">)</span> <span class="ow">and</span> <span class="n">supposed_L</span><span class="p">:</span>
+</span><span id="L-642"><a href="#L-642"><span class="linenos">642</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It seems the length given in the header and by you contradict each other&quot;</span><span class="p">)</span>
+</span><span id="L-643"><a href="#L-643"><span class="linenos">643</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-644"><a href="#L-644"><span class="linenos">644</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Found more than one spatial length in header!&quot;</span><span class="p">)</span>
+</span><span id="L-645"><a href="#L-645"><span class="linenos">645</span></a>
+</span><span id="L-646"><a href="#L-646"><span class="linenos">646</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">16</span><span class="p">)</span>
+</span><span id="L-647"><a href="#L-647"><span class="linenos">647</span></a>                <span class="n">header2</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;dd&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="L-648"><a href="#L-648"><span class="linenos">648</span></a>                <span class="n">tol</span> <span class="o">=</span> <span class="n">header2</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-649"><a href="#L-649"><span class="linenos">649</span></a>                <span class="n">cmax</span> <span class="o">=</span> <span class="n">header2</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>  <span class="c1"># highest value of c used</span>
+</span><span id="L-650"><a href="#L-650"><span class="linenos">650</span></a>
+</span><span id="L-651"><a href="#L-651"><span class="linenos">651</span></a>                <span class="k">if</span> <span class="n">c</span> <span class="o">&gt;</span> <span class="n">cmax</span><span class="p">:</span>
+</span><span id="L-652"><a href="#L-652"><span class="linenos">652</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Flow has been determined between c=0 and c=</span><span class="si">%lf</span><span class="s1"> with tolerance </span><span class="si">%lf</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">cmax</span><span class="p">,</span> <span class="n">tol</span><span class="p">))</span>
+</span><span id="L-653"><a href="#L-653"><span class="linenos">653</span></a>
+</span><span id="L-654"><a href="#L-654"><span class="linenos">654</span></a>                <span class="k">if</span><span class="p">(</span><span class="n">zthfl</span> <span class="o">==</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="L-655"><a href="#L-655"><span class="linenos">655</span></a>                    <span class="n">nfl</span> <span class="o">=</span> <span class="mi">2</span>  <span class="c1"># number of flows</span>
+</span><span id="L-656"><a href="#L-656"><span class="linenos">656</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-657"><a href="#L-657"><span class="linenos">657</span></a>                    <span class="n">nfl</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-658"><a href="#L-658"><span class="linenos">658</span></a>                <span class="n">iobs</span> <span class="o">=</span> <span class="mi">8</span> <span class="o">*</span> <span class="n">nfl</span>  <span class="c1"># number of flow observables calculated</span>
+</span><span id="L-659"><a href="#L-659"><span class="linenos">659</span></a>
+</span><span id="L-660"><a href="#L-660"><span class="linenos">660</span></a>                <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-661"><a href="#L-661"><span class="linenos">661</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="L-662"><a href="#L-662"><span class="linenos">662</span></a>                    <span class="k">if</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
+</span><span id="L-663"><a href="#L-663"><span class="linenos">663</span></a>                        <span class="k">break</span>
+</span><span id="L-664"><a href="#L-664"><span class="linenos">664</span></a>                    <span class="n">traj_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>   <span class="c1"># trajectory number when measurement was done</span>
+</span><span id="L-665"><a href="#L-665"><span class="linenos">665</span></a>
+</span><span id="L-666"><a href="#L-666"><span class="linenos">666</span></a>                    <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="L-667"><a href="#L-667"><span class="linenos">667</span></a>                        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">iobs</span><span class="p">):</span>
+</span><span id="L-668"><a href="#L-668"><span class="linenos">668</span></a>                            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span><span class="p">)</span>
+</span><span id="L-669"><a href="#L-669"><span class="linenos">669</span></a>                            <span class="k">if</span> <span class="p">(</span><span class="n">i</span> <span class="o">==</span> <span class="n">obspos</span><span class="p">):</span>  <span class="c1"># determines the flow observable -&gt; i=0 &lt;-&gt; Zeuthen flow</span>
+</span><span id="L-670"><a href="#L-670"><span class="linenos">670</span></a>                                <span class="n">Q</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span><span class="p">,</span> <span class="n">t</span><span class="p">))</span>
+</span><span id="L-671"><a href="#L-671"><span class="linenos">671</span></a>
+</span><span id="L-672"><a href="#L-672"><span class="linenos">672</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-673"><a href="#L-673"><span class="linenos">673</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
+</span><span id="L-674"><a href="#L-674"><span class="linenos">674</span></a>                <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="L-675"><a href="#L-675"><span class="linenos">675</span></a>                <span class="c1"># step size in integration steps &quot;dnms&quot;</span>
+</span><span id="L-676"><a href="#L-676"><span class="linenos">676</span></a>                <span class="n">dn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-677"><a href="#L-677"><span class="linenos">677</span></a>                <span class="c1"># number of measurements, so &quot;ntot&quot;/dn</span>
+</span><span id="L-678"><a href="#L-678"><span class="linenos">678</span></a>                <span class="n">nn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-679"><a href="#L-679"><span class="linenos">679</span></a>                <span class="c1"># lattice T/a</span>
+</span><span id="L-680"><a href="#L-680"><span class="linenos">680</span></a>                <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="L-681"><a href="#L-681"><span class="linenos">681</span></a>
+</span><span id="L-682"><a href="#L-682"><span class="linenos">682</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
+</span><span id="L-683"><a href="#L-683"><span class="linenos">683</span></a>                <span class="n">eps</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-684"><a href="#L-684"><span class="linenos">684</span></a>
+</span><span id="L-685"><a href="#L-685"><span class="linenos">685</span></a>                <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-686"><a href="#L-686"><span class="linenos">686</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="L-687"><a href="#L-687"><span class="linenos">687</span></a>                    <span class="k">if</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
+</span><span id="L-688"><a href="#L-688"><span class="linenos">688</span></a>                        <span class="k">break</span>
+</span><span id="L-689"><a href="#L-689"><span class="linenos">689</span></a>                    <span class="n">traj_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-690"><a href="#L-690"><span class="linenos">690</span></a>                    <span class="c1"># Wsl</span>
+</span><span id="L-691"><a href="#L-691"><span class="linenos">691</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-692"><a href="#L-692"><span class="linenos">692</span></a>                    <span class="c1"># Ysl</span>
+</span><span id="L-693"><a href="#L-693"><span class="linenos">693</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-694"><a href="#L-694"><span class="linenos">694</span></a>                    <span class="c1"># Qsl, which is asked for in this method</span>
+</span><span id="L-695"><a href="#L-695"><span class="linenos">695</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-696"><a href="#L-696"><span class="linenos">696</span></a>                    <span class="c1"># unpack the array of Qtops,</span>
+</span><span id="L-697"><a href="#L-697"><span class="linenos">697</span></a>                    <span class="c1"># on each timeslice t=0,...,tmax-1 and the</span>
+</span><span id="L-698"><a href="#L-698"><span class="linenos">698</span></a>                    <span class="c1"># measurement number in = 0...nn (see README.qcd1)</span>
+</span><span id="L-699"><a href="#L-699"><span class="linenos">699</span></a>                    <span class="n">tmpd</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="L-700"><a href="#L-700"><span class="linenos">700</span></a>                    <span class="n">Q</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmpd</span><span class="p">)</span>
+</span><span id="L-701"><a href="#L-701"><span class="linenos">701</span></a>
+</span><span id="L-702"><a href="#L-702"><span class="linenos">702</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">traj_list</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-703"><a href="#L-703"><span class="linenos">703</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Irregularities in stepsize found&quot;</span><span class="p">)</span>
+</span><span id="L-704"><a href="#L-704"><span class="linenos">704</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-705"><a href="#L-705"><span class="linenos">705</span></a>            <span class="k">if</span> <span class="s1">&#39;steps&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-706"><a href="#L-706"><span class="linenos">706</span></a>                <span class="k">if</span> <span class="n">steps</span> <span class="o">!=</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span>
+</span><span id="L-707"><a href="#L-707"><span class="linenos">707</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;steps and the found stepsize are not the same&quot;</span><span class="p">)</span>
+</span><span id="L-708"><a href="#L-708"><span class="linenos">708</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-709"><a href="#L-709"><span class="linenos">709</span></a>                <span class="n">steps</span> <span class="o">=</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-710"><a href="#L-710"><span class="linenos">710</span></a>
+</span><span id="L-711"><a href="#L-711"><span class="linenos">711</span></a>        <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">tr</span> <span class="o">//</span> <span class="n">steps</span> <span class="o">//</span> <span class="n">dtr_cnfg</span> <span class="k">for</span> <span class="n">tr</span> <span class="ow">in</span> <span class="n">traj_list</span><span class="p">])</span>
+</span><span id="L-712"><a href="#L-712"><span class="linenos">712</span></a>        <span class="k">if</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-713"><a href="#L-713"><span class="linenos">713</span></a>            <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="L-714"><a href="#L-714"><span class="linenos">714</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config. Offset = </span><span class="si">%d</span><span class="s1"> configs (</span><span class="si">%d</span><span class="s1"> trajectories / cycles)&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="L-715"><a href="#L-715"><span class="linenos">715</span></a>                <span class="n">offset</span><span class="p">,</span> <span class="n">offset</span> <span class="o">*</span> <span class="n">steps</span><span class="p">))</span>
+</span><span id="L-716"><a href="#L-716"><span class="linenos">716</span></a>            <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="L-717"><a href="#L-717"><span class="linenos">717</span></a>
+</span><span id="L-718"><a href="#L-718"><span class="linenos">718</span></a>        <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-719"><a href="#L-719"><span class="linenos">719</span></a>            <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="L-720"><a href="#L-720"><span class="linenos">720</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-721"><a href="#L-721"><span class="linenos">721</span></a>            <span class="k">try</span><span class="p">:</span>
+</span><span id="L-722"><a href="#L-722"><span class="linenos">722</span></a>                <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
+</span><span id="L-723"><a href="#L-723"><span class="linenos">723</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+</span><span id="L-724"><a href="#L-724"><span class="linenos">724</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="L-725"><a href="#L-725"><span class="linenos">725</span></a>                    <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="L-726"><a href="#L-726"><span class="linenos">726</span></a>
+</span><span id="L-727"><a href="#L-727"><span class="linenos">727</span></a>        <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-728"><a href="#L-728"><span class="linenos">728</span></a>            <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-729"><a href="#L-729"><span class="linenos">729</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-730"><a href="#L-730"><span class="linenos">730</span></a>            <span class="k">try</span><span class="p">:</span>
+</span><span id="L-731"><a href="#L-731"><span class="linenos">731</span></a>                <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
+</span><span id="L-732"><a href="#L-732"><span class="linenos">732</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+</span><span id="L-733"><a href="#L-733"><span class="linenos">733</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="L-734"><a href="#L-734"><span class="linenos">734</span></a>                    <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="L-735"><a href="#L-735"><span class="linenos">735</span></a>
+</span><span id="L-736"><a href="#L-736"><span class="linenos">736</span></a>        <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
+</span><span id="L-737"><a href="#L-737"><span class="linenos">737</span></a>            <span class="n">cstepsize</span> <span class="o">=</span> <span class="n">cmax</span> <span class="o">/</span> <span class="n">ncs</span>
+</span><span id="L-738"><a href="#L-738"><span class="linenos">738</span></a>            <span class="n">index_aim</span> <span class="o">=</span> <span class="nb">round</span><span class="p">(</span><span class="n">c</span> <span class="o">/</span> <span class="n">cstepsize</span><span class="p">)</span>
+</span><span id="L-739"><a href="#L-739"><span class="linenos">739</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-740"><a href="#L-740"><span class="linenos">740</span></a>            <span class="n">t_aim</span> <span class="o">=</span> <span class="p">(</span><span class="n">c</span> <span class="o">*</span> <span class="n">L</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">/</span> <span class="mi">8</span>
+</span><span id="L-741"><a href="#L-741"><span class="linenos">741</span></a>            <span class="n">index_aim</span> <span class="o">=</span> <span class="nb">round</span><span class="p">(</span><span class="n">t_aim</span> <span class="o">/</span> <span class="n">eps</span> <span class="o">/</span> <span class="n">dn</span><span class="p">)</span>
+</span><span id="L-742"><a href="#L-742"><span class="linenos">742</span></a>
+</span><span id="L-743"><a href="#L-743"><span class="linenos">743</span></a>        <span class="n">Q_sum</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-744"><a href="#L-744"><span class="linenos">744</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Q</span><span class="p">):</span>
+</span><span id="L-745"><a href="#L-745"><span class="linenos">745</span></a>            <span class="n">Q_sum</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="nb">sum</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="n">current</span><span class="p">:</span><span class="n">current</span> <span class="o">+</span> <span class="n">tmax</span><span class="p">])</span>
+</span><span id="L-746"><a href="#L-746"><span class="linenos">746</span></a>                         <span class="k">for</span> <span class="n">current</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">item</span><span class="p">),</span> <span class="n">tmax</span><span class="p">)])</span>
+</span><span id="L-747"><a href="#L-747"><span class="linenos">747</span></a>        <span class="n">Q_top</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-748"><a href="#L-748"><span class="linenos">748</span></a>        <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
+</span><span id="L-749"><a href="#L-749"><span class="linenos">749</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">)</span> <span class="o">//</span> <span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)):</span>
+</span><span id="L-750"><a href="#L-750"><span class="linenos">750</span></a>                <span class="n">Q_top</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">[</span><span class="n">i</span> <span class="o">*</span> <span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">+</span> <span class="n">index_aim</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-751"><a href="#L-751"><span class="linenos">751</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-752"><a href="#L-752"><span class="linenos">752</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">Q</span><span class="p">)</span> <span class="o">//</span> <span class="n">dtr_cnfg</span><span class="p">):</span>
+</span><span id="L-753"><a href="#L-753"><span class="linenos">753</span></a>                <span class="n">Q_top</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">[</span><span class="n">dtr_cnfg</span> <span class="o">*</span> <span class="n">i</span><span class="p">][</span><span class="n">index_aim</span><span class="p">])</span>
+</span><span id="L-754"><a href="#L-754"><span class="linenos">754</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">Q_top</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">traj_list</span><span class="p">)</span> <span class="o">//</span> <span class="n">dtr_cnfg</span><span class="p">:</span>
+</span><span id="L-755"><a href="#L-755"><span class="linenos">755</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;qtops and traj_list dont have the same length&quot;</span><span class="p">)</span>
+</span><span id="L-756"><a href="#L-756"><span class="linenos">756</span></a>
+</span><span id="L-757"><a href="#L-757"><span class="linenos">757</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;integer_charge&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">):</span>
+</span><span id="L-758"><a href="#L-758"><span class="linenos">758</span></a>            <span class="n">Q_top</span> <span class="o">=</span> <span class="p">[</span><span class="nb">round</span><span class="p">(</span><span class="n">q</span><span class="p">)</span> <span class="k">for</span> <span class="n">q</span> <span class="ow">in</span> <span class="n">Q_top</span><span class="p">]</span>
+</span><span id="L-759"><a href="#L-759"><span class="linenos">759</span></a>
+</span><span id="L-760"><a href="#L-760"><span class="linenos">760</span></a>        <span class="n">truncated_file</span> <span class="o">=</span> <span class="n">file</span><span class="p">[:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">postfix</span><span class="p">)]</span>
+</span><span id="L-761"><a href="#L-761"><span class="linenos">761</span></a>
+</span><span id="L-762"><a href="#L-762"><span class="linenos">762</span></a>        <span class="k">if</span> <span class="s2">&quot;names&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-763"><a href="#L-763"><span class="linenos">763</span></a>            <span class="k">try</span><span class="p">:</span>
+</span><span id="L-764"><a href="#L-764"><span class="linenos">764</span></a>                <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_file</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
+</span><span id="L-765"><a href="#L-765"><span class="linenos">765</span></a>            <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="L-766"><a href="#L-766"><span class="linenos">766</span></a>                <span class="k">if</span> <span class="s2">&quot;names&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-767"><a href="#L-767"><span class="linenos">767</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
+</span><span id="L-768"><a href="#L-768"><span class="linenos">768</span></a>            <span class="n">ens_name</span> <span class="o">=</span> <span class="n">truncated_file</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span>
+</span><span id="L-769"><a href="#L-769"><span class="linenos">769</span></a>            <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ens_name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_file</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="L-770"><a href="#L-770"><span class="linenos">770</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-771"><a href="#L-771"><span class="linenos">771</span></a>            <span class="n">names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;names&quot;</span><span class="p">)</span>
+</span><span id="L-772"><a href="#L-772"><span class="linenos">772</span></a>            <span class="n">rep_names</span> <span class="o">=</span> <span class="n">names</span>
+</span><span id="L-773"><a href="#L-773"><span class="linenos">773</span></a>        <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_top</span><span class="p">)</span>
+</span><span id="L-774"><a href="#L-774"><span class="linenos">774</span></a>
+</span><span id="L-775"><a href="#L-775"><span class="linenos">775</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]),</span> <span class="nb">int</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]])</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">))]</span>
+</span><span id="L-776"><a href="#L-776"><span class="linenos">776</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">deltas</span><span class="p">[</span><span class="n">nrep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">nrep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">))]</span>
+</span><span id="L-777"><a href="#L-777"><span class="linenos">777</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span>
+</span><span id="L-778"><a href="#L-778"><span class="linenos">778</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span><span id="L-779"><a href="#L-779"><span class="linenos">779</span></a>
-</span><span id="L-780"><a href="#L-780"><span class="linenos">780</span></a><span class="k">def</span> <span class="nf">qtop_projection</span><span class="p">(</span><span class="n">qtop</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span>
-</span><span id="L-781"><a href="#L-781"><span class="linenos">781</span></a>    <span class="sd">&quot;&quot;&quot;Returns the projection to the topological charge sector defined by target.</span>
-</span><span id="L-782"><a href="#L-782"><span class="linenos">782</span></a>
-</span><span id="L-783"><a href="#L-783"><span class="linenos">783</span></a><span class="sd">    Parameters</span>
-</span><span id="L-784"><a href="#L-784"><span class="linenos">784</span></a><span class="sd">    ----------</span>
-</span><span id="L-785"><a href="#L-785"><span class="linenos">785</span></a><span class="sd">    path : Obs</span>
-</span><span id="L-786"><a href="#L-786"><span class="linenos">786</span></a><span class="sd">        Topological charge.</span>
-</span><span id="L-787"><a href="#L-787"><span class="linenos">787</span></a><span class="sd">    target : int</span>
-</span><span id="L-788"><a href="#L-788"><span class="linenos">788</span></a><span class="sd">        Specifies the topological sector to be reweighted to (default 0)</span>
-</span><span id="L-789"><a href="#L-789"><span class="linenos">789</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-790"><a href="#L-790"><span class="linenos">790</span></a>    <span class="k">if</span> <span class="n">qtop</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
-</span><span id="L-791"><a href="#L-791"><span class="linenos">791</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You can not use a reweighted observable for reweighting!&#39;</span><span class="p">)</span>
-</span><span id="L-792"><a href="#L-792"><span class="linenos">792</span></a>
-</span><span id="L-793"><a href="#L-793"><span class="linenos">793</span></a>    <span class="n">proj_qtop</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-794"><a href="#L-794"><span class="linenos">794</span></a>    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">deltas</span><span class="p">:</span>
-</span><span id="L-795"><a href="#L-795"><span class="linenos">795</span></a>        <span class="n">proj_qtop</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="mi">1</span> <span class="k">if</span> <span class="nb">round</span><span class="p">(</span><span class="n">qtop</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">q</span><span class="p">)</span> <span class="o">==</span> <span class="n">target</span> <span class="k">else</span> <span class="mi">0</span> <span class="k">for</span> <span class="n">q</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">n</span><span class="p">]]))</span>
-</span><span id="L-796"><a href="#L-796"><span class="linenos">796</span></a>
-</span><span id="L-797"><a href="#L-797"><span class="linenos">797</span></a>    <span class="n">reto</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">proj_qtop</span><span class="p">,</span> <span class="n">qtop</span><span class="o">.</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">qtop</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">names</span><span class="p">])</span>
-</span><span id="L-798"><a href="#L-798"><span class="linenos">798</span></a>    <span class="n">reto</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">qtop</span><span class="o">.</span><span class="n">is_merged</span>
-</span><span id="L-799"><a href="#L-799"><span class="linenos">799</span></a>    <span class="k">return</span> <span class="n">reto</span>
-</span><span id="L-800"><a href="#L-800"><span class="linenos">800</span></a>
+</span><span id="L-780"><a href="#L-780"><span class="linenos">780</span></a>
+</span><span id="L-781"><a href="#L-781"><span class="linenos">781</span></a><span class="k">def</span> <span class="nf">qtop_projection</span><span class="p">(</span><span class="n">qtop</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span>
+</span><span id="L-782"><a href="#L-782"><span class="linenos">782</span></a>    <span class="sd">&quot;&quot;&quot;Returns the projection to the topological charge sector defined by target.</span>
+</span><span id="L-783"><a href="#L-783"><span class="linenos">783</span></a>
+</span><span id="L-784"><a href="#L-784"><span class="linenos">784</span></a><span class="sd">    Parameters</span>
+</span><span id="L-785"><a href="#L-785"><span class="linenos">785</span></a><span class="sd">    ----------</span>
+</span><span id="L-786"><a href="#L-786"><span class="linenos">786</span></a><span class="sd">    path : Obs</span>
+</span><span id="L-787"><a href="#L-787"><span class="linenos">787</span></a><span class="sd">        Topological charge.</span>
+</span><span id="L-788"><a href="#L-788"><span class="linenos">788</span></a><span class="sd">    target : int</span>
+</span><span id="L-789"><a href="#L-789"><span class="linenos">789</span></a><span class="sd">        Specifies the topological sector to be reweighted to (default 0)</span>
+</span><span id="L-790"><a href="#L-790"><span class="linenos">790</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-791"><a href="#L-791"><span class="linenos">791</span></a>    <span class="k">if</span> <span class="n">qtop</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
+</span><span id="L-792"><a href="#L-792"><span class="linenos">792</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You can not use a reweighted observable for reweighting!&#39;</span><span class="p">)</span>
+</span><span id="L-793"><a href="#L-793"><span class="linenos">793</span></a>
+</span><span id="L-794"><a href="#L-794"><span class="linenos">794</span></a>    <span class="n">proj_qtop</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-795"><a href="#L-795"><span class="linenos">795</span></a>    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">deltas</span><span class="p">:</span>
+</span><span id="L-796"><a href="#L-796"><span class="linenos">796</span></a>        <span class="n">proj_qtop</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="mi">1</span> <span class="k">if</span> <span class="nb">round</span><span class="p">(</span><span class="n">qtop</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">q</span><span class="p">)</span> <span class="o">==</span> <span class="n">target</span> <span class="k">else</span> <span class="mi">0</span> <span class="k">for</span> <span class="n">q</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">n</span><span class="p">]]))</span>
+</span><span id="L-797"><a href="#L-797"><span class="linenos">797</span></a>
+</span><span id="L-798"><a href="#L-798"><span class="linenos">798</span></a>    <span class="n">reto</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">proj_qtop</span><span class="p">,</span> <span class="n">qtop</span><span class="o">.</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">qtop</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">names</span><span class="p">])</span>
+</span><span id="L-799"><a href="#L-799"><span class="linenos">799</span></a>    <span class="n">reto</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">qtop</span><span class="o">.</span><span class="n">is_merged</span>
+</span><span id="L-800"><a href="#L-800"><span class="linenos">800</span></a>    <span class="k">return</span> <span class="n">reto</span>
 </span><span id="L-801"><a href="#L-801"><span class="linenos">801</span></a>
-</span><span id="L-802"><a href="#L-802"><span class="linenos">802</span></a><span class="k">def</span> <span class="nf">read_qtop_sector</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-803"><a href="#L-803"><span class="linenos">803</span></a>    <span class="sd">&quot;&quot;&quot;Constructs reweighting factors to a specified topological sector.</span>
-</span><span id="L-804"><a href="#L-804"><span class="linenos">804</span></a>
-</span><span id="L-805"><a href="#L-805"><span class="linenos">805</span></a><span class="sd">    Parameters</span>
-</span><span id="L-806"><a href="#L-806"><span class="linenos">806</span></a><span class="sd">    ----------</span>
-</span><span id="L-807"><a href="#L-807"><span class="linenos">807</span></a><span class="sd">    path : str</span>
-</span><span id="L-808"><a href="#L-808"><span class="linenos">808</span></a><span class="sd">        path of the measurement files</span>
-</span><span id="L-809"><a href="#L-809"><span class="linenos">809</span></a><span class="sd">    prefix : str</span>
-</span><span id="L-810"><a href="#L-810"><span class="linenos">810</span></a><span class="sd">        prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat</span>
-</span><span id="L-811"><a href="#L-811"><span class="linenos">811</span></a><span class="sd">    c : double</span>
-</span><span id="L-812"><a href="#L-812"><span class="linenos">812</span></a><span class="sd">        Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L</span>
-</span><span id="L-813"><a href="#L-813"><span class="linenos">813</span></a><span class="sd">    target : int</span>
-</span><span id="L-814"><a href="#L-814"><span class="linenos">814</span></a><span class="sd">        Specifies the topological sector to be reweighted to (default 0)</span>
-</span><span id="L-815"><a href="#L-815"><span class="linenos">815</span></a><span class="sd">    dtr_cnfg : int</span>
-</span><span id="L-816"><a href="#L-816"><span class="linenos">816</span></a><span class="sd">        (optional) parameter that specifies the number of trajectories</span>
-</span><span id="L-817"><a href="#L-817"><span class="linenos">817</span></a><span class="sd">        between two configs.</span>
-</span><span id="L-818"><a href="#L-818"><span class="linenos">818</span></a><span class="sd">        if it is not set, the distance between two measurements</span>
-</span><span id="L-819"><a href="#L-819"><span class="linenos">819</span></a><span class="sd">        in the file is assumed to be the distance between two configurations.</span>
-</span><span id="L-820"><a href="#L-820"><span class="linenos">820</span></a><span class="sd">    steps : int</span>
-</span><span id="L-821"><a href="#L-821"><span class="linenos">821</span></a><span class="sd">        (optional) Distance between two configurations in units of trajectories /</span>
-</span><span id="L-822"><a href="#L-822"><span class="linenos">822</span></a><span class="sd">         cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
-</span><span id="L-823"><a href="#L-823"><span class="linenos">823</span></a><span class="sd">    version : str</span>
-</span><span id="L-824"><a href="#L-824"><span class="linenos">824</span></a><span class="sd">        version string of the openQCD (sfqcd) version used to create</span>
-</span><span id="L-825"><a href="#L-825"><span class="linenos">825</span></a><span class="sd">        the ensemble. Default is 2.0. May also be set to sfqcd.</span>
-</span><span id="L-826"><a href="#L-826"><span class="linenos">826</span></a><span class="sd">    L : int</span>
-</span><span id="L-827"><a href="#L-827"><span class="linenos">827</span></a><span class="sd">        spatial length of the lattice in L/a.</span>
-</span><span id="L-828"><a href="#L-828"><span class="linenos">828</span></a><span class="sd">        HAS to be set if version != sfqcd, since openQCD does not provide</span>
-</span><span id="L-829"><a href="#L-829"><span class="linenos">829</span></a><span class="sd">        this in the header</span>
-</span><span id="L-830"><a href="#L-830"><span class="linenos">830</span></a><span class="sd">    r_start : list</span>
-</span><span id="L-831"><a href="#L-831"><span class="linenos">831</span></a><span class="sd">        offset of the first ensemble, making it easier to match</span>
-</span><span id="L-832"><a href="#L-832"><span class="linenos">832</span></a><span class="sd">        later on with other Obs</span>
-</span><span id="L-833"><a href="#L-833"><span class="linenos">833</span></a><span class="sd">    r_stop : list</span>
-</span><span id="L-834"><a href="#L-834"><span class="linenos">834</span></a><span class="sd">        last configurations that need to be read (per replicum)</span>
-</span><span id="L-835"><a href="#L-835"><span class="linenos">835</span></a><span class="sd">    files : list</span>
-</span><span id="L-836"><a href="#L-836"><span class="linenos">836</span></a><span class="sd">        specify the exact files that need to be read</span>
-</span><span id="L-837"><a href="#L-837"><span class="linenos">837</span></a><span class="sd">        from path, practical if e.g. only one replicum is needed</span>
-</span><span id="L-838"><a href="#L-838"><span class="linenos">838</span></a><span class="sd">    names : list</span>
-</span><span id="L-839"><a href="#L-839"><span class="linenos">839</span></a><span class="sd">        Alternative labeling for replicas/ensembles.</span>
-</span><span id="L-840"><a href="#L-840"><span class="linenos">840</span></a><span class="sd">        Has to have the appropriate length</span>
-</span><span id="L-841"><a href="#L-841"><span class="linenos">841</span></a><span class="sd">    Zeuthen_flow : bool</span>
-</span><span id="L-842"><a href="#L-842"><span class="linenos">842</span></a><span class="sd">        (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
-</span><span id="L-843"><a href="#L-843"><span class="linenos">843</span></a><span class="sd">        for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
-</span><span id="L-844"><a href="#L-844"><span class="linenos">844</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-845"><a href="#L-845"><span class="linenos">845</span></a>
-</span><span id="L-846"><a href="#L-846"><span class="linenos">846</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">target</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
-</span><span id="L-847"><a href="#L-847"><span class="linenos">847</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;target&#39; has to be an integer.&quot;</span><span class="p">)</span>
-</span><span id="L-848"><a href="#L-848"><span class="linenos">848</span></a>
-</span><span id="L-849"><a href="#L-849"><span class="linenos">849</span></a>    <span class="n">kwargs</span><span class="p">[</span><span class="s1">&#39;integer_charge&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="L-850"><a href="#L-850"><span class="linenos">850</span></a>    <span class="n">qtop</span> <span class="o">=</span> <span class="n">read_qtop</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-851"><a href="#L-851"><span class="linenos">851</span></a>
-</span><span id="L-852"><a href="#L-852"><span class="linenos">852</span></a>    <span class="k">return</span> <span class="n">qtop_projection</span><span class="p">(</span><span class="n">qtop</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="n">target</span><span class="p">)</span>
+</span><span id="L-802"><a href="#L-802"><span class="linenos">802</span></a>
+</span><span id="L-803"><a href="#L-803"><span class="linenos">803</span></a><span class="k">def</span> <span class="nf">read_qtop_sector</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-804"><a href="#L-804"><span class="linenos">804</span></a>    <span class="sd">&quot;&quot;&quot;Constructs reweighting factors to a specified topological sector.</span>
+</span><span id="L-805"><a href="#L-805"><span class="linenos">805</span></a>
+</span><span id="L-806"><a href="#L-806"><span class="linenos">806</span></a><span class="sd">    Parameters</span>
+</span><span id="L-807"><a href="#L-807"><span class="linenos">807</span></a><span class="sd">    ----------</span>
+</span><span id="L-808"><a href="#L-808"><span class="linenos">808</span></a><span class="sd">    path : str</span>
+</span><span id="L-809"><a href="#L-809"><span class="linenos">809</span></a><span class="sd">        path of the measurement files</span>
+</span><span id="L-810"><a href="#L-810"><span class="linenos">810</span></a><span class="sd">    prefix : str</span>
+</span><span id="L-811"><a href="#L-811"><span class="linenos">811</span></a><span class="sd">        prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat</span>
+</span><span id="L-812"><a href="#L-812"><span class="linenos">812</span></a><span class="sd">    c : double</span>
+</span><span id="L-813"><a href="#L-813"><span class="linenos">813</span></a><span class="sd">        Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L</span>
+</span><span id="L-814"><a href="#L-814"><span class="linenos">814</span></a><span class="sd">    target : int</span>
+</span><span id="L-815"><a href="#L-815"><span class="linenos">815</span></a><span class="sd">        Specifies the topological sector to be reweighted to (default 0)</span>
+</span><span id="L-816"><a href="#L-816"><span class="linenos">816</span></a><span class="sd">    dtr_cnfg : int</span>
+</span><span id="L-817"><a href="#L-817"><span class="linenos">817</span></a><span class="sd">        (optional) parameter that specifies the number of trajectories</span>
+</span><span id="L-818"><a href="#L-818"><span class="linenos">818</span></a><span class="sd">        between two configs.</span>
+</span><span id="L-819"><a href="#L-819"><span class="linenos">819</span></a><span class="sd">        if it is not set, the distance between two measurements</span>
+</span><span id="L-820"><a href="#L-820"><span class="linenos">820</span></a><span class="sd">        in the file is assumed to be the distance between two configurations.</span>
+</span><span id="L-821"><a href="#L-821"><span class="linenos">821</span></a><span class="sd">    steps : int</span>
+</span><span id="L-822"><a href="#L-822"><span class="linenos">822</span></a><span class="sd">        (optional) Distance between two configurations in units of trajectories /</span>
+</span><span id="L-823"><a href="#L-823"><span class="linenos">823</span></a><span class="sd">         cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
+</span><span id="L-824"><a href="#L-824"><span class="linenos">824</span></a><span class="sd">    version : str</span>
+</span><span id="L-825"><a href="#L-825"><span class="linenos">825</span></a><span class="sd">        version string of the openQCD (sfqcd) version used to create</span>
+</span><span id="L-826"><a href="#L-826"><span class="linenos">826</span></a><span class="sd">        the ensemble. Default is 2.0. May also be set to sfqcd.</span>
+</span><span id="L-827"><a href="#L-827"><span class="linenos">827</span></a><span class="sd">    L : int</span>
+</span><span id="L-828"><a href="#L-828"><span class="linenos">828</span></a><span class="sd">        spatial length of the lattice in L/a.</span>
+</span><span id="L-829"><a href="#L-829"><span class="linenos">829</span></a><span class="sd">        HAS to be set if version != sfqcd, since openQCD does not provide</span>
+</span><span id="L-830"><a href="#L-830"><span class="linenos">830</span></a><span class="sd">        this in the header</span>
+</span><span id="L-831"><a href="#L-831"><span class="linenos">831</span></a><span class="sd">    r_start : list</span>
+</span><span id="L-832"><a href="#L-832"><span class="linenos">832</span></a><span class="sd">        offset of the first ensemble, making it easier to match</span>
+</span><span id="L-833"><a href="#L-833"><span class="linenos">833</span></a><span class="sd">        later on with other Obs</span>
+</span><span id="L-834"><a href="#L-834"><span class="linenos">834</span></a><span class="sd">    r_stop : list</span>
+</span><span id="L-835"><a href="#L-835"><span class="linenos">835</span></a><span class="sd">        last configurations that need to be read (per replicum)</span>
+</span><span id="L-836"><a href="#L-836"><span class="linenos">836</span></a><span class="sd">    files : list</span>
+</span><span id="L-837"><a href="#L-837"><span class="linenos">837</span></a><span class="sd">        specify the exact files that need to be read</span>
+</span><span id="L-838"><a href="#L-838"><span class="linenos">838</span></a><span class="sd">        from path, practical if e.g. only one replicum is needed</span>
+</span><span id="L-839"><a href="#L-839"><span class="linenos">839</span></a><span class="sd">    names : list</span>
+</span><span id="L-840"><a href="#L-840"><span class="linenos">840</span></a><span class="sd">        Alternative labeling for replicas/ensembles.</span>
+</span><span id="L-841"><a href="#L-841"><span class="linenos">841</span></a><span class="sd">        Has to have the appropriate length</span>
+</span><span id="L-842"><a href="#L-842"><span class="linenos">842</span></a><span class="sd">    Zeuthen_flow : bool</span>
+</span><span id="L-843"><a href="#L-843"><span class="linenos">843</span></a><span class="sd">        (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
+</span><span id="L-844"><a href="#L-844"><span class="linenos">844</span></a><span class="sd">        for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
+</span><span id="L-845"><a href="#L-845"><span class="linenos">845</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-846"><a href="#L-846"><span class="linenos">846</span></a>
+</span><span id="L-847"><a href="#L-847"><span class="linenos">847</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">target</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
+</span><span id="L-848"><a href="#L-848"><span class="linenos">848</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;target&#39; has to be an integer.&quot;</span><span class="p">)</span>
+</span><span id="L-849"><a href="#L-849"><span class="linenos">849</span></a>
+</span><span id="L-850"><a href="#L-850"><span class="linenos">850</span></a>    <span class="n">kwargs</span><span class="p">[</span><span class="s1">&#39;integer_charge&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="L-851"><a href="#L-851"><span class="linenos">851</span></a>    <span class="n">qtop</span> <span class="o">=</span> <span class="n">read_qtop</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-852"><a href="#L-852"><span class="linenos">852</span></a>
+</span><span id="L-853"><a href="#L-853"><span class="linenos">853</span></a>    <span class="k">return</span> <span class="n">qtop_projection</span><span class="p">(</span><span class="n">qtop</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="n">target</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="read_rwms">
-                            <div class="attr function"><a class="headerlink" href="#read_rwms">#&nbsp;&nbsp</a>
+                            <input id="read_rwms-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_rwms</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">prefix</span>, </span><span class="param"><span class="n">version</span><span class="o">=</span><span class="s1">&#39;2.0&#39;</span>, </span><span class="param"><span class="n">names</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="read_rwms-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_rwms</span><span class="signature">(path, prefix, version=&#39;2.0&#39;, names=None, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_rwms-13"><a href="#read_rwms-13"><span class="linenos"> 13</span></a><span class="k">def</span> <span class="nf">read_rwms</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s1">&#39;2.0&#39;</span><span class="p">,</span> <span class="n">names</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="read_rwms-14"><a href="#read_rwms-14"><span class="linenos"> 14</span></a>    <span class="sd">&quot;&quot;&quot;Read rwms format from given folder structure. Returns a list of length nrw</span>
-</span><span id="read_rwms-15"><a href="#read_rwms-15"><span class="linenos"> 15</span></a>
-</span><span id="read_rwms-16"><a href="#read_rwms-16"><span class="linenos"> 16</span></a><span class="sd">    Parameters</span>
-</span><span id="read_rwms-17"><a href="#read_rwms-17"><span class="linenos"> 17</span></a><span class="sd">    ----------</span>
-</span><span id="read_rwms-18"><a href="#read_rwms-18"><span class="linenos"> 18</span></a><span class="sd">    path : str</span>
-</span><span id="read_rwms-19"><a href="#read_rwms-19"><span class="linenos"> 19</span></a><span class="sd">        path that contains the data files</span>
-</span><span id="read_rwms-20"><a href="#read_rwms-20"><span class="linenos"> 20</span></a><span class="sd">    prefix : str</span>
-</span><span id="read_rwms-21"><a href="#read_rwms-21"><span class="linenos"> 21</span></a><span class="sd">        all files in path that start with prefix are considered as input files.</span>
-</span><span id="read_rwms-22"><a href="#read_rwms-22"><span class="linenos"> 22</span></a><span class="sd">        May be used together postfix to consider only special file endings.</span>
-</span><span id="read_rwms-23"><a href="#read_rwms-23"><span class="linenos"> 23</span></a><span class="sd">        Prefix is ignored, if the keyword &#39;files&#39; is used.</span>
-</span><span id="read_rwms-24"><a href="#read_rwms-24"><span class="linenos"> 24</span></a><span class="sd">    version : str</span>
-</span><span id="read_rwms-25"><a href="#read_rwms-25"><span class="linenos"> 25</span></a><span class="sd">        version of openQCD, default 2.0</span>
-</span><span id="read_rwms-26"><a href="#read_rwms-26"><span class="linenos"> 26</span></a><span class="sd">    names : list</span>
-</span><span id="read_rwms-27"><a href="#read_rwms-27"><span class="linenos"> 27</span></a><span class="sd">        list of names that is assigned to the data according according</span>
-</span><span id="read_rwms-28"><a href="#read_rwms-28"><span class="linenos"> 28</span></a><span class="sd">        to the order in the file list. Use careful, if you do not provide file names!</span>
-</span><span id="read_rwms-29"><a href="#read_rwms-29"><span class="linenos"> 29</span></a><span class="sd">    r_start : list</span>
-</span><span id="read_rwms-30"><a href="#read_rwms-30"><span class="linenos"> 30</span></a><span class="sd">        list which contains the first config to be read for each replicum</span>
-</span><span id="read_rwms-31"><a href="#read_rwms-31"><span class="linenos"> 31</span></a><span class="sd">    r_stop : list</span>
-</span><span id="read_rwms-32"><a href="#read_rwms-32"><span class="linenos"> 32</span></a><span class="sd">        list which contains the last config to be read for each replicum</span>
-</span><span id="read_rwms-33"><a href="#read_rwms-33"><span class="linenos"> 33</span></a><span class="sd">    r_step : int</span>
-</span><span id="read_rwms-34"><a href="#read_rwms-34"><span class="linenos"> 34</span></a><span class="sd">        integer that defines a fixed step size between two measurements (in units of configs)</span>
-</span><span id="read_rwms-35"><a href="#read_rwms-35"><span class="linenos"> 35</span></a><span class="sd">        If not given, r_step=1 is assumed.</span>
-</span><span id="read_rwms-36"><a href="#read_rwms-36"><span class="linenos"> 36</span></a><span class="sd">    postfix : str</span>
-</span><span id="read_rwms-37"><a href="#read_rwms-37"><span class="linenos"> 37</span></a><span class="sd">        postfix of the file to read, e.g. &#39;.ms1&#39; for openQCD-files</span>
-</span><span id="read_rwms-38"><a href="#read_rwms-38"><span class="linenos"> 38</span></a><span class="sd">    files : list</span>
-</span><span id="read_rwms-39"><a href="#read_rwms-39"><span class="linenos"> 39</span></a><span class="sd">        list which contains the filenames to be read. No automatic detection of</span>
-</span><span id="read_rwms-40"><a href="#read_rwms-40"><span class="linenos"> 40</span></a><span class="sd">        files performed if given.</span>
-</span><span id="read_rwms-41"><a href="#read_rwms-41"><span class="linenos"> 41</span></a><span class="sd">    print_err : bool</span>
-</span><span id="read_rwms-42"><a href="#read_rwms-42"><span class="linenos"> 42</span></a><span class="sd">        Print additional information that is useful for debugging.</span>
-</span><span id="read_rwms-43"><a href="#read_rwms-43"><span class="linenos"> 43</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_rwms-44"><a href="#read_rwms-44"><span class="linenos"> 44</span></a>    <span class="n">known_oqcd_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;1.4&#39;</span><span class="p">,</span> <span class="s1">&#39;1.6&#39;</span><span class="p">,</span> <span class="s1">&#39;2.0&#39;</span><span class="p">]</span>
-</span><span id="read_rwms-45"><a href="#read_rwms-45"><span class="linenos"> 45</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">version</span> <span class="ow">in</span> <span class="n">known_oqcd_versions</span><span class="p">):</span>
-</span><span id="read_rwms-46"><a href="#read_rwms-46"><span class="linenos"> 46</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown openQCD version defined!&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-47"><a href="#read_rwms-47"><span class="linenos"> 47</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Working with openQCD version &quot;</span> <span class="o">+</span> <span class="n">version</span><span class="p">)</span>
-</span><span id="read_rwms-48"><a href="#read_rwms-48"><span class="linenos"> 48</span></a>    <span class="k">if</span> <span class="s1">&#39;postfix&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_rwms-49"><a href="#read_rwms-49"><span class="linenos"> 49</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;postfix&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-50"><a href="#read_rwms-50"><span class="linenos"> 50</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_rwms-51"><a href="#read_rwms-51"><span class="linenos"> 51</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="read_rwms-52"><a href="#read_rwms-52"><span class="linenos"> 52</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_rwms-53"><a href="#read_rwms-53"><span class="linenos"> 53</span></a>    <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
-</span><span id="read_rwms-54"><a href="#read_rwms-54"><span class="linenos"> 54</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
-</span><span id="read_rwms-55"><a href="#read_rwms-55"><span class="linenos"> 55</span></a>        <span class="k">break</span>
-</span><span id="read_rwms-56"><a href="#read_rwms-56"><span class="linenos"> 56</span></a>
-</span><span id="read_rwms-57"><a href="#read_rwms-57"><span class="linenos"> 57</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="read_rwms-58"><a href="#read_rwms-58"><span class="linenos"> 58</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-59"><a href="#read_rwms-59"><span class="linenos"> 59</span></a>    <span class="k">if</span> <span class="s1">&#39;files&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_rwms-60"><a href="#read_rwms-60"><span class="linenos"> 60</span></a>        <span class="n">ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;files&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-61"><a href="#read_rwms-61"><span class="linenos"> 61</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_rwms-62"><a href="#read_rwms-62"><span class="linenos"> 62</span></a>        <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="read_rwms-63"><a href="#read_rwms-63"><span class="linenos"> 63</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*&#39;</span> <span class="o">+</span> <span class="n">postfix</span> <span class="o">+</span> <span class="s1">&#39;.dat&#39;</span><span class="p">):</span>
-</span><span id="read_rwms-64"><a href="#read_rwms-64"><span class="linenos"> 64</span></a>                <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="read_rwms-65"><a href="#read_rwms-65"><span class="linenos"> 65</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_rwms-66"><a href="#read_rwms-66"><span class="linenos"> 66</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
-</span><span id="read_rwms-67"><a href="#read_rwms-67"><span class="linenos"> 67</span></a>    <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
-</span><span id="read_rwms-68"><a href="#read_rwms-68"><span class="linenos"> 68</span></a>
-</span><span id="read_rwms-69"><a href="#read_rwms-69"><span class="linenos"> 69</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_rwms-70"><a href="#read_rwms-70"><span class="linenos"> 70</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-71"><a href="#read_rwms-71"><span class="linenos"> 71</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="read_rwms-72"><a href="#read_rwms-72"><span class="linenos"> 72</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-73"><a href="#read_rwms-73"><span class="linenos"> 73</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
-</span><span id="read_rwms-74"><a href="#read_rwms-74"><span class="linenos"> 74</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_rwms-75"><a href="#read_rwms-75"><span class="linenos"> 75</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
-</span><span id="read_rwms-76"><a href="#read_rwms-76"><span class="linenos"> 76</span></a>
-</span><span id="read_rwms-77"><a href="#read_rwms-77"><span class="linenos"> 77</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_rwms-78"><a href="#read_rwms-78"><span class="linenos"> 78</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-79"><a href="#read_rwms-79"><span class="linenos"> 79</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="read_rwms-80"><a href="#read_rwms-80"><span class="linenos"> 80</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-81"><a href="#read_rwms-81"><span class="linenos"> 81</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_rwms-82"><a href="#read_rwms-82"><span class="linenos"> 82</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
-</span><span id="read_rwms-83"><a href="#read_rwms-83"><span class="linenos"> 83</span></a>
-</span><span id="read_rwms-84"><a href="#read_rwms-84"><span class="linenos"> 84</span></a>    <span class="k">if</span> <span class="s1">&#39;r_step&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_rwms-85"><a href="#read_rwms-85"><span class="linenos"> 85</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_step&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-86"><a href="#read_rwms-86"><span class="linenos"> 86</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_rwms-87"><a href="#read_rwms-87"><span class="linenos"> 87</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="read_rwms-88"><a href="#read_rwms-88"><span class="linenos"> 88</span></a>
-</span><span id="read_rwms-89"><a href="#read_rwms-89"><span class="linenos"> 89</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Read reweighting factors from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span>
-</span><span id="read_rwms-90"><a href="#read_rwms-90"><span class="linenos"> 90</span></a>          <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">,</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-91"><a href="#read_rwms-91"><span class="linenos"> 91</span></a>
-</span><span id="read_rwms-92"><a href="#read_rwms-92"><span class="linenos"> 92</span></a>    <span class="k">if</span> <span class="n">names</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_rwms-93"><a href="#read_rwms-93"><span class="linenos"> 93</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_rwms-94"><a href="#read_rwms-94"><span class="linenos"> 94</span></a>        <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="read_rwms-95"><a href="#read_rwms-95"><span class="linenos"> 95</span></a>            <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span>
-</span><span id="read_rwms-96"><a href="#read_rwms-96"><span class="linenos"> 96</span></a>            <span class="n">suffixes</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;.dat&quot;</span><span class="p">,</span> <span class="s2">&quot;.rwms&quot;</span><span class="p">,</span> <span class="s2">&quot;.ms1&quot;</span><span class="p">]</span>
-</span><span id="read_rwms-97"><a href="#read_rwms-97"><span class="linenos"> 97</span></a>            <span class="k">for</span> <span class="n">suffix</span> <span class="ow">in</span> <span class="n">suffixes</span><span class="p">:</span>
-</span><span id="read_rwms-98"><a href="#read_rwms-98"><span class="linenos"> 98</span></a>                <span class="k">if</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="n">suffix</span><span class="p">):</span>
-</span><span id="read_rwms-99"><a href="#read_rwms-99"><span class="linenos"> 99</span></a>                    <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">suffix</span><span class="p">)]</span>
-</span><span id="read_rwms-100"><a href="#read_rwms-100"><span class="linenos">100</span></a>            <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-101"><a href="#read_rwms-101"><span class="linenos">101</span></a>            <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="read_rwms-102"><a href="#read_rwms-102"><span class="linenos">102</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_rwms-103"><a href="#read_rwms-103"><span class="linenos">103</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="n">names</span>
-</span><span id="read_rwms-104"><a href="#read_rwms-104"><span class="linenos">104</span></a>
-</span><span id="read_rwms-105"><a href="#read_rwms-105"><span class="linenos">105</span></a>    <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="read_rwms-106"><a href="#read_rwms-106"><span class="linenos">106</span></a>    <span class="k">if</span> <span class="s1">&#39;print_err&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_rwms-107"><a href="#read_rwms-107"><span class="linenos">107</span></a>        <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="read_rwms-108"><a href="#read_rwms-108"><span class="linenos">108</span></a>        <span class="nb">print</span><span class="p">()</span>
-</span><span id="read_rwms-109"><a href="#read_rwms-109"><span class="linenos">109</span></a>
-</span><span id="read_rwms-110"><a href="#read_rwms-110"><span class="linenos">110</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_rwms-111"><a href="#read_rwms-111"><span class="linenos">111</span></a>
-</span><span id="read_rwms-112"><a href="#read_rwms-112"><span class="linenos">112</span></a>    <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_rwms-113"><a href="#read_rwms-113"><span class="linenos">113</span></a>    <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_rwms-114"><a href="#read_rwms-114"><span class="linenos">114</span></a>    <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_rwms-115"><a href="#read_rwms-115"><span class="linenos">115</span></a>
-</span><span id="read_rwms-116"><a href="#read_rwms-116"><span class="linenos">116</span></a>    <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
-</span><span id="read_rwms-117"><a href="#read_rwms-117"><span class="linenos">117</span></a>        <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_rwms-118"><a href="#read_rwms-118"><span class="linenos">118</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="read_rwms-119"><a href="#read_rwms-119"><span class="linenos">119</span></a>
-</span><span id="read_rwms-120"><a href="#read_rwms-120"><span class="linenos">120</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>  <span class="c1"># number of reweighting factors</span>
-</span><span id="read_rwms-121"><a href="#read_rwms-121"><span class="linenos">121</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_rwms-122"><a href="#read_rwms-122"><span class="linenos">122</span></a>                <span class="n">nrw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="read_rwms-123"><a href="#read_rwms-123"><span class="linenos">123</span></a>                <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">:</span>
-</span><span id="read_rwms-124"><a href="#read_rwms-124"><span class="linenos">124</span></a>                    <span class="n">nrw</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">nrw</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="read_rwms-125"><a href="#read_rwms-125"><span class="linenos">125</span></a>                <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_rwms-126"><a href="#read_rwms-126"><span class="linenos">126</span></a>                    <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="read_rwms-127"><a href="#read_rwms-127"><span class="linenos">127</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_rwms-128"><a href="#read_rwms-128"><span class="linenos">128</span></a>                <span class="k">if</span> <span class="p">((</span><span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">and</span> <span class="p">(</span><span class="ow">not</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">))</span> <span class="ow">or</span> <span class="p">(</span><span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mi">2</span> <span class="ow">and</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">)):</span>
-</span><span id="read_rwms-129"><a href="#read_rwms-129"><span class="linenos">129</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: different number of reweighting factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span>
-</span><span id="read_rwms-130"><a href="#read_rwms-130"><span class="linenos">130</span></a>
-</span><span id="read_rwms-131"><a href="#read_rwms-131"><span class="linenos">131</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_rwms-132"><a href="#read_rwms-132"><span class="linenos">132</span></a>                <span class="n">tmp_array</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="read_rwms-133"><a href="#read_rwms-133"><span class="linenos">133</span></a>
-</span><span id="read_rwms-134"><a href="#read_rwms-134"><span class="linenos">134</span></a>            <span class="c1"># This block is necessary for openQCD1.6 and openQCD2.0 ms1 files</span>
-</span><span id="read_rwms-135"><a href="#read_rwms-135"><span class="linenos">135</span></a>            <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_rwms-136"><a href="#read_rwms-136"><span class="linenos">136</span></a>            <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;1.6&#39;</span><span class="p">,</span> <span class="s1">&#39;2.0&#39;</span><span class="p">]:</span>
-</span><span id="read_rwms-137"><a href="#read_rwms-137"><span class="linenos">137</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_rwms-138"><a href="#read_rwms-138"><span class="linenos">138</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="read_rwms-139"><a href="#read_rwms-139"><span class="linenos">139</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="read_rwms-140"><a href="#read_rwms-140"><span class="linenos">140</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_rwms-141"><a href="#read_rwms-141"><span class="linenos">141</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_rwms-142"><a href="#read_rwms-142"><span class="linenos">142</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="read_rwms-143"><a href="#read_rwms-143"><span class="linenos">143</span></a>
-</span><span id="read_rwms-144"><a href="#read_rwms-144"><span class="linenos">144</span></a>            <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_rwms-145"><a href="#read_rwms-145"><span class="linenos">145</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_rwms-146"><a href="#read_rwms-146"><span class="linenos">146</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="read_rwms-147"><a href="#read_rwms-147"><span class="linenos">147</span></a>                <span class="n">nsrc</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="read_rwms-148"><a href="#read_rwms-148"><span class="linenos">148</span></a>            <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">:</span>
-</span><span id="read_rwms-149"><a href="#read_rwms-149"><span class="linenos">149</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">))[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_rwms-150"><a href="#read_rwms-150"><span class="linenos">150</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;something is wrong!&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-151"><a href="#read_rwms-151"><span class="linenos">151</span></a>
-</span><span id="read_rwms-152"><a href="#read_rwms-152"><span class="linenos">152</span></a>            <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="read_rwms-153"><a href="#read_rwms-153"><span class="linenos">153</span></a>            <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_rwms-154"><a href="#read_rwms-154"><span class="linenos">154</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="read_rwms-155"><a href="#read_rwms-155"><span class="linenos">155</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">:</span>
-</span><span id="read_rwms-156"><a href="#read_rwms-156"><span class="linenos">156</span></a>                    <span class="k">break</span>
-</span><span id="read_rwms-157"><a href="#read_rwms-157"><span class="linenos">157</span></a>                <span class="n">config_no</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="read_rwms-158"><a href="#read_rwms-158"><span class="linenos">158</span></a>                <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">config_no</span><span class="p">)</span>
-</span><span id="read_rwms-159"><a href="#read_rwms-159"><span class="linenos">159</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_rwms-160"><a href="#read_rwms-160"><span class="linenos">160</span></a>                    <span class="k">if</span><span class="p">(</span><span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">):</span>
-</span><span id="read_rwms-161"><a href="#read_rwms-161"><span class="linenos">161</span></a>                        <span class="n">tmpd</span> <span class="o">=</span> <span class="n">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">)</span>
+    <a class="headerlink" href="#read_rwms"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_rwms-14"><a href="#read_rwms-14"><span class="linenos"> 14</span></a><span class="k">def</span> <span class="nf">read_rwms</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s1">&#39;2.0&#39;</span><span class="p">,</span> <span class="n">names</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="read_rwms-15"><a href="#read_rwms-15"><span class="linenos"> 15</span></a>    <span class="sd">&quot;&quot;&quot;Read rwms format from given folder structure. Returns a list of length nrw</span>
+</span><span id="read_rwms-16"><a href="#read_rwms-16"><span class="linenos"> 16</span></a>
+</span><span id="read_rwms-17"><a href="#read_rwms-17"><span class="linenos"> 17</span></a><span class="sd">    Parameters</span>
+</span><span id="read_rwms-18"><a href="#read_rwms-18"><span class="linenos"> 18</span></a><span class="sd">    ----------</span>
+</span><span id="read_rwms-19"><a href="#read_rwms-19"><span class="linenos"> 19</span></a><span class="sd">    path : str</span>
+</span><span id="read_rwms-20"><a href="#read_rwms-20"><span class="linenos"> 20</span></a><span class="sd">        path that contains the data files</span>
+</span><span id="read_rwms-21"><a href="#read_rwms-21"><span class="linenos"> 21</span></a><span class="sd">    prefix : str</span>
+</span><span id="read_rwms-22"><a href="#read_rwms-22"><span class="linenos"> 22</span></a><span class="sd">        all files in path that start with prefix are considered as input files.</span>
+</span><span id="read_rwms-23"><a href="#read_rwms-23"><span class="linenos"> 23</span></a><span class="sd">        May be used together postfix to consider only special file endings.</span>
+</span><span id="read_rwms-24"><a href="#read_rwms-24"><span class="linenos"> 24</span></a><span class="sd">        Prefix is ignored, if the keyword &#39;files&#39; is used.</span>
+</span><span id="read_rwms-25"><a href="#read_rwms-25"><span class="linenos"> 25</span></a><span class="sd">    version : str</span>
+</span><span id="read_rwms-26"><a href="#read_rwms-26"><span class="linenos"> 26</span></a><span class="sd">        version of openQCD, default 2.0</span>
+</span><span id="read_rwms-27"><a href="#read_rwms-27"><span class="linenos"> 27</span></a><span class="sd">    names : list</span>
+</span><span id="read_rwms-28"><a href="#read_rwms-28"><span class="linenos"> 28</span></a><span class="sd">        list of names that is assigned to the data according according</span>
+</span><span id="read_rwms-29"><a href="#read_rwms-29"><span class="linenos"> 29</span></a><span class="sd">        to the order in the file list. Use careful, if you do not provide file names!</span>
+</span><span id="read_rwms-30"><a href="#read_rwms-30"><span class="linenos"> 30</span></a><span class="sd">    r_start : list</span>
+</span><span id="read_rwms-31"><a href="#read_rwms-31"><span class="linenos"> 31</span></a><span class="sd">        list which contains the first config to be read for each replicum</span>
+</span><span id="read_rwms-32"><a href="#read_rwms-32"><span class="linenos"> 32</span></a><span class="sd">    r_stop : list</span>
+</span><span id="read_rwms-33"><a href="#read_rwms-33"><span class="linenos"> 33</span></a><span class="sd">        list which contains the last config to be read for each replicum</span>
+</span><span id="read_rwms-34"><a href="#read_rwms-34"><span class="linenos"> 34</span></a><span class="sd">    r_step : int</span>
+</span><span id="read_rwms-35"><a href="#read_rwms-35"><span class="linenos"> 35</span></a><span class="sd">        integer that defines a fixed step size between two measurements (in units of configs)</span>
+</span><span id="read_rwms-36"><a href="#read_rwms-36"><span class="linenos"> 36</span></a><span class="sd">        If not given, r_step=1 is assumed.</span>
+</span><span id="read_rwms-37"><a href="#read_rwms-37"><span class="linenos"> 37</span></a><span class="sd">    postfix : str</span>
+</span><span id="read_rwms-38"><a href="#read_rwms-38"><span class="linenos"> 38</span></a><span class="sd">        postfix of the file to read, e.g. &#39;.ms1&#39; for openQCD-files</span>
+</span><span id="read_rwms-39"><a href="#read_rwms-39"><span class="linenos"> 39</span></a><span class="sd">    files : list</span>
+</span><span id="read_rwms-40"><a href="#read_rwms-40"><span class="linenos"> 40</span></a><span class="sd">        list which contains the filenames to be read. No automatic detection of</span>
+</span><span id="read_rwms-41"><a href="#read_rwms-41"><span class="linenos"> 41</span></a><span class="sd">        files performed if given.</span>
+</span><span id="read_rwms-42"><a href="#read_rwms-42"><span class="linenos"> 42</span></a><span class="sd">    print_err : bool</span>
+</span><span id="read_rwms-43"><a href="#read_rwms-43"><span class="linenos"> 43</span></a><span class="sd">        Print additional information that is useful for debugging.</span>
+</span><span id="read_rwms-44"><a href="#read_rwms-44"><span class="linenos"> 44</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_rwms-45"><a href="#read_rwms-45"><span class="linenos"> 45</span></a>    <span class="n">known_oqcd_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;1.4&#39;</span><span class="p">,</span> <span class="s1">&#39;1.6&#39;</span><span class="p">,</span> <span class="s1">&#39;2.0&#39;</span><span class="p">]</span>
+</span><span id="read_rwms-46"><a href="#read_rwms-46"><span class="linenos"> 46</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">version</span> <span class="ow">in</span> <span class="n">known_oqcd_versions</span><span class="p">):</span>
+</span><span id="read_rwms-47"><a href="#read_rwms-47"><span class="linenos"> 47</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown openQCD version defined!&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-48"><a href="#read_rwms-48"><span class="linenos"> 48</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Working with openQCD version &quot;</span> <span class="o">+</span> <span class="n">version</span><span class="p">)</span>
+</span><span id="read_rwms-49"><a href="#read_rwms-49"><span class="linenos"> 49</span></a>    <span class="k">if</span> <span class="s1">&#39;postfix&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_rwms-50"><a href="#read_rwms-50"><span class="linenos"> 50</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;postfix&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-51"><a href="#read_rwms-51"><span class="linenos"> 51</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_rwms-52"><a href="#read_rwms-52"><span class="linenos"> 52</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="read_rwms-53"><a href="#read_rwms-53"><span class="linenos"> 53</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_rwms-54"><a href="#read_rwms-54"><span class="linenos"> 54</span></a>    <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
+</span><span id="read_rwms-55"><a href="#read_rwms-55"><span class="linenos"> 55</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
+</span><span id="read_rwms-56"><a href="#read_rwms-56"><span class="linenos"> 56</span></a>        <span class="k">break</span>
+</span><span id="read_rwms-57"><a href="#read_rwms-57"><span class="linenos"> 57</span></a>
+</span><span id="read_rwms-58"><a href="#read_rwms-58"><span class="linenos"> 58</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="read_rwms-59"><a href="#read_rwms-59"><span class="linenos"> 59</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-60"><a href="#read_rwms-60"><span class="linenos"> 60</span></a>    <span class="k">if</span> <span class="s1">&#39;files&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_rwms-61"><a href="#read_rwms-61"><span class="linenos"> 61</span></a>        <span class="n">ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;files&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-62"><a href="#read_rwms-62"><span class="linenos"> 62</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_rwms-63"><a href="#read_rwms-63"><span class="linenos"> 63</span></a>        <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="read_rwms-64"><a href="#read_rwms-64"><span class="linenos"> 64</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*&#39;</span> <span class="o">+</span> <span class="n">postfix</span> <span class="o">+</span> <span class="s1">&#39;.dat&#39;</span><span class="p">):</span>
+</span><span id="read_rwms-65"><a href="#read_rwms-65"><span class="linenos"> 65</span></a>                <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="read_rwms-66"><a href="#read_rwms-66"><span class="linenos"> 66</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_rwms-67"><a href="#read_rwms-67"><span class="linenos"> 67</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
+</span><span id="read_rwms-68"><a href="#read_rwms-68"><span class="linenos"> 68</span></a>    <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
+</span><span id="read_rwms-69"><a href="#read_rwms-69"><span class="linenos"> 69</span></a>
+</span><span id="read_rwms-70"><a href="#read_rwms-70"><span class="linenos"> 70</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_rwms-71"><a href="#read_rwms-71"><span class="linenos"> 71</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-72"><a href="#read_rwms-72"><span class="linenos"> 72</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="read_rwms-73"><a href="#read_rwms-73"><span class="linenos"> 73</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-74"><a href="#read_rwms-74"><span class="linenos"> 74</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
+</span><span id="read_rwms-75"><a href="#read_rwms-75"><span class="linenos"> 75</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_rwms-76"><a href="#read_rwms-76"><span class="linenos"> 76</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
+</span><span id="read_rwms-77"><a href="#read_rwms-77"><span class="linenos"> 77</span></a>
+</span><span id="read_rwms-78"><a href="#read_rwms-78"><span class="linenos"> 78</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_rwms-79"><a href="#read_rwms-79"><span class="linenos"> 79</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-80"><a href="#read_rwms-80"><span class="linenos"> 80</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="read_rwms-81"><a href="#read_rwms-81"><span class="linenos"> 81</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-82"><a href="#read_rwms-82"><span class="linenos"> 82</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_rwms-83"><a href="#read_rwms-83"><span class="linenos"> 83</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
+</span><span id="read_rwms-84"><a href="#read_rwms-84"><span class="linenos"> 84</span></a>
+</span><span id="read_rwms-85"><a href="#read_rwms-85"><span class="linenos"> 85</span></a>    <span class="k">if</span> <span class="s1">&#39;r_step&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_rwms-86"><a href="#read_rwms-86"><span class="linenos"> 86</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_step&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-87"><a href="#read_rwms-87"><span class="linenos"> 87</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_rwms-88"><a href="#read_rwms-88"><span class="linenos"> 88</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="read_rwms-89"><a href="#read_rwms-89"><span class="linenos"> 89</span></a>
+</span><span id="read_rwms-90"><a href="#read_rwms-90"><span class="linenos"> 90</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Read reweighting factors from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span>
+</span><span id="read_rwms-91"><a href="#read_rwms-91"><span class="linenos"> 91</span></a>          <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">,</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-92"><a href="#read_rwms-92"><span class="linenos"> 92</span></a>
+</span><span id="read_rwms-93"><a href="#read_rwms-93"><span class="linenos"> 93</span></a>    <span class="k">if</span> <span class="n">names</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_rwms-94"><a href="#read_rwms-94"><span class="linenos"> 94</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_rwms-95"><a href="#read_rwms-95"><span class="linenos"> 95</span></a>        <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="read_rwms-96"><a href="#read_rwms-96"><span class="linenos"> 96</span></a>            <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span>
+</span><span id="read_rwms-97"><a href="#read_rwms-97"><span class="linenos"> 97</span></a>            <span class="n">suffixes</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;.dat&quot;</span><span class="p">,</span> <span class="s2">&quot;.rwms&quot;</span><span class="p">,</span> <span class="s2">&quot;.ms1&quot;</span><span class="p">]</span>
+</span><span id="read_rwms-98"><a href="#read_rwms-98"><span class="linenos"> 98</span></a>            <span class="k">for</span> <span class="n">suffix</span> <span class="ow">in</span> <span class="n">suffixes</span><span class="p">:</span>
+</span><span id="read_rwms-99"><a href="#read_rwms-99"><span class="linenos"> 99</span></a>                <span class="k">if</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="n">suffix</span><span class="p">):</span>
+</span><span id="read_rwms-100"><a href="#read_rwms-100"><span class="linenos">100</span></a>                    <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">suffix</span><span class="p">)]</span>
+</span><span id="read_rwms-101"><a href="#read_rwms-101"><span class="linenos">101</span></a>            <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-102"><a href="#read_rwms-102"><span class="linenos">102</span></a>            <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="read_rwms-103"><a href="#read_rwms-103"><span class="linenos">103</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_rwms-104"><a href="#read_rwms-104"><span class="linenos">104</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="n">names</span>
+</span><span id="read_rwms-105"><a href="#read_rwms-105"><span class="linenos">105</span></a>
+</span><span id="read_rwms-106"><a href="#read_rwms-106"><span class="linenos">106</span></a>    <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="read_rwms-107"><a href="#read_rwms-107"><span class="linenos">107</span></a>    <span class="k">if</span> <span class="s1">&#39;print_err&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_rwms-108"><a href="#read_rwms-108"><span class="linenos">108</span></a>        <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="read_rwms-109"><a href="#read_rwms-109"><span class="linenos">109</span></a>        <span class="nb">print</span><span class="p">()</span>
+</span><span id="read_rwms-110"><a href="#read_rwms-110"><span class="linenos">110</span></a>
+</span><span id="read_rwms-111"><a href="#read_rwms-111"><span class="linenos">111</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_rwms-112"><a href="#read_rwms-112"><span class="linenos">112</span></a>
+</span><span id="read_rwms-113"><a href="#read_rwms-113"><span class="linenos">113</span></a>    <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_rwms-114"><a href="#read_rwms-114"><span class="linenos">114</span></a>    <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_rwms-115"><a href="#read_rwms-115"><span class="linenos">115</span></a>    <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_rwms-116"><a href="#read_rwms-116"><span class="linenos">116</span></a>
+</span><span id="read_rwms-117"><a href="#read_rwms-117"><span class="linenos">117</span></a>    <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
+</span><span id="read_rwms-118"><a href="#read_rwms-118"><span class="linenos">118</span></a>        <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_rwms-119"><a href="#read_rwms-119"><span class="linenos">119</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="read_rwms-120"><a href="#read_rwms-120"><span class="linenos">120</span></a>
+</span><span id="read_rwms-121"><a href="#read_rwms-121"><span class="linenos">121</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>  <span class="c1"># number of reweighting factors</span>
+</span><span id="read_rwms-122"><a href="#read_rwms-122"><span class="linenos">122</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_rwms-123"><a href="#read_rwms-123"><span class="linenos">123</span></a>                <span class="n">nrw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="read_rwms-124"><a href="#read_rwms-124"><span class="linenos">124</span></a>                <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">:</span>
+</span><span id="read_rwms-125"><a href="#read_rwms-125"><span class="linenos">125</span></a>                    <span class="n">nrw</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">nrw</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="read_rwms-126"><a href="#read_rwms-126"><span class="linenos">126</span></a>                <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_rwms-127"><a href="#read_rwms-127"><span class="linenos">127</span></a>                    <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="read_rwms-128"><a href="#read_rwms-128"><span class="linenos">128</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_rwms-129"><a href="#read_rwms-129"><span class="linenos">129</span></a>                <span class="k">if</span> <span class="p">((</span><span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">and</span> <span class="p">(</span><span class="ow">not</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">))</span> <span class="ow">or</span> <span class="p">(</span><span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mi">2</span> <span class="ow">and</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">)):</span>
+</span><span id="read_rwms-130"><a href="#read_rwms-130"><span class="linenos">130</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: different number of reweighting factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span>
+</span><span id="read_rwms-131"><a href="#read_rwms-131"><span class="linenos">131</span></a>
+</span><span id="read_rwms-132"><a href="#read_rwms-132"><span class="linenos">132</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_rwms-133"><a href="#read_rwms-133"><span class="linenos">133</span></a>                <span class="n">tmp_array</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="read_rwms-134"><a href="#read_rwms-134"><span class="linenos">134</span></a>
+</span><span id="read_rwms-135"><a href="#read_rwms-135"><span class="linenos">135</span></a>            <span class="c1"># This block is necessary for openQCD1.6 and openQCD2.0 ms1 files</span>
+</span><span id="read_rwms-136"><a href="#read_rwms-136"><span class="linenos">136</span></a>            <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_rwms-137"><a href="#read_rwms-137"><span class="linenos">137</span></a>            <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;1.6&#39;</span><span class="p">,</span> <span class="s1">&#39;2.0&#39;</span><span class="p">]:</span>
+</span><span id="read_rwms-138"><a href="#read_rwms-138"><span class="linenos">138</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_rwms-139"><a href="#read_rwms-139"><span class="linenos">139</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="read_rwms-140"><a href="#read_rwms-140"><span class="linenos">140</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="read_rwms-141"><a href="#read_rwms-141"><span class="linenos">141</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_rwms-142"><a href="#read_rwms-142"><span class="linenos">142</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_rwms-143"><a href="#read_rwms-143"><span class="linenos">143</span></a>                    <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="read_rwms-144"><a href="#read_rwms-144"><span class="linenos">144</span></a>
+</span><span id="read_rwms-145"><a href="#read_rwms-145"><span class="linenos">145</span></a>            <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_rwms-146"><a href="#read_rwms-146"><span class="linenos">146</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_rwms-147"><a href="#read_rwms-147"><span class="linenos">147</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="read_rwms-148"><a href="#read_rwms-148"><span class="linenos">148</span></a>                <span class="n">nsrc</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="read_rwms-149"><a href="#read_rwms-149"><span class="linenos">149</span></a>            <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">:</span>
+</span><span id="read_rwms-150"><a href="#read_rwms-150"><span class="linenos">150</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">))[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_rwms-151"><a href="#read_rwms-151"><span class="linenos">151</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;something is wrong!&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-152"><a href="#read_rwms-152"><span class="linenos">152</span></a>
+</span><span id="read_rwms-153"><a href="#read_rwms-153"><span class="linenos">153</span></a>            <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="read_rwms-154"><a href="#read_rwms-154"><span class="linenos">154</span></a>            <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_rwms-155"><a href="#read_rwms-155"><span class="linenos">155</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="read_rwms-156"><a href="#read_rwms-156"><span class="linenos">156</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">:</span>
+</span><span id="read_rwms-157"><a href="#read_rwms-157"><span class="linenos">157</span></a>                    <span class="k">break</span>
+</span><span id="read_rwms-158"><a href="#read_rwms-158"><span class="linenos">158</span></a>                <span class="n">config_no</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="read_rwms-159"><a href="#read_rwms-159"><span class="linenos">159</span></a>                <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">config_no</span><span class="p">)</span>
+</span><span id="read_rwms-160"><a href="#read_rwms-160"><span class="linenos">160</span></a>                <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_rwms-161"><a href="#read_rwms-161"><span class="linenos">161</span></a>                    <span class="k">if</span><span class="p">(</span><span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">):</span>
 </span><span id="read_rwms-162"><a href="#read_rwms-162"><span class="linenos">162</span></a>                        <span class="n">tmpd</span> <span class="o">=</span> <span class="n">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">)</span>
-</span><span id="read_rwms-163"><a href="#read_rwms-163"><span class="linenos">163</span></a>                        <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">tmpd</span><span class="p">[</span><span class="s1">&#39;arr&#39;</span><span class="p">]</span>
-</span><span id="read_rwms-164"><a href="#read_rwms-164"><span class="linenos">164</span></a>                        <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
-</span><span id="read_rwms-165"><a href="#read_rwms-165"><span class="linenos">165</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">tmpd</span><span class="p">[</span><span class="s1">&#39;n&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]):</span>
-</span><span id="read_rwms-166"><a href="#read_rwms-166"><span class="linenos">166</span></a>                            <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">])))</span>
-</span><span id="read_rwms-167"><a href="#read_rwms-167"><span class="linenos">167</span></a>                            <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
-</span><span id="read_rwms-168"><a href="#read_rwms-168"><span class="linenos">168</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span>
-</span><span id="read_rwms-169"><a href="#read_rwms-169"><span class="linenos">169</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">]))),</span>
-</span><span id="read_rwms-170"><a href="#read_rwms-170"><span class="linenos">170</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">]))))</span>
-</span><span id="read_rwms-171"><a href="#read_rwms-171"><span class="linenos">171</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span>
-</span><span id="read_rwms-172"><a href="#read_rwms-172"><span class="linenos">172</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">])))</span>
-</span><span id="read_rwms-173"><a href="#read_rwms-173"><span class="linenos">173</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
-</span><span id="read_rwms-174"><a href="#read_rwms-174"><span class="linenos">174</span></a>                    <span class="k">elif</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;1.6&#39;</span> <span class="ow">or</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;1.4&#39;</span><span class="p">:</span>
-</span><span id="read_rwms-175"><a href="#read_rwms-175"><span class="linenos">175</span></a>                        <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
-</span><span id="read_rwms-176"><a href="#read_rwms-176"><span class="linenos">176</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nfct</span><span class="p">[</span><span class="n">i</span><span class="p">]):</span>
-</span><span id="read_rwms-177"><a href="#read_rwms-177"><span class="linenos">177</span></a>                            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+</span><span id="read_rwms-163"><a href="#read_rwms-163"><span class="linenos">163</span></a>                        <span class="n">tmpd</span> <span class="o">=</span> <span class="n">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">)</span>
+</span><span id="read_rwms-164"><a href="#read_rwms-164"><span class="linenos">164</span></a>                        <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">tmpd</span><span class="p">[</span><span class="s1">&#39;arr&#39;</span><span class="p">]</span>
+</span><span id="read_rwms-165"><a href="#read_rwms-165"><span class="linenos">165</span></a>                        <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
+</span><span id="read_rwms-166"><a href="#read_rwms-166"><span class="linenos">166</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">tmpd</span><span class="p">[</span><span class="s1">&#39;n&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]):</span>
+</span><span id="read_rwms-167"><a href="#read_rwms-167"><span class="linenos">167</span></a>                            <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">])))</span>
+</span><span id="read_rwms-168"><a href="#read_rwms-168"><span class="linenos">168</span></a>                            <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
+</span><span id="read_rwms-169"><a href="#read_rwms-169"><span class="linenos">169</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span>
+</span><span id="read_rwms-170"><a href="#read_rwms-170"><span class="linenos">170</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">]))),</span>
+</span><span id="read_rwms-171"><a href="#read_rwms-171"><span class="linenos">171</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">]))))</span>
+</span><span id="read_rwms-172"><a href="#read_rwms-172"><span class="linenos">172</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span>
+</span><span id="read_rwms-173"><a href="#read_rwms-173"><span class="linenos">173</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">])))</span>
+</span><span id="read_rwms-174"><a href="#read_rwms-174"><span class="linenos">174</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
+</span><span id="read_rwms-175"><a href="#read_rwms-175"><span class="linenos">175</span></a>                    <span class="k">elif</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;1.6&#39;</span> <span class="ow">or</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;1.4&#39;</span><span class="p">:</span>
+</span><span id="read_rwms-176"><a href="#read_rwms-176"><span class="linenos">176</span></a>                        <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
+</span><span id="read_rwms-177"><a href="#read_rwms-177"><span class="linenos">177</span></a>                        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nfct</span><span class="p">[</span><span class="n">i</span><span class="p">]):</span>
 </span><span id="read_rwms-178"><a href="#read_rwms-178"><span class="linenos">178</span></a>                            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
-</span><span id="read_rwms-179"><a href="#read_rwms-179"><span class="linenos">179</span></a>                            <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="read_rwms-180"><a href="#read_rwms-180"><span class="linenos">180</span></a>                            <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
-</span><span id="read_rwms-181"><a href="#read_rwms-181"><span class="linenos">181</span></a>                            <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
-</span><span id="read_rwms-182"><a href="#read_rwms-182"><span class="linenos">182</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span>
-</span><span id="read_rwms-183"><a href="#read_rwms-183"><span class="linenos">183</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))),</span>
-</span><span id="read_rwms-184"><a href="#read_rwms-184"><span class="linenos">184</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))))</span>
-</span><span id="read_rwms-185"><a href="#read_rwms-185"><span class="linenos">185</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
-</span><span id="read_rwms-186"><a href="#read_rwms-186"><span class="linenos">186</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
-</span><span id="read_rwms-187"><a href="#read_rwms-187"><span class="linenos">187</span></a>                    <span class="n">tmp_array</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_nfct</span><span class="p">)</span>
-</span><span id="read_rwms-188"><a href="#read_rwms-188"><span class="linenos">188</span></a>
-</span><span id="read_rwms-189"><a href="#read_rwms-189"><span class="linenos">189</span></a>            <span class="n">diffmeas</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="read_rwms-190"><a href="#read_rwms-190"><span class="linenos">190</span></a>            <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">//</span> <span class="n">diffmeas</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="read_rwms-191"><a href="#read_rwms-191"><span class="linenos">191</span></a>            <span class="k">if</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">diffmeas</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_rwms-192"><a href="#read_rwms-192"><span class="linenos">192</span></a>                <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config.&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-193"><a href="#read_rwms-193"><span class="linenos">193</span></a>                <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="read_rwms-194"><a href="#read_rwms-194"><span class="linenos">194</span></a>                <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="read_rwms-195"><a href="#read_rwms-195"><span class="linenos">195</span></a>
-</span><span id="read_rwms-196"><a href="#read_rwms-196"><span class="linenos">196</span></a>            <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_rwms-197"><a href="#read_rwms-197"><span class="linenos">197</span></a>                <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="read_rwms-198"><a href="#read_rwms-198"><span class="linenos">198</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_rwms-199"><a href="#read_rwms-199"><span class="linenos">199</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="read_rwms-200"><a href="#read_rwms-200"><span class="linenos">200</span></a>                    <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
-</span><span id="read_rwms-201"><a href="#read_rwms-201"><span class="linenos">201</span></a>                <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
-</span><span id="read_rwms-202"><a href="#read_rwms-202"><span class="linenos">202</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="read_rwms-203"><a href="#read_rwms-203"><span class="linenos">203</span></a>                        <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="read_rwms-204"><a href="#read_rwms-204"><span class="linenos">204</span></a>
-</span><span id="read_rwms-205"><a href="#read_rwms-205"><span class="linenos">205</span></a>            <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_rwms-206"><a href="#read_rwms-206"><span class="linenos">206</span></a>                <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="read_rwms-207"><a href="#read_rwms-207"><span class="linenos">207</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_rwms-208"><a href="#read_rwms-208"><span class="linenos">208</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="read_rwms-209"><a href="#read_rwms-209"><span class="linenos">209</span></a>                    <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
-</span><span id="read_rwms-210"><a href="#read_rwms-210"><span class="linenos">210</span></a>                <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
-</span><span id="read_rwms-211"><a href="#read_rwms-211"><span class="linenos">211</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="read_rwms-212"><a href="#read_rwms-212"><span class="linenos">212</span></a>                        <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="read_rwms-213"><a href="#read_rwms-213"><span class="linenos">213</span></a>
-</span><span id="read_rwms-214"><a href="#read_rwms-214"><span class="linenos">214</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_rwms-215"><a href="#read_rwms-215"><span class="linenos">215</span></a>                <span class="n">deltas</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_array</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][::</span><span class="n">r_step</span><span class="p">])</span>
-</span><span id="read_rwms-216"><a href="#read_rwms-216"><span class="linenos">216</span></a>
-</span><span id="read_rwms-217"><a href="#read_rwms-217"><span class="linenos">217</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]):</span>
-</span><span id="read_rwms-218"><a href="#read_rwms-218"><span class="linenos">218</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Irregular spaced data in input file!&#39;</span><span class="p">,</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">])</span>
-</span><span id="read_rwms-219"><a href="#read_rwms-219"><span class="linenos">219</span></a>    <span class="n">stepsizes</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]</span>
-</span><span id="read_rwms-220"><a href="#read_rwms-220"><span class="linenos">220</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">step</span> <span class="ow">in</span> <span class="n">stepsizes</span><span class="p">]):</span>
-</span><span id="read_rwms-221"><a href="#read_rwms-221"><span class="linenos">221</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Stepsize between configurations is greater than one!&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">stepsizes</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="read_rwms-222"><a href="#read_rwms-222"><span class="linenos">222</span></a>
-</span><span id="read_rwms-223"><a href="#read_rwms-223"><span class="linenos">223</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">nrw</span><span class="p">,</span> <span class="s1">&#39;reweighting factors with&#39;</span><span class="p">,</span> <span class="n">nsrc</span><span class="p">,</span> <span class="s1">&#39;sources&#39;</span><span class="p">)</span>
-</span><span id="read_rwms-224"><a href="#read_rwms-224"><span class="linenos">224</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_rwms-225"><a href="#read_rwms-225"><span class="linenos">225</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]],</span> <span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">r_step</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">)]</span>
-</span><span id="read_rwms-226"><a href="#read_rwms-226"><span class="linenos">226</span></a>
-</span><span id="read_rwms-227"><a href="#read_rwms-227"><span class="linenos">227</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
-</span><span id="read_rwms-228"><a href="#read_rwms-228"><span class="linenos">228</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
-</span><span id="read_rwms-229"><a href="#read_rwms-229"><span class="linenos">229</span></a>    <span class="k">return</span> <span class="n">result</span>
+</span><span id="read_rwms-179"><a href="#read_rwms-179"><span class="linenos">179</span></a>                            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+</span><span id="read_rwms-180"><a href="#read_rwms-180"><span class="linenos">180</span></a>                            <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="read_rwms-181"><a href="#read_rwms-181"><span class="linenos">181</span></a>                            <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
+</span><span id="read_rwms-182"><a href="#read_rwms-182"><span class="linenos">182</span></a>                            <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
+</span><span id="read_rwms-183"><a href="#read_rwms-183"><span class="linenos">183</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span>
+</span><span id="read_rwms-184"><a href="#read_rwms-184"><span class="linenos">184</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))),</span>
+</span><span id="read_rwms-185"><a href="#read_rwms-185"><span class="linenos">185</span></a>                                      <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))))</span>
+</span><span id="read_rwms-186"><a href="#read_rwms-186"><span class="linenos">186</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
+</span><span id="read_rwms-187"><a href="#read_rwms-187"><span class="linenos">187</span></a>                                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
+</span><span id="read_rwms-188"><a href="#read_rwms-188"><span class="linenos">188</span></a>                    <span class="n">tmp_array</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_nfct</span><span class="p">)</span>
+</span><span id="read_rwms-189"><a href="#read_rwms-189"><span class="linenos">189</span></a>
+</span><span id="read_rwms-190"><a href="#read_rwms-190"><span class="linenos">190</span></a>            <span class="n">diffmeas</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="read_rwms-191"><a href="#read_rwms-191"><span class="linenos">191</span></a>            <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">//</span> <span class="n">diffmeas</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="read_rwms-192"><a href="#read_rwms-192"><span class="linenos">192</span></a>            <span class="k">if</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">diffmeas</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_rwms-193"><a href="#read_rwms-193"><span class="linenos">193</span></a>                <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config.&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-194"><a href="#read_rwms-194"><span class="linenos">194</span></a>                <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="read_rwms-195"><a href="#read_rwms-195"><span class="linenos">195</span></a>                <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="read_rwms-196"><a href="#read_rwms-196"><span class="linenos">196</span></a>
+</span><span id="read_rwms-197"><a href="#read_rwms-197"><span class="linenos">197</span></a>            <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_rwms-198"><a href="#read_rwms-198"><span class="linenos">198</span></a>                <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="read_rwms-199"><a href="#read_rwms-199"><span class="linenos">199</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_rwms-200"><a href="#read_rwms-200"><span class="linenos">200</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="read_rwms-201"><a href="#read_rwms-201"><span class="linenos">201</span></a>                    <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
+</span><span id="read_rwms-202"><a href="#read_rwms-202"><span class="linenos">202</span></a>                <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+</span><span id="read_rwms-203"><a href="#read_rwms-203"><span class="linenos">203</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="read_rwms-204"><a href="#read_rwms-204"><span class="linenos">204</span></a>                        <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="read_rwms-205"><a href="#read_rwms-205"><span class="linenos">205</span></a>
+</span><span id="read_rwms-206"><a href="#read_rwms-206"><span class="linenos">206</span></a>            <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_rwms-207"><a href="#read_rwms-207"><span class="linenos">207</span></a>                <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="read_rwms-208"><a href="#read_rwms-208"><span class="linenos">208</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_rwms-209"><a href="#read_rwms-209"><span class="linenos">209</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="read_rwms-210"><a href="#read_rwms-210"><span class="linenos">210</span></a>                    <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
+</span><span id="read_rwms-211"><a href="#read_rwms-211"><span class="linenos">211</span></a>                <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+</span><span id="read_rwms-212"><a href="#read_rwms-212"><span class="linenos">212</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="read_rwms-213"><a href="#read_rwms-213"><span class="linenos">213</span></a>                        <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="read_rwms-214"><a href="#read_rwms-214"><span class="linenos">214</span></a>
+</span><span id="read_rwms-215"><a href="#read_rwms-215"><span class="linenos">215</span></a>            <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_rwms-216"><a href="#read_rwms-216"><span class="linenos">216</span></a>                <span class="n">deltas</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_array</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][::</span><span class="n">r_step</span><span class="p">])</span>
+</span><span id="read_rwms-217"><a href="#read_rwms-217"><span class="linenos">217</span></a>
+</span><span id="read_rwms-218"><a href="#read_rwms-218"><span class="linenos">218</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]):</span>
+</span><span id="read_rwms-219"><a href="#read_rwms-219"><span class="linenos">219</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Irregular spaced data in input file!&#39;</span><span class="p">,</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">])</span>
+</span><span id="read_rwms-220"><a href="#read_rwms-220"><span class="linenos">220</span></a>    <span class="n">stepsizes</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]</span>
+</span><span id="read_rwms-221"><a href="#read_rwms-221"><span class="linenos">221</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">step</span> <span class="ow">in</span> <span class="n">stepsizes</span><span class="p">]):</span>
+</span><span id="read_rwms-222"><a href="#read_rwms-222"><span class="linenos">222</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Stepsize between configurations is greater than one!&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">stepsizes</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="read_rwms-223"><a href="#read_rwms-223"><span class="linenos">223</span></a>
+</span><span id="read_rwms-224"><a href="#read_rwms-224"><span class="linenos">224</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">nrw</span><span class="p">,</span> <span class="s1">&#39;reweighting factors with&#39;</span><span class="p">,</span> <span class="n">nsrc</span><span class="p">,</span> <span class="s1">&#39;sources&#39;</span><span class="p">)</span>
+</span><span id="read_rwms-225"><a href="#read_rwms-225"><span class="linenos">225</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_rwms-226"><a href="#read_rwms-226"><span class="linenos">226</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]],</span> <span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">r_step</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">)]</span>
+</span><span id="read_rwms-227"><a href="#read_rwms-227"><span class="linenos">227</span></a>
+</span><span id="read_rwms-228"><a href="#read_rwms-228"><span class="linenos">228</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
+</span><span id="read_rwms-229"><a href="#read_rwms-229"><span class="linenos">229</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
+</span><span id="read_rwms-230"><a href="#read_rwms-230"><span class="linenos">230</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Read rwms format from given folder structure. Returns a list of length nrw</p>
 
@@ -1206,262 +1207,262 @@ Print additional information that is useful for debugging.</li>
 
                 </section>
                 <section id="extract_t0">
-                            <div class="attr function"><a class="headerlink" href="#extract_t0">#&nbsp;&nbsp</a>
+                            <input id="extract_t0-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">extract_t0</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">prefix</span>, </span><span class="param"><span class="n">dtr_read</span>, </span><span class="param"><span class="n">xmin</span>, </span><span class="param"><span class="n">spatial_extent</span>, </span><span class="param"><span class="n">fit_range</span><span class="o">=</span><span class="mi">5</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="extract_t0-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">extract_t0</span><span class="signature">(path, prefix, dtr_read, xmin, spatial_extent, fit_range=5, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="extract_t0-232"><a href="#extract_t0-232"><span class="linenos">232</span></a><span class="k">def</span> <span class="nf">extract_t0</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">fit_range</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="extract_t0-233"><a href="#extract_t0-233"><span class="linenos">233</span></a>    <span class="sd">&quot;&quot;&quot;Extract t0 from given .ms.dat files. Returns t0 as Obs.</span>
-</span><span id="extract_t0-234"><a href="#extract_t0-234"><span class="linenos">234</span></a>
-</span><span id="extract_t0-235"><a href="#extract_t0-235"><span class="linenos">235</span></a><span class="sd">    It is assumed that all boundary effects have</span>
-</span><span id="extract_t0-236"><a href="#extract_t0-236"><span class="linenos">236</span></a><span class="sd">    sufficiently decayed at x0=xmin.</span>
-</span><span id="extract_t0-237"><a href="#extract_t0-237"><span class="linenos">237</span></a><span class="sd">    The data around the zero crossing of t^2&lt;E&gt; - 0.3</span>
-</span><span id="extract_t0-238"><a href="#extract_t0-238"><span class="linenos">238</span></a><span class="sd">    is fitted with a linear function</span>
-</span><span id="extract_t0-239"><a href="#extract_t0-239"><span class="linenos">239</span></a><span class="sd">    from which the exact root is extracted.</span>
-</span><span id="extract_t0-240"><a href="#extract_t0-240"><span class="linenos">240</span></a>
-</span><span id="extract_t0-241"><a href="#extract_t0-241"><span class="linenos">241</span></a><span class="sd">    It is assumed that one measurement is performed for each config.</span>
-</span><span id="extract_t0-242"><a href="#extract_t0-242"><span class="linenos">242</span></a><span class="sd">    If this is not the case, the resulting idl, as well as the handling</span>
-</span><span id="extract_t0-243"><a href="#extract_t0-243"><span class="linenos">243</span></a><span class="sd">    of r_start, r_stop and r_step is wrong and the user has to correct</span>
-</span><span id="extract_t0-244"><a href="#extract_t0-244"><span class="linenos">244</span></a><span class="sd">    this in the resulting observable.</span>
-</span><span id="extract_t0-245"><a href="#extract_t0-245"><span class="linenos">245</span></a>
-</span><span id="extract_t0-246"><a href="#extract_t0-246"><span class="linenos">246</span></a><span class="sd">    Parameters</span>
-</span><span id="extract_t0-247"><a href="#extract_t0-247"><span class="linenos">247</span></a><span class="sd">    ----------</span>
-</span><span id="extract_t0-248"><a href="#extract_t0-248"><span class="linenos">248</span></a><span class="sd">    path : str</span>
-</span><span id="extract_t0-249"><a href="#extract_t0-249"><span class="linenos">249</span></a><span class="sd">        Path to .ms.dat files</span>
-</span><span id="extract_t0-250"><a href="#extract_t0-250"><span class="linenos">250</span></a><span class="sd">    prefix : str</span>
-</span><span id="extract_t0-251"><a href="#extract_t0-251"><span class="linenos">251</span></a><span class="sd">        Ensemble prefix</span>
-</span><span id="extract_t0-252"><a href="#extract_t0-252"><span class="linenos">252</span></a><span class="sd">    dtr_read : int</span>
-</span><span id="extract_t0-253"><a href="#extract_t0-253"><span class="linenos">253</span></a><span class="sd">        Determines how many trajectories should be skipped</span>
-</span><span id="extract_t0-254"><a href="#extract_t0-254"><span class="linenos">254</span></a><span class="sd">        when reading the ms.dat files.</span>
-</span><span id="extract_t0-255"><a href="#extract_t0-255"><span class="linenos">255</span></a><span class="sd">        Corresponds to dtr_cnfg / dtr_ms in the openQCD input file.</span>
-</span><span id="extract_t0-256"><a href="#extract_t0-256"><span class="linenos">256</span></a><span class="sd">    xmin : int</span>
-</span><span id="extract_t0-257"><a href="#extract_t0-257"><span class="linenos">257</span></a><span class="sd">        First timeslice where the boundary</span>
-</span><span id="extract_t0-258"><a href="#extract_t0-258"><span class="linenos">258</span></a><span class="sd">        effects have sufficiently decayed.</span>
-</span><span id="extract_t0-259"><a href="#extract_t0-259"><span class="linenos">259</span></a><span class="sd">    spatial_extent : int</span>
-</span><span id="extract_t0-260"><a href="#extract_t0-260"><span class="linenos">260</span></a><span class="sd">        spatial extent of the lattice, required for normalization.</span>
-</span><span id="extract_t0-261"><a href="#extract_t0-261"><span class="linenos">261</span></a><span class="sd">    fit_range : int</span>
-</span><span id="extract_t0-262"><a href="#extract_t0-262"><span class="linenos">262</span></a><span class="sd">        Number of data points left and right of the zero</span>
-</span><span id="extract_t0-263"><a href="#extract_t0-263"><span class="linenos">263</span></a><span class="sd">        crossing to be included in the linear fit. (Default: 5)</span>
-</span><span id="extract_t0-264"><a href="#extract_t0-264"><span class="linenos">264</span></a><span class="sd">    r_start : list</span>
-</span><span id="extract_t0-265"><a href="#extract_t0-265"><span class="linenos">265</span></a><span class="sd">        list which contains the first config to be read for each replicum.</span>
-</span><span id="extract_t0-266"><a href="#extract_t0-266"><span class="linenos">266</span></a><span class="sd">    r_stop : list</span>
-</span><span id="extract_t0-267"><a href="#extract_t0-267"><span class="linenos">267</span></a><span class="sd">        list which contains the last config to be read for each replicum.</span>
-</span><span id="extract_t0-268"><a href="#extract_t0-268"><span class="linenos">268</span></a><span class="sd">    r_step : int</span>
-</span><span id="extract_t0-269"><a href="#extract_t0-269"><span class="linenos">269</span></a><span class="sd">        integer that defines a fixed step size between two measurements (in units of configs)</span>
-</span><span id="extract_t0-270"><a href="#extract_t0-270"><span class="linenos">270</span></a><span class="sd">        If not given, r_step=1 is assumed.</span>
-</span><span id="extract_t0-271"><a href="#extract_t0-271"><span class="linenos">271</span></a><span class="sd">    plaquette : bool</span>
-</span><span id="extract_t0-272"><a href="#extract_t0-272"><span class="linenos">272</span></a><span class="sd">        If true extract the plaquette estimate of t0 instead.</span>
-</span><span id="extract_t0-273"><a href="#extract_t0-273"><span class="linenos">273</span></a><span class="sd">    names : list</span>
-</span><span id="extract_t0-274"><a href="#extract_t0-274"><span class="linenos">274</span></a><span class="sd">        list of names that is assigned to the data according according</span>
-</span><span id="extract_t0-275"><a href="#extract_t0-275"><span class="linenos">275</span></a><span class="sd">        to the order in the file list. Use careful, if you do not provide file names!</span>
-</span><span id="extract_t0-276"><a href="#extract_t0-276"><span class="linenos">276</span></a><span class="sd">    files : list</span>
-</span><span id="extract_t0-277"><a href="#extract_t0-277"><span class="linenos">277</span></a><span class="sd">        list which contains the filenames to be read. No automatic detection of</span>
-</span><span id="extract_t0-278"><a href="#extract_t0-278"><span class="linenos">278</span></a><span class="sd">        files performed if given.</span>
-</span><span id="extract_t0-279"><a href="#extract_t0-279"><span class="linenos">279</span></a><span class="sd">    plot_fit : bool</span>
-</span><span id="extract_t0-280"><a href="#extract_t0-280"><span class="linenos">280</span></a><span class="sd">        If true, the fit for the extraction of t0 is shown together with the data.</span>
-</span><span id="extract_t0-281"><a href="#extract_t0-281"><span class="linenos">281</span></a><span class="sd">    assume_thermalization : bool</span>
-</span><span id="extract_t0-282"><a href="#extract_t0-282"><span class="linenos">282</span></a><span class="sd">        If True: If the first record divided by the distance between two measurements is larger than</span>
-</span><span id="extract_t0-283"><a href="#extract_t0-283"><span class="linenos">283</span></a><span class="sd">        1, it is assumed that this is due to thermalization and the first measurement belongs</span>
-</span><span id="extract_t0-284"><a href="#extract_t0-284"><span class="linenos">284</span></a><span class="sd">        to the first config (default).</span>
-</span><span id="extract_t0-285"><a href="#extract_t0-285"><span class="linenos">285</span></a><span class="sd">        If False: The config numbers are assumed to be traj_number // difference</span>
-</span><span id="extract_t0-286"><a href="#extract_t0-286"><span class="linenos">286</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="extract_t0-287"><a href="#extract_t0-287"><span class="linenos">287</span></a>
-</span><span id="extract_t0-288"><a href="#extract_t0-288"><span class="linenos">288</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="extract_t0-289"><a href="#extract_t0-289"><span class="linenos">289</span></a>    <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
-</span><span id="extract_t0-290"><a href="#extract_t0-290"><span class="linenos">290</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
-</span><span id="extract_t0-291"><a href="#extract_t0-291"><span class="linenos">291</span></a>        <span class="k">break</span>
-</span><span id="extract_t0-292"><a href="#extract_t0-292"><span class="linenos">292</span></a>
-</span><span id="extract_t0-293"><a href="#extract_t0-293"><span class="linenos">293</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="extract_t0-294"><a href="#extract_t0-294"><span class="linenos">294</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-295"><a href="#extract_t0-295"><span class="linenos">295</span></a>
-</span><span id="extract_t0-296"><a href="#extract_t0-296"><span class="linenos">296</span></a>    <span class="k">if</span> <span class="s1">&#39;files&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="extract_t0-297"><a href="#extract_t0-297"><span class="linenos">297</span></a>        <span class="n">ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;files&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-298"><a href="#extract_t0-298"><span class="linenos">298</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="extract_t0-299"><a href="#extract_t0-299"><span class="linenos">299</span></a>        <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="extract_t0-300"><a href="#extract_t0-300"><span class="linenos">300</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.ms.dat&#39;</span><span class="p">):</span>
-</span><span id="extract_t0-301"><a href="#extract_t0-301"><span class="linenos">301</span></a>                <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="extract_t0-302"><a href="#extract_t0-302"><span class="linenos">302</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="extract_t0-303"><a href="#extract_t0-303"><span class="linenos">303</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
-</span><span id="extract_t0-304"><a href="#extract_t0-304"><span class="linenos">304</span></a>    <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
-</span><span id="extract_t0-305"><a href="#extract_t0-305"><span class="linenos">305</span></a>
-</span><span id="extract_t0-306"><a href="#extract_t0-306"><span class="linenos">306</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="extract_t0-307"><a href="#extract_t0-307"><span class="linenos">307</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-308"><a href="#extract_t0-308"><span class="linenos">308</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="extract_t0-309"><a href="#extract_t0-309"><span class="linenos">309</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-310"><a href="#extract_t0-310"><span class="linenos">310</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
-</span><span id="extract_t0-311"><a href="#extract_t0-311"><span class="linenos">311</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="extract_t0-312"><a href="#extract_t0-312"><span class="linenos">312</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
-</span><span id="extract_t0-313"><a href="#extract_t0-313"><span class="linenos">313</span></a>
-</span><span id="extract_t0-314"><a href="#extract_t0-314"><span class="linenos">314</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="extract_t0-315"><a href="#extract_t0-315"><span class="linenos">315</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-316"><a href="#extract_t0-316"><span class="linenos">316</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="extract_t0-317"><a href="#extract_t0-317"><span class="linenos">317</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-318"><a href="#extract_t0-318"><span class="linenos">318</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="extract_t0-319"><a href="#extract_t0-319"><span class="linenos">319</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
-</span><span id="extract_t0-320"><a href="#extract_t0-320"><span class="linenos">320</span></a>
-</span><span id="extract_t0-321"><a href="#extract_t0-321"><span class="linenos">321</span></a>    <span class="k">if</span> <span class="s1">&#39;r_step&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="extract_t0-322"><a href="#extract_t0-322"><span class="linenos">322</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_step&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-323"><a href="#extract_t0-323"><span class="linenos">323</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="extract_t0-324"><a href="#extract_t0-324"><span class="linenos">324</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="extract_t0-325"><a href="#extract_t0-325"><span class="linenos">325</span></a>
-</span><span id="extract_t0-326"><a href="#extract_t0-326"><span class="linenos">326</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Extract t0 from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-327"><a href="#extract_t0-327"><span class="linenos">327</span></a>
-</span><span id="extract_t0-328"><a href="#extract_t0-328"><span class="linenos">328</span></a>    <span class="k">if</span> <span class="s1">&#39;names&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="extract_t0-329"><a href="#extract_t0-329"><span class="linenos">329</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;names&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-330"><a href="#extract_t0-330"><span class="linenos">330</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="extract_t0-331"><a href="#extract_t0-331"><span class="linenos">331</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="extract_t0-332"><a href="#extract_t0-332"><span class="linenos">332</span></a>        <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="extract_t0-333"><a href="#extract_t0-333"><span class="linenos">333</span></a>            <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="extract_t0-334"><a href="#extract_t0-334"><span class="linenos">334</span></a>            <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-335"><a href="#extract_t0-335"><span class="linenos">335</span></a>            <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="extract_t0-336"><a href="#extract_t0-336"><span class="linenos">336</span></a>
-</span><span id="extract_t0-337"><a href="#extract_t0-337"><span class="linenos">337</span></a>    <span class="n">Ysum</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="extract_t0-338"><a href="#extract_t0-338"><span class="linenos">338</span></a>
-</span><span id="extract_t0-339"><a href="#extract_t0-339"><span class="linenos">339</span></a>    <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="extract_t0-340"><a href="#extract_t0-340"><span class="linenos">340</span></a>    <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="extract_t0-341"><a href="#extract_t0-341"><span class="linenos">341</span></a>    <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="extract_t0-342"><a href="#extract_t0-342"><span class="linenos">342</span></a>
-</span><span id="extract_t0-343"><a href="#extract_t0-343"><span class="linenos">343</span></a>    <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
-</span><span id="extract_t0-344"><a href="#extract_t0-344"><span class="linenos">344</span></a>
-</span><span id="extract_t0-345"><a href="#extract_t0-345"><span class="linenos">345</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="extract_t0-346"><a href="#extract_t0-346"><span class="linenos">346</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
-</span><span id="extract_t0-347"><a href="#extract_t0-347"><span class="linenos">347</span></a>            <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="extract_t0-348"><a href="#extract_t0-348"><span class="linenos">348</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="extract_t0-349"><a href="#extract_t0-349"><span class="linenos">349</span></a>                <span class="n">dn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="extract_t0-350"><a href="#extract_t0-350"><span class="linenos">350</span></a>                <span class="n">nn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="extract_t0-351"><a href="#extract_t0-351"><span class="linenos">351</span></a>                <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="extract_t0-352"><a href="#extract_t0-352"><span class="linenos">352</span></a>            <span class="k">elif</span> <span class="n">dn</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">or</span> <span class="n">nn</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="ow">or</span> <span class="n">tmax</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]:</span>
-</span><span id="extract_t0-353"><a href="#extract_t0-353"><span class="linenos">353</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Replica parameters do not match.&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-354"><a href="#extract_t0-354"><span class="linenos">354</span></a>
-</span><span id="extract_t0-355"><a href="#extract_t0-355"><span class="linenos">355</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
-</span><span id="extract_t0-356"><a href="#extract_t0-356"><span class="linenos">356</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="extract_t0-357"><a href="#extract_t0-357"><span class="linenos">357</span></a>                <span class="n">eps</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="extract_t0-358"><a href="#extract_t0-358"><span class="linenos">358</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Step size:&#39;</span><span class="p">,</span> <span class="n">eps</span><span class="p">,</span> <span class="s1">&#39;, Maximal t value:&#39;</span><span class="p">,</span> <span class="n">dn</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span><span class="p">)</span> <span class="o">*</span> <span class="n">eps</span><span class="p">)</span>
-</span><span id="extract_t0-359"><a href="#extract_t0-359"><span class="linenos">359</span></a>            <span class="k">elif</span> <span class="n">eps</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]:</span>
-</span><span id="extract_t0-360"><a href="#extract_t0-360"><span class="linenos">360</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Values for eps do not match among replica.&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-361"><a href="#extract_t0-361"><span class="linenos">361</span></a>
-</span><span id="extract_t0-362"><a href="#extract_t0-362"><span class="linenos">362</span></a>            <span class="n">Ysl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="extract_t0-363"><a href="#extract_t0-363"><span class="linenos">363</span></a>
-</span><span id="extract_t0-364"><a href="#extract_t0-364"><span class="linenos">364</span></a>            <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="extract_t0-365"><a href="#extract_t0-365"><span class="linenos">365</span></a>            <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="extract_t0-366"><a href="#extract_t0-366"><span class="linenos">366</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="extract_t0-367"><a href="#extract_t0-367"><span class="linenos">367</span></a>                <span class="k">if</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
-</span><span id="extract_t0-368"><a href="#extract_t0-368"><span class="linenos">368</span></a>                    <span class="k">break</span>
-</span><span id="extract_t0-369"><a href="#extract_t0-369"><span class="linenos">369</span></a>                <span class="n">nc</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="extract_t0-370"><a href="#extract_t0-370"><span class="linenos">370</span></a>                <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">nc</span><span class="p">)</span>
-</span><span id="extract_t0-371"><a href="#extract_t0-371"><span class="linenos">371</span></a>
-</span><span id="extract_t0-372"><a href="#extract_t0-372"><span class="linenos">372</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="extract_t0-373"><a href="#extract_t0-373"><span class="linenos">373</span></a>                <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plaquette&#39;</span><span class="p">):</span>
-</span><span id="extract_t0-374"><a href="#extract_t0-374"><span class="linenos">374</span></a>                    <span class="k">if</span> <span class="n">nc</span> <span class="o">%</span> <span class="n">dtr_read</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="extract_t0-375"><a href="#extract_t0-375"><span class="linenos">375</span></a>                        <span class="n">Ysl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">))</span>
-</span><span id="extract_t0-376"><a href="#extract_t0-376"><span class="linenos">376</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="extract_t0-377"><a href="#extract_t0-377"><span class="linenos">377</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plaquette&#39;</span><span class="p">):</span>
-</span><span id="extract_t0-378"><a href="#extract_t0-378"><span class="linenos">378</span></a>                    <span class="k">if</span> <span class="n">nc</span> <span class="o">%</span> <span class="n">dtr_read</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="extract_t0-379"><a href="#extract_t0-379"><span class="linenos">379</span></a>                        <span class="n">Ysl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">))</span>
-</span><span id="extract_t0-380"><a href="#extract_t0-380"><span class="linenos">380</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="extract_t0-381"><a href="#extract_t0-381"><span class="linenos">381</span></a>
-</span><span id="extract_t0-382"><a href="#extract_t0-382"><span class="linenos">382</span></a>        <span class="n">Ysum</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="extract_t0-383"><a href="#extract_t0-383"><span class="linenos">383</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Ysl</span><span class="p">):</span>
-</span><span id="extract_t0-384"><a href="#extract_t0-384"><span class="linenos">384</span></a>            <span class="n">Ysum</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="n">current</span> <span class="o">+</span> <span class="n">xmin</span><span class="p">:</span>
-</span><span id="extract_t0-385"><a href="#extract_t0-385"><span class="linenos">385</span></a>                             <span class="n">current</span> <span class="o">+</span> <span class="n">tmax</span> <span class="o">-</span> <span class="n">xmin</span><span class="p">])</span>
-</span><span id="extract_t0-386"><a href="#extract_t0-386"><span class="linenos">386</span></a>                            <span class="k">for</span> <span class="n">current</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">item</span><span class="p">),</span> <span class="n">tmax</span><span class="p">)])</span>
-</span><span id="extract_t0-387"><a href="#extract_t0-387"><span class="linenos">387</span></a>
-</span><span id="extract_t0-388"><a href="#extract_t0-388"><span class="linenos">388</span></a>        <span class="n">diffmeas</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="extract_t0-389"><a href="#extract_t0-389"><span class="linenos">389</span></a>        <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">//</span> <span class="n">diffmeas</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="extract_t0-390"><a href="#extract_t0-390"><span class="linenos">390</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;assume_thermalization&#39;</span><span class="p">,</span> <span class="kc">True</span><span class="p">)</span> <span class="ow">and</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="extract_t0-391"><a href="#extract_t0-391"><span class="linenos">391</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config.&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-392"><a href="#extract_t0-392"><span class="linenos">392</span></a>            <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="extract_t0-393"><a href="#extract_t0-393"><span class="linenos">393</span></a>            <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="extract_t0-394"><a href="#extract_t0-394"><span class="linenos">394</span></a>
-</span><span id="extract_t0-395"><a href="#extract_t0-395"><span class="linenos">395</span></a>        <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="extract_t0-396"><a href="#extract_t0-396"><span class="linenos">396</span></a>            <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="extract_t0-397"><a href="#extract_t0-397"><span class="linenos">397</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="extract_t0-398"><a href="#extract_t0-398"><span class="linenos">398</span></a>            <span class="k">try</span><span class="p">:</span>
-</span><span id="extract_t0-399"><a href="#extract_t0-399"><span class="linenos">399</span></a>                <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
-</span><span id="extract_t0-400"><a href="#extract_t0-400"><span class="linenos">400</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
-</span><span id="extract_t0-401"><a href="#extract_t0-401"><span class="linenos">401</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="extract_t0-402"><a href="#extract_t0-402"><span class="linenos">402</span></a>                    <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="extract_t0-403"><a href="#extract_t0-403"><span class="linenos">403</span></a>
-</span><span id="extract_t0-404"><a href="#extract_t0-404"><span class="linenos">404</span></a>        <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="extract_t0-405"><a href="#extract_t0-405"><span class="linenos">405</span></a>            <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="extract_t0-406"><a href="#extract_t0-406"><span class="linenos">406</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="extract_t0-407"><a href="#extract_t0-407"><span class="linenos">407</span></a>            <span class="k">try</span><span class="p">:</span>
-</span><span id="extract_t0-408"><a href="#extract_t0-408"><span class="linenos">408</span></a>                <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
-</span><span id="extract_t0-409"><a href="#extract_t0-409"><span class="linenos">409</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
-</span><span id="extract_t0-410"><a href="#extract_t0-410"><span class="linenos">410</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="extract_t0-411"><a href="#extract_t0-411"><span class="linenos">411</span></a>                    <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="extract_t0-412"><a href="#extract_t0-412"><span class="linenos">412</span></a>
-</span><span id="extract_t0-413"><a href="#extract_t0-413"><span class="linenos">413</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]):</span>
-</span><span id="extract_t0-414"><a href="#extract_t0-414"><span class="linenos">414</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Irregular spaced data in input file!&#39;</span><span class="p">,</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">])</span>
-</span><span id="extract_t0-415"><a href="#extract_t0-415"><span class="linenos">415</span></a>    <span class="n">stepsizes</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]</span>
-</span><span id="extract_t0-416"><a href="#extract_t0-416"><span class="linenos">416</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">step</span> <span class="ow">in</span> <span class="n">stepsizes</span><span class="p">]):</span>
-</span><span id="extract_t0-417"><a href="#extract_t0-417"><span class="linenos">417</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Stepsize between configurations is greater than one!&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">stepsizes</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="extract_t0-418"><a href="#extract_t0-418"><span class="linenos">418</span></a>
-</span><span id="extract_t0-419"><a href="#extract_t0-419"><span class="linenos">419</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]],</span> <span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">r_step</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">)]</span>
-</span><span id="extract_t0-420"><a href="#extract_t0-420"><span class="linenos">420</span></a>    <span class="n">t2E_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="extract_t0-421"><a href="#extract_t0-421"><span class="linenos">421</span></a>    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="extract_t0-422"><a href="#extract_t0-422"><span class="linenos">422</span></a>        <span class="n">samples</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="extract_t0-423"><a href="#extract_t0-423"><span class="linenos">423</span></a>        <span class="k">for</span> <span class="n">nrep</span><span class="p">,</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Ysum</span><span class="p">):</span>
-</span><span id="extract_t0-424"><a href="#extract_t0-424"><span class="linenos">424</span></a>            <span class="n">samples</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="extract_t0-425"><a href="#extract_t0-425"><span class="linenos">425</span></a>            <span class="k">for</span> <span class="n">cnfg</span> <span class="ow">in</span> <span class="n">rep</span><span class="p">:</span>
-</span><span id="extract_t0-426"><a href="#extract_t0-426"><span class="linenos">426</span></a>                <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg</span><span class="p">[</span><span class="n">n</span><span class="p">])</span>
-</span><span id="extract_t0-427"><a href="#extract_t0-427"><span class="linenos">427</span></a>            <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][::</span><span class="n">r_step</span><span class="p">]</span>
-</span><span id="extract_t0-428"><a href="#extract_t0-428"><span class="linenos">428</span></a>        <span class="n">new_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span>
-</span><span id="extract_t0-429"><a href="#extract_t0-429"><span class="linenos">429</span></a>        <span class="n">t2E_dict</span><span class="p">[</span><span class="n">n</span> <span class="o">*</span> <span class="n">dn</span> <span class="o">*</span> <span class="n">eps</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="n">n</span> <span class="o">*</span> <span class="n">dn</span> <span class="o">*</span> <span class="n">eps</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">new_obs</span> <span class="o">/</span> <span class="p">(</span><span class="n">spatial_extent</span> <span class="o">**</span> <span class="mi">3</span><span class="p">)</span> <span class="o">-</span> <span class="mf">0.3</span>
-</span><span id="extract_t0-430"><a href="#extract_t0-430"><span class="linenos">430</span></a>
-</span><span id="extract_t0-431"><a href="#extract_t0-431"><span class="linenos">431</span></a>    <span class="n">zero_crossing</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
-</span><span id="extract_t0-432"><a href="#extract_t0-432"><span class="linenos">432</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">()])</span> <span class="o">&gt;</span> <span class="mf">0.0</span><span class="p">)</span>
-</span><span id="extract_t0-433"><a href="#extract_t0-433"><span class="linenos">433</span></a>
-</span><span id="extract_t0-434"><a href="#extract_t0-434"><span class="linenos">434</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span><span class="p">:</span>
-</span><span id="extract_t0-435"><a href="#extract_t0-435"><span class="linenos">435</span></a>                              <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span><span class="p">]</span>
-</span><span id="extract_t0-436"><a href="#extract_t0-436"><span class="linenos">436</span></a>    <span class="n">y</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span><span class="p">:</span>
-</span><span id="extract_t0-437"><a href="#extract_t0-437"><span class="linenos">437</span></a>                                <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span><span class="p">]</span>
-</span><span id="extract_t0-438"><a href="#extract_t0-438"><span class="linenos">438</span></a>    <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
-</span><span id="extract_t0-439"><a href="#extract_t0-439"><span class="linenos">439</span></a>
-</span><span id="extract_t0-440"><a href="#extract_t0-440"><span class="linenos">440</span></a>    <span class="n">fit_result</span> <span class="o">=</span> <span class="n">fit_lin</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span>
-</span><span id="extract_t0-441"><a href="#extract_t0-441"><span class="linenos">441</span></a>
-</span><span id="extract_t0-442"><a href="#extract_t0-442"><span class="linenos">442</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plot_fit&#39;</span><span class="p">):</span>
-</span><span id="extract_t0-443"><a href="#extract_t0-443"><span class="linenos">443</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="extract_t0-444"><a href="#extract_t0-444"><span class="linenos">444</span></a>        <span class="n">gs</span> <span class="o">=</span> <span class="n">gridspec</span><span class="o">.</span><span class="n">GridSpec</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">height_ratios</span><span class="o">=</span><span class="p">[</span><span class="mi">3</span><span class="p">,</span> <span class="mi">1</span><span class="p">],</span> <span class="n">wspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">)</span>
-</span><span id="extract_t0-445"><a href="#extract_t0-445"><span class="linenos">445</span></a>        <span class="n">ax0</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="extract_t0-446"><a href="#extract_t0-446"><span class="linenos">446</span></a>        <span class="n">xmore</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
-</span><span id="extract_t0-447"><a href="#extract_t0-447"><span class="linenos">447</span></a>        <span class="n">ymore</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
-</span><span id="extract_t0-448"><a href="#extract_t0-448"><span class="linenos">448</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">]</span>
-</span><span id="extract_t0-449"><a href="#extract_t0-449"><span class="linenos">449</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">xmore</span><span class="p">,</span> <span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">],</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;x&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-450"><a href="#extract_t0-450"><span class="linenos">450</span></a>        <span class="n">xplot</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">x</span><span class="p">))</span>
-</span><span id="extract_t0-451"><a href="#extract_t0-451"><span class="linenos">451</span></a>        <span class="n">yplot</span> <span class="o">=</span> <span class="p">[</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">xi</span> <span class="k">for</span> <span class="n">xi</span> <span class="ow">in</span> <span class="n">xplot</span><span class="p">]</span>
-</span><span id="extract_t0-452"><a href="#extract_t0-452"><span class="linenos">452</span></a>        <span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">]</span>
-</span><span id="extract_t0-453"><a href="#extract_t0-453"><span class="linenos">453</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">xplot</span><span class="p">,</span> <span class="n">y1</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">],</span> <span class="n">y2</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">])</span>
-</span><span id="extract_t0-454"><a href="#extract_t0-454"><span class="linenos">454</span></a>        <span class="n">retval</span> <span class="o">=</span> <span class="p">(</span><span class="o">-</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="extract_t0-455"><a href="#extract_t0-455"><span class="linenos">455</span></a>        <span class="n">retval</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
-</span><span id="extract_t0-456"><a href="#extract_t0-456"><span class="linenos">456</span></a>        <span class="n">ylim</span> <span class="o">=</span> <span class="n">ax0</span><span class="o">.</span><span class="n">get_ylim</span><span class="p">()</span>
-</span><span id="extract_t0-457"><a href="#extract_t0-457"><span class="linenos">457</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">fill_betweenx</span><span class="p">(</span><span class="n">ylim</span><span class="p">,</span> <span class="n">x1</span><span class="o">=</span><span class="n">retval</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">retval</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">x2</span><span class="o">=</span><span class="n">retval</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">retval</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;gray&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.4</span><span class="p">)</span>
-</span><span id="extract_t0-458"><a href="#extract_t0-458"><span class="linenos">458</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">(</span><span class="n">ylim</span><span class="p">)</span>
-</span><span id="extract_t0-459"><a href="#extract_t0-459"><span class="linenos">459</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$t^2 \langle E(t) \rangle - 0.3 $&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-460"><a href="#extract_t0-460"><span class="linenos">460</span></a>        <span class="n">xlim</span> <span class="o">=</span> <span class="n">ax0</span><span class="o">.</span><span class="n">get_xlim</span><span class="p">()</span>
-</span><span id="extract_t0-461"><a href="#extract_t0-461"><span class="linenos">461</span></a>
-</span><span id="extract_t0-462"><a href="#extract_t0-462"><span class="linenos">462</span></a>        <span class="n">fit_res</span> <span class="o">=</span> <span class="p">[</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">xi</span> <span class="k">for</span> <span class="n">xi</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]</span>
-</span><span id="extract_t0-463"><a href="#extract_t0-463"><span class="linenos">463</span></a>        <span class="n">residuals</span> <span class="o">=</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span> <span class="o">-</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="p">])</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="extract_t0-464"><a href="#extract_t0-464"><span class="linenos">464</span></a>        <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="extract_t0-465"><a href="#extract_t0-465"><span class="linenos">465</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">residuals</span><span class="p">,</span> <span class="s1">&#39;ko&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">)</span>
-</span><span id="extract_t0-466"><a href="#extract_t0-466"><span class="linenos">466</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">direction</span><span class="o">=</span><span class="s1">&#39;out&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-467"><a href="#extract_t0-467"><span class="linenos">467</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="s2">&quot;x&quot;</span><span class="p">,</span> <span class="n">bottom</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">labelbottom</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="extract_t0-468"><a href="#extract_t0-468"><span class="linenos">468</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-469"><a href="#extract_t0-469"><span class="linenos">469</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">xlim</span><span class="p">,</span> <span class="o">-</span><span class="mf">1.0</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.1</span><span class="p">,</span> <span class="n">facecolor</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-470"><a href="#extract_t0-470"><span class="linenos">470</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">(</span><span class="n">xlim</span><span class="p">)</span>
-</span><span id="extract_t0-471"><a href="#extract_t0-471"><span class="linenos">471</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="s1">&#39;Residuals&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-472"><a href="#extract_t0-472"><span class="linenos">472</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$t/a^2$&#39;</span><span class="p">)</span>
-</span><span id="extract_t0-473"><a href="#extract_t0-473"><span class="linenos">473</span></a>
-</span><span id="extract_t0-474"><a href="#extract_t0-474"><span class="linenos">474</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="extract_t0-475"><a href="#extract_t0-475"><span class="linenos">475</span></a>    <span class="k">return</span> <span class="o">-</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+    <a class="headerlink" href="#extract_t0"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="extract_t0-233"><a href="#extract_t0-233"><span class="linenos">233</span></a><span class="k">def</span> <span class="nf">extract_t0</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">fit_range</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="extract_t0-234"><a href="#extract_t0-234"><span class="linenos">234</span></a>    <span class="sd">&quot;&quot;&quot;Extract t0 from given .ms.dat files. Returns t0 as Obs.</span>
+</span><span id="extract_t0-235"><a href="#extract_t0-235"><span class="linenos">235</span></a>
+</span><span id="extract_t0-236"><a href="#extract_t0-236"><span class="linenos">236</span></a><span class="sd">    It is assumed that all boundary effects have</span>
+</span><span id="extract_t0-237"><a href="#extract_t0-237"><span class="linenos">237</span></a><span class="sd">    sufficiently decayed at x0=xmin.</span>
+</span><span id="extract_t0-238"><a href="#extract_t0-238"><span class="linenos">238</span></a><span class="sd">    The data around the zero crossing of t^2&lt;E&gt; - 0.3</span>
+</span><span id="extract_t0-239"><a href="#extract_t0-239"><span class="linenos">239</span></a><span class="sd">    is fitted with a linear function</span>
+</span><span id="extract_t0-240"><a href="#extract_t0-240"><span class="linenos">240</span></a><span class="sd">    from which the exact root is extracted.</span>
+</span><span id="extract_t0-241"><a href="#extract_t0-241"><span class="linenos">241</span></a>
+</span><span id="extract_t0-242"><a href="#extract_t0-242"><span class="linenos">242</span></a><span class="sd">    It is assumed that one measurement is performed for each config.</span>
+</span><span id="extract_t0-243"><a href="#extract_t0-243"><span class="linenos">243</span></a><span class="sd">    If this is not the case, the resulting idl, as well as the handling</span>
+</span><span id="extract_t0-244"><a href="#extract_t0-244"><span class="linenos">244</span></a><span class="sd">    of r_start, r_stop and r_step is wrong and the user has to correct</span>
+</span><span id="extract_t0-245"><a href="#extract_t0-245"><span class="linenos">245</span></a><span class="sd">    this in the resulting observable.</span>
+</span><span id="extract_t0-246"><a href="#extract_t0-246"><span class="linenos">246</span></a>
+</span><span id="extract_t0-247"><a href="#extract_t0-247"><span class="linenos">247</span></a><span class="sd">    Parameters</span>
+</span><span id="extract_t0-248"><a href="#extract_t0-248"><span class="linenos">248</span></a><span class="sd">    ----------</span>
+</span><span id="extract_t0-249"><a href="#extract_t0-249"><span class="linenos">249</span></a><span class="sd">    path : str</span>
+</span><span id="extract_t0-250"><a href="#extract_t0-250"><span class="linenos">250</span></a><span class="sd">        Path to .ms.dat files</span>
+</span><span id="extract_t0-251"><a href="#extract_t0-251"><span class="linenos">251</span></a><span class="sd">    prefix : str</span>
+</span><span id="extract_t0-252"><a href="#extract_t0-252"><span class="linenos">252</span></a><span class="sd">        Ensemble prefix</span>
+</span><span id="extract_t0-253"><a href="#extract_t0-253"><span class="linenos">253</span></a><span class="sd">    dtr_read : int</span>
+</span><span id="extract_t0-254"><a href="#extract_t0-254"><span class="linenos">254</span></a><span class="sd">        Determines how many trajectories should be skipped</span>
+</span><span id="extract_t0-255"><a href="#extract_t0-255"><span class="linenos">255</span></a><span class="sd">        when reading the ms.dat files.</span>
+</span><span id="extract_t0-256"><a href="#extract_t0-256"><span class="linenos">256</span></a><span class="sd">        Corresponds to dtr_cnfg / dtr_ms in the openQCD input file.</span>
+</span><span id="extract_t0-257"><a href="#extract_t0-257"><span class="linenos">257</span></a><span class="sd">    xmin : int</span>
+</span><span id="extract_t0-258"><a href="#extract_t0-258"><span class="linenos">258</span></a><span class="sd">        First timeslice where the boundary</span>
+</span><span id="extract_t0-259"><a href="#extract_t0-259"><span class="linenos">259</span></a><span class="sd">        effects have sufficiently decayed.</span>
+</span><span id="extract_t0-260"><a href="#extract_t0-260"><span class="linenos">260</span></a><span class="sd">    spatial_extent : int</span>
+</span><span id="extract_t0-261"><a href="#extract_t0-261"><span class="linenos">261</span></a><span class="sd">        spatial extent of the lattice, required for normalization.</span>
+</span><span id="extract_t0-262"><a href="#extract_t0-262"><span class="linenos">262</span></a><span class="sd">    fit_range : int</span>
+</span><span id="extract_t0-263"><a href="#extract_t0-263"><span class="linenos">263</span></a><span class="sd">        Number of data points left and right of the zero</span>
+</span><span id="extract_t0-264"><a href="#extract_t0-264"><span class="linenos">264</span></a><span class="sd">        crossing to be included in the linear fit. (Default: 5)</span>
+</span><span id="extract_t0-265"><a href="#extract_t0-265"><span class="linenos">265</span></a><span class="sd">    r_start : list</span>
+</span><span id="extract_t0-266"><a href="#extract_t0-266"><span class="linenos">266</span></a><span class="sd">        list which contains the first config to be read for each replicum.</span>
+</span><span id="extract_t0-267"><a href="#extract_t0-267"><span class="linenos">267</span></a><span class="sd">    r_stop : list</span>
+</span><span id="extract_t0-268"><a href="#extract_t0-268"><span class="linenos">268</span></a><span class="sd">        list which contains the last config to be read for each replicum.</span>
+</span><span id="extract_t0-269"><a href="#extract_t0-269"><span class="linenos">269</span></a><span class="sd">    r_step : int</span>
+</span><span id="extract_t0-270"><a href="#extract_t0-270"><span class="linenos">270</span></a><span class="sd">        integer that defines a fixed step size between two measurements (in units of configs)</span>
+</span><span id="extract_t0-271"><a href="#extract_t0-271"><span class="linenos">271</span></a><span class="sd">        If not given, r_step=1 is assumed.</span>
+</span><span id="extract_t0-272"><a href="#extract_t0-272"><span class="linenos">272</span></a><span class="sd">    plaquette : bool</span>
+</span><span id="extract_t0-273"><a href="#extract_t0-273"><span class="linenos">273</span></a><span class="sd">        If true extract the plaquette estimate of t0 instead.</span>
+</span><span id="extract_t0-274"><a href="#extract_t0-274"><span class="linenos">274</span></a><span class="sd">    names : list</span>
+</span><span id="extract_t0-275"><a href="#extract_t0-275"><span class="linenos">275</span></a><span class="sd">        list of names that is assigned to the data according according</span>
+</span><span id="extract_t0-276"><a href="#extract_t0-276"><span class="linenos">276</span></a><span class="sd">        to the order in the file list. Use careful, if you do not provide file names!</span>
+</span><span id="extract_t0-277"><a href="#extract_t0-277"><span class="linenos">277</span></a><span class="sd">    files : list</span>
+</span><span id="extract_t0-278"><a href="#extract_t0-278"><span class="linenos">278</span></a><span class="sd">        list which contains the filenames to be read. No automatic detection of</span>
+</span><span id="extract_t0-279"><a href="#extract_t0-279"><span class="linenos">279</span></a><span class="sd">        files performed if given.</span>
+</span><span id="extract_t0-280"><a href="#extract_t0-280"><span class="linenos">280</span></a><span class="sd">    plot_fit : bool</span>
+</span><span id="extract_t0-281"><a href="#extract_t0-281"><span class="linenos">281</span></a><span class="sd">        If true, the fit for the extraction of t0 is shown together with the data.</span>
+</span><span id="extract_t0-282"><a href="#extract_t0-282"><span class="linenos">282</span></a><span class="sd">    assume_thermalization : bool</span>
+</span><span id="extract_t0-283"><a href="#extract_t0-283"><span class="linenos">283</span></a><span class="sd">        If True: If the first record divided by the distance between two measurements is larger than</span>
+</span><span id="extract_t0-284"><a href="#extract_t0-284"><span class="linenos">284</span></a><span class="sd">        1, it is assumed that this is due to thermalization and the first measurement belongs</span>
+</span><span id="extract_t0-285"><a href="#extract_t0-285"><span class="linenos">285</span></a><span class="sd">        to the first config (default).</span>
+</span><span id="extract_t0-286"><a href="#extract_t0-286"><span class="linenos">286</span></a><span class="sd">        If False: The config numbers are assumed to be traj_number // difference</span>
+</span><span id="extract_t0-287"><a href="#extract_t0-287"><span class="linenos">287</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="extract_t0-288"><a href="#extract_t0-288"><span class="linenos">288</span></a>
+</span><span id="extract_t0-289"><a href="#extract_t0-289"><span class="linenos">289</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="extract_t0-290"><a href="#extract_t0-290"><span class="linenos">290</span></a>    <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
+</span><span id="extract_t0-291"><a href="#extract_t0-291"><span class="linenos">291</span></a>        <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
+</span><span id="extract_t0-292"><a href="#extract_t0-292"><span class="linenos">292</span></a>        <span class="k">break</span>
+</span><span id="extract_t0-293"><a href="#extract_t0-293"><span class="linenos">293</span></a>
+</span><span id="extract_t0-294"><a href="#extract_t0-294"><span class="linenos">294</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="extract_t0-295"><a href="#extract_t0-295"><span class="linenos">295</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-296"><a href="#extract_t0-296"><span class="linenos">296</span></a>
+</span><span id="extract_t0-297"><a href="#extract_t0-297"><span class="linenos">297</span></a>    <span class="k">if</span> <span class="s1">&#39;files&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="extract_t0-298"><a href="#extract_t0-298"><span class="linenos">298</span></a>        <span class="n">ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;files&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-299"><a href="#extract_t0-299"><span class="linenos">299</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="extract_t0-300"><a href="#extract_t0-300"><span class="linenos">300</span></a>        <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="extract_t0-301"><a href="#extract_t0-301"><span class="linenos">301</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.ms.dat&#39;</span><span class="p">):</span>
+</span><span id="extract_t0-302"><a href="#extract_t0-302"><span class="linenos">302</span></a>                <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="extract_t0-303"><a href="#extract_t0-303"><span class="linenos">303</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="extract_t0-304"><a href="#extract_t0-304"><span class="linenos">304</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
+</span><span id="extract_t0-305"><a href="#extract_t0-305"><span class="linenos">305</span></a>    <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
+</span><span id="extract_t0-306"><a href="#extract_t0-306"><span class="linenos">306</span></a>
+</span><span id="extract_t0-307"><a href="#extract_t0-307"><span class="linenos">307</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="extract_t0-308"><a href="#extract_t0-308"><span class="linenos">308</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-309"><a href="#extract_t0-309"><span class="linenos">309</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="extract_t0-310"><a href="#extract_t0-310"><span class="linenos">310</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-311"><a href="#extract_t0-311"><span class="linenos">311</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
+</span><span id="extract_t0-312"><a href="#extract_t0-312"><span class="linenos">312</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="extract_t0-313"><a href="#extract_t0-313"><span class="linenos">313</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
+</span><span id="extract_t0-314"><a href="#extract_t0-314"><span class="linenos">314</span></a>
+</span><span id="extract_t0-315"><a href="#extract_t0-315"><span class="linenos">315</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="extract_t0-316"><a href="#extract_t0-316"><span class="linenos">316</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-317"><a href="#extract_t0-317"><span class="linenos">317</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="extract_t0-318"><a href="#extract_t0-318"><span class="linenos">318</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-319"><a href="#extract_t0-319"><span class="linenos">319</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="extract_t0-320"><a href="#extract_t0-320"><span class="linenos">320</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
+</span><span id="extract_t0-321"><a href="#extract_t0-321"><span class="linenos">321</span></a>
+</span><span id="extract_t0-322"><a href="#extract_t0-322"><span class="linenos">322</span></a>    <span class="k">if</span> <span class="s1">&#39;r_step&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="extract_t0-323"><a href="#extract_t0-323"><span class="linenos">323</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_step&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-324"><a href="#extract_t0-324"><span class="linenos">324</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="extract_t0-325"><a href="#extract_t0-325"><span class="linenos">325</span></a>        <span class="n">r_step</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="extract_t0-326"><a href="#extract_t0-326"><span class="linenos">326</span></a>
+</span><span id="extract_t0-327"><a href="#extract_t0-327"><span class="linenos">327</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Extract t0 from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-328"><a href="#extract_t0-328"><span class="linenos">328</span></a>
+</span><span id="extract_t0-329"><a href="#extract_t0-329"><span class="linenos">329</span></a>    <span class="k">if</span> <span class="s1">&#39;names&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="extract_t0-330"><a href="#extract_t0-330"><span class="linenos">330</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;names&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-331"><a href="#extract_t0-331"><span class="linenos">331</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="extract_t0-332"><a href="#extract_t0-332"><span class="linenos">332</span></a>        <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="extract_t0-333"><a href="#extract_t0-333"><span class="linenos">333</span></a>        <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="extract_t0-334"><a href="#extract_t0-334"><span class="linenos">334</span></a>            <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="extract_t0-335"><a href="#extract_t0-335"><span class="linenos">335</span></a>            <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-336"><a href="#extract_t0-336"><span class="linenos">336</span></a>            <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="extract_t0-337"><a href="#extract_t0-337"><span class="linenos">337</span></a>
+</span><span id="extract_t0-338"><a href="#extract_t0-338"><span class="linenos">338</span></a>    <span class="n">Ysum</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="extract_t0-339"><a href="#extract_t0-339"><span class="linenos">339</span></a>
+</span><span id="extract_t0-340"><a href="#extract_t0-340"><span class="linenos">340</span></a>    <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="extract_t0-341"><a href="#extract_t0-341"><span class="linenos">341</span></a>    <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="extract_t0-342"><a href="#extract_t0-342"><span class="linenos">342</span></a>    <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="extract_t0-343"><a href="#extract_t0-343"><span class="linenos">343</span></a>
+</span><span id="extract_t0-344"><a href="#extract_t0-344"><span class="linenos">344</span></a>    <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
+</span><span id="extract_t0-345"><a href="#extract_t0-345"><span class="linenos">345</span></a>
+</span><span id="extract_t0-346"><a href="#extract_t0-346"><span class="linenos">346</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="extract_t0-347"><a href="#extract_t0-347"><span class="linenos">347</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
+</span><span id="extract_t0-348"><a href="#extract_t0-348"><span class="linenos">348</span></a>            <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="extract_t0-349"><a href="#extract_t0-349"><span class="linenos">349</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="extract_t0-350"><a href="#extract_t0-350"><span class="linenos">350</span></a>                <span class="n">dn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="extract_t0-351"><a href="#extract_t0-351"><span class="linenos">351</span></a>                <span class="n">nn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="extract_t0-352"><a href="#extract_t0-352"><span class="linenos">352</span></a>                <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="extract_t0-353"><a href="#extract_t0-353"><span class="linenos">353</span></a>            <span class="k">elif</span> <span class="n">dn</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">or</span> <span class="n">nn</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="ow">or</span> <span class="n">tmax</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]:</span>
+</span><span id="extract_t0-354"><a href="#extract_t0-354"><span class="linenos">354</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Replica parameters do not match.&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-355"><a href="#extract_t0-355"><span class="linenos">355</span></a>
+</span><span id="extract_t0-356"><a href="#extract_t0-356"><span class="linenos">356</span></a>            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
+</span><span id="extract_t0-357"><a href="#extract_t0-357"><span class="linenos">357</span></a>            <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="extract_t0-358"><a href="#extract_t0-358"><span class="linenos">358</span></a>                <span class="n">eps</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="extract_t0-359"><a href="#extract_t0-359"><span class="linenos">359</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Step size:&#39;</span><span class="p">,</span> <span class="n">eps</span><span class="p">,</span> <span class="s1">&#39;, Maximal t value:&#39;</span><span class="p">,</span> <span class="n">dn</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span><span class="p">)</span> <span class="o">*</span> <span class="n">eps</span><span class="p">)</span>
+</span><span id="extract_t0-360"><a href="#extract_t0-360"><span class="linenos">360</span></a>            <span class="k">elif</span> <span class="n">eps</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]:</span>
+</span><span id="extract_t0-361"><a href="#extract_t0-361"><span class="linenos">361</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Values for eps do not match among replica.&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-362"><a href="#extract_t0-362"><span class="linenos">362</span></a>
+</span><span id="extract_t0-363"><a href="#extract_t0-363"><span class="linenos">363</span></a>            <span class="n">Ysl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="extract_t0-364"><a href="#extract_t0-364"><span class="linenos">364</span></a>
+</span><span id="extract_t0-365"><a href="#extract_t0-365"><span class="linenos">365</span></a>            <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="extract_t0-366"><a href="#extract_t0-366"><span class="linenos">366</span></a>            <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="extract_t0-367"><a href="#extract_t0-367"><span class="linenos">367</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="extract_t0-368"><a href="#extract_t0-368"><span class="linenos">368</span></a>                <span class="k">if</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
+</span><span id="extract_t0-369"><a href="#extract_t0-369"><span class="linenos">369</span></a>                    <span class="k">break</span>
+</span><span id="extract_t0-370"><a href="#extract_t0-370"><span class="linenos">370</span></a>                <span class="n">nc</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="extract_t0-371"><a href="#extract_t0-371"><span class="linenos">371</span></a>                <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">nc</span><span class="p">)</span>
+</span><span id="extract_t0-372"><a href="#extract_t0-372"><span class="linenos">372</span></a>
+</span><span id="extract_t0-373"><a href="#extract_t0-373"><span class="linenos">373</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="extract_t0-374"><a href="#extract_t0-374"><span class="linenos">374</span></a>                <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plaquette&#39;</span><span class="p">):</span>
+</span><span id="extract_t0-375"><a href="#extract_t0-375"><span class="linenos">375</span></a>                    <span class="k">if</span> <span class="n">nc</span> <span class="o">%</span> <span class="n">dtr_read</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="extract_t0-376"><a href="#extract_t0-376"><span class="linenos">376</span></a>                        <span class="n">Ysl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">))</span>
+</span><span id="extract_t0-377"><a href="#extract_t0-377"><span class="linenos">377</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="extract_t0-378"><a href="#extract_t0-378"><span class="linenos">378</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plaquette&#39;</span><span class="p">):</span>
+</span><span id="extract_t0-379"><a href="#extract_t0-379"><span class="linenos">379</span></a>                    <span class="k">if</span> <span class="n">nc</span> <span class="o">%</span> <span class="n">dtr_read</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="extract_t0-380"><a href="#extract_t0-380"><span class="linenos">380</span></a>                        <span class="n">Ysl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">))</span>
+</span><span id="extract_t0-381"><a href="#extract_t0-381"><span class="linenos">381</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="extract_t0-382"><a href="#extract_t0-382"><span class="linenos">382</span></a>
+</span><span id="extract_t0-383"><a href="#extract_t0-383"><span class="linenos">383</span></a>        <span class="n">Ysum</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="extract_t0-384"><a href="#extract_t0-384"><span class="linenos">384</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Ysl</span><span class="p">):</span>
+</span><span id="extract_t0-385"><a href="#extract_t0-385"><span class="linenos">385</span></a>            <span class="n">Ysum</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="n">current</span> <span class="o">+</span> <span class="n">xmin</span><span class="p">:</span>
+</span><span id="extract_t0-386"><a href="#extract_t0-386"><span class="linenos">386</span></a>                             <span class="n">current</span> <span class="o">+</span> <span class="n">tmax</span> <span class="o">-</span> <span class="n">xmin</span><span class="p">])</span>
+</span><span id="extract_t0-387"><a href="#extract_t0-387"><span class="linenos">387</span></a>                            <span class="k">for</span> <span class="n">current</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">item</span><span class="p">),</span> <span class="n">tmax</span><span class="p">)])</span>
+</span><span id="extract_t0-388"><a href="#extract_t0-388"><span class="linenos">388</span></a>
+</span><span id="extract_t0-389"><a href="#extract_t0-389"><span class="linenos">389</span></a>        <span class="n">diffmeas</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="extract_t0-390"><a href="#extract_t0-390"><span class="linenos">390</span></a>        <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">//</span> <span class="n">diffmeas</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="extract_t0-391"><a href="#extract_t0-391"><span class="linenos">391</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;assume_thermalization&#39;</span><span class="p">,</span> <span class="kc">True</span><span class="p">)</span> <span class="ow">and</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="extract_t0-392"><a href="#extract_t0-392"><span class="linenos">392</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config.&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-393"><a href="#extract_t0-393"><span class="linenos">393</span></a>            <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="extract_t0-394"><a href="#extract_t0-394"><span class="linenos">394</span></a>            <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="extract_t0-395"><a href="#extract_t0-395"><span class="linenos">395</span></a>
+</span><span id="extract_t0-396"><a href="#extract_t0-396"><span class="linenos">396</span></a>        <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="extract_t0-397"><a href="#extract_t0-397"><span class="linenos">397</span></a>            <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="extract_t0-398"><a href="#extract_t0-398"><span class="linenos">398</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="extract_t0-399"><a href="#extract_t0-399"><span class="linenos">399</span></a>            <span class="k">try</span><span class="p">:</span>
+</span><span id="extract_t0-400"><a href="#extract_t0-400"><span class="linenos">400</span></a>                <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
+</span><span id="extract_t0-401"><a href="#extract_t0-401"><span class="linenos">401</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+</span><span id="extract_t0-402"><a href="#extract_t0-402"><span class="linenos">402</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="extract_t0-403"><a href="#extract_t0-403"><span class="linenos">403</span></a>                    <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="extract_t0-404"><a href="#extract_t0-404"><span class="linenos">404</span></a>
+</span><span id="extract_t0-405"><a href="#extract_t0-405"><span class="linenos">405</span></a>        <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="extract_t0-406"><a href="#extract_t0-406"><span class="linenos">406</span></a>            <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="extract_t0-407"><a href="#extract_t0-407"><span class="linenos">407</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="extract_t0-408"><a href="#extract_t0-408"><span class="linenos">408</span></a>            <span class="k">try</span><span class="p">:</span>
+</span><span id="extract_t0-409"><a href="#extract_t0-409"><span class="linenos">409</span></a>                <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
+</span><span id="extract_t0-410"><a href="#extract_t0-410"><span class="linenos">410</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+</span><span id="extract_t0-411"><a href="#extract_t0-411"><span class="linenos">411</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="extract_t0-412"><a href="#extract_t0-412"><span class="linenos">412</span></a>                    <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="extract_t0-413"><a href="#extract_t0-413"><span class="linenos">413</span></a>
+</span><span id="extract_t0-414"><a href="#extract_t0-414"><span class="linenos">414</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]):</span>
+</span><span id="extract_t0-415"><a href="#extract_t0-415"><span class="linenos">415</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Irregular spaced data in input file!&#39;</span><span class="p">,</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">])</span>
+</span><span id="extract_t0-416"><a href="#extract_t0-416"><span class="linenos">416</span></a>    <span class="n">stepsizes</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]</span>
+</span><span id="extract_t0-417"><a href="#extract_t0-417"><span class="linenos">417</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">step</span> <span class="ow">in</span> <span class="n">stepsizes</span><span class="p">]):</span>
+</span><span id="extract_t0-418"><a href="#extract_t0-418"><span class="linenos">418</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Stepsize between configurations is greater than one!&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">stepsizes</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="extract_t0-419"><a href="#extract_t0-419"><span class="linenos">419</span></a>
+</span><span id="extract_t0-420"><a href="#extract_t0-420"><span class="linenos">420</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]],</span> <span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">r_step</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">)]</span>
+</span><span id="extract_t0-421"><a href="#extract_t0-421"><span class="linenos">421</span></a>    <span class="n">t2E_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="extract_t0-422"><a href="#extract_t0-422"><span class="linenos">422</span></a>    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="extract_t0-423"><a href="#extract_t0-423"><span class="linenos">423</span></a>        <span class="n">samples</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="extract_t0-424"><a href="#extract_t0-424"><span class="linenos">424</span></a>        <span class="k">for</span> <span class="n">nrep</span><span class="p">,</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Ysum</span><span class="p">):</span>
+</span><span id="extract_t0-425"><a href="#extract_t0-425"><span class="linenos">425</span></a>            <span class="n">samples</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="extract_t0-426"><a href="#extract_t0-426"><span class="linenos">426</span></a>            <span class="k">for</span> <span class="n">cnfg</span> <span class="ow">in</span> <span class="n">rep</span><span class="p">:</span>
+</span><span id="extract_t0-427"><a href="#extract_t0-427"><span class="linenos">427</span></a>                <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg</span><span class="p">[</span><span class="n">n</span><span class="p">])</span>
+</span><span id="extract_t0-428"><a href="#extract_t0-428"><span class="linenos">428</span></a>            <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][::</span><span class="n">r_step</span><span class="p">]</span>
+</span><span id="extract_t0-429"><a href="#extract_t0-429"><span class="linenos">429</span></a>        <span class="n">new_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span>
+</span><span id="extract_t0-430"><a href="#extract_t0-430"><span class="linenos">430</span></a>        <span class="n">t2E_dict</span><span class="p">[</span><span class="n">n</span> <span class="o">*</span> <span class="n">dn</span> <span class="o">*</span> <span class="n">eps</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="n">n</span> <span class="o">*</span> <span class="n">dn</span> <span class="o">*</span> <span class="n">eps</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">new_obs</span> <span class="o">/</span> <span class="p">(</span><span class="n">spatial_extent</span> <span class="o">**</span> <span class="mi">3</span><span class="p">)</span> <span class="o">-</span> <span class="mf">0.3</span>
+</span><span id="extract_t0-431"><a href="#extract_t0-431"><span class="linenos">431</span></a>
+</span><span id="extract_t0-432"><a href="#extract_t0-432"><span class="linenos">432</span></a>    <span class="n">zero_crossing</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
+</span><span id="extract_t0-433"><a href="#extract_t0-433"><span class="linenos">433</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">()])</span> <span class="o">&gt;</span> <span class="mf">0.0</span><span class="p">)</span>
+</span><span id="extract_t0-434"><a href="#extract_t0-434"><span class="linenos">434</span></a>
+</span><span id="extract_t0-435"><a href="#extract_t0-435"><span class="linenos">435</span></a>    <span class="n">x</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span><span class="p">:</span>
+</span><span id="extract_t0-436"><a href="#extract_t0-436"><span class="linenos">436</span></a>                              <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span><span class="p">]</span>
+</span><span id="extract_t0-437"><a href="#extract_t0-437"><span class="linenos">437</span></a>    <span class="n">y</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span><span class="p">:</span>
+</span><span id="extract_t0-438"><a href="#extract_t0-438"><span class="linenos">438</span></a>                                <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span><span class="p">]</span>
+</span><span id="extract_t0-439"><a href="#extract_t0-439"><span class="linenos">439</span></a>    <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
+</span><span id="extract_t0-440"><a href="#extract_t0-440"><span class="linenos">440</span></a>
+</span><span id="extract_t0-441"><a href="#extract_t0-441"><span class="linenos">441</span></a>    <span class="n">fit_result</span> <span class="o">=</span> <span class="n">fit_lin</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span>
+</span><span id="extract_t0-442"><a href="#extract_t0-442"><span class="linenos">442</span></a>
+</span><span id="extract_t0-443"><a href="#extract_t0-443"><span class="linenos">443</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plot_fit&#39;</span><span class="p">):</span>
+</span><span id="extract_t0-444"><a href="#extract_t0-444"><span class="linenos">444</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="extract_t0-445"><a href="#extract_t0-445"><span class="linenos">445</span></a>        <span class="n">gs</span> <span class="o">=</span> <span class="n">gridspec</span><span class="o">.</span><span class="n">GridSpec</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">height_ratios</span><span class="o">=</span><span class="p">[</span><span class="mi">3</span><span class="p">,</span> <span class="mi">1</span><span class="p">],</span> <span class="n">wspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">)</span>
+</span><span id="extract_t0-446"><a href="#extract_t0-446"><span class="linenos">446</span></a>        <span class="n">ax0</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="extract_t0-447"><a href="#extract_t0-447"><span class="linenos">447</span></a>        <span class="n">xmore</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
+</span><span id="extract_t0-448"><a href="#extract_t0-448"><span class="linenos">448</span></a>        <span class="n">ymore</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
+</span><span id="extract_t0-449"><a href="#extract_t0-449"><span class="linenos">449</span></a>        <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">]</span>
+</span><span id="extract_t0-450"><a href="#extract_t0-450"><span class="linenos">450</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">xmore</span><span class="p">,</span> <span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">],</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;x&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-451"><a href="#extract_t0-451"><span class="linenos">451</span></a>        <span class="n">xplot</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">x</span><span class="p">))</span>
+</span><span id="extract_t0-452"><a href="#extract_t0-452"><span class="linenos">452</span></a>        <span class="n">yplot</span> <span class="o">=</span> <span class="p">[</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">xi</span> <span class="k">for</span> <span class="n">xi</span> <span class="ow">in</span> <span class="n">xplot</span><span class="p">]</span>
+</span><span id="extract_t0-453"><a href="#extract_t0-453"><span class="linenos">453</span></a>        <span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">]</span>
+</span><span id="extract_t0-454"><a href="#extract_t0-454"><span class="linenos">454</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">xplot</span><span class="p">,</span> <span class="n">y1</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">],</span> <span class="n">y2</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">])</span>
+</span><span id="extract_t0-455"><a href="#extract_t0-455"><span class="linenos">455</span></a>        <span class="n">retval</span> <span class="o">=</span> <span class="p">(</span><span class="o">-</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="extract_t0-456"><a href="#extract_t0-456"><span class="linenos">456</span></a>        <span class="n">retval</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
+</span><span id="extract_t0-457"><a href="#extract_t0-457"><span class="linenos">457</span></a>        <span class="n">ylim</span> <span class="o">=</span> <span class="n">ax0</span><span class="o">.</span><span class="n">get_ylim</span><span class="p">()</span>
+</span><span id="extract_t0-458"><a href="#extract_t0-458"><span class="linenos">458</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">fill_betweenx</span><span class="p">(</span><span class="n">ylim</span><span class="p">,</span> <span class="n">x1</span><span class="o">=</span><span class="n">retval</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">retval</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">x2</span><span class="o">=</span><span class="n">retval</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">retval</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;gray&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.4</span><span class="p">)</span>
+</span><span id="extract_t0-459"><a href="#extract_t0-459"><span class="linenos">459</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">(</span><span class="n">ylim</span><span class="p">)</span>
+</span><span id="extract_t0-460"><a href="#extract_t0-460"><span class="linenos">460</span></a>        <span class="n">ax0</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$t^2 \langle E(t) \rangle - 0.3 $&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-461"><a href="#extract_t0-461"><span class="linenos">461</span></a>        <span class="n">xlim</span> <span class="o">=</span> <span class="n">ax0</span><span class="o">.</span><span class="n">get_xlim</span><span class="p">()</span>
+</span><span id="extract_t0-462"><a href="#extract_t0-462"><span class="linenos">462</span></a>
+</span><span id="extract_t0-463"><a href="#extract_t0-463"><span class="linenos">463</span></a>        <span class="n">fit_res</span> <span class="o">=</span> <span class="p">[</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">xi</span> <span class="k">for</span> <span class="n">xi</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]</span>
+</span><span id="extract_t0-464"><a href="#extract_t0-464"><span class="linenos">464</span></a>        <span class="n">residuals</span> <span class="o">=</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span> <span class="o">-</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</span><span class="p">])</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="extract_t0-465"><a href="#extract_t0-465"><span class="linenos">465</span></a>        <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="extract_t0-466"><a href="#extract_t0-466"><span class="linenos">466</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">residuals</span><span class="p">,</span> <span class="s1">&#39;ko&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">)</span>
+</span><span id="extract_t0-467"><a href="#extract_t0-467"><span class="linenos">467</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">direction</span><span class="o">=</span><span class="s1">&#39;out&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-468"><a href="#extract_t0-468"><span class="linenos">468</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="s2">&quot;x&quot;</span><span class="p">,</span> <span class="n">bottom</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">labelbottom</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="extract_t0-469"><a href="#extract_t0-469"><span class="linenos">469</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-470"><a href="#extract_t0-470"><span class="linenos">470</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">xlim</span><span class="p">,</span> <span class="o">-</span><span class="mf">1.0</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.1</span><span class="p">,</span> <span class="n">facecolor</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-471"><a href="#extract_t0-471"><span class="linenos">471</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">(</span><span class="n">xlim</span><span class="p">)</span>
+</span><span id="extract_t0-472"><a href="#extract_t0-472"><span class="linenos">472</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="s1">&#39;Residuals&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-473"><a href="#extract_t0-473"><span class="linenos">473</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$t/a^2$&#39;</span><span class="p">)</span>
+</span><span id="extract_t0-474"><a href="#extract_t0-474"><span class="linenos">474</span></a>
+</span><span id="extract_t0-475"><a href="#extract_t0-475"><span class="linenos">475</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="extract_t0-476"><a href="#extract_t0-476"><span class="linenos">476</span></a>    <span class="k">return</span> <span class="o">-</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Extract t0 from given .ms.dat files. Returns t0 as Obs.</p>
 
@@ -1523,274 +1524,274 @@ If False: The config numbers are assumed to be traj_number // difference</li>
 
                 </section>
                 <section id="read_qtop">
-                            <div class="attr function"><a class="headerlink" href="#read_qtop">#&nbsp;&nbsp</a>
+                            <input id="read_qtop-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_qtop</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">prefix</span>, </span><span class="param"><span class="n">c</span>, </span><span class="param"><span class="n">dtr_cnfg</span><span class="o">=</span><span class="mi">1</span>, </span><span class="param"><span class="n">version</span><span class="o">=</span><span class="s1">&#39;openQCD&#39;</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="read_qtop-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_qtop</span><span class="signature">(path, prefix, c, dtr_cnfg=1, version=&#39;openQCD&#39;, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_qtop-523"><a href="#read_qtop-523"><span class="linenos">523</span></a><span class="k">def</span> <span class="nf">read_qtop</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;openQCD&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="read_qtop-524"><a href="#read_qtop-524"><span class="linenos">524</span></a>    <span class="sd">&quot;&quot;&quot;Read the topologial charge based on openQCD gradient flow measurements.</span>
-</span><span id="read_qtop-525"><a href="#read_qtop-525"><span class="linenos">525</span></a>
-</span><span id="read_qtop-526"><a href="#read_qtop-526"><span class="linenos">526</span></a><span class="sd">    Parameters</span>
-</span><span id="read_qtop-527"><a href="#read_qtop-527"><span class="linenos">527</span></a><span class="sd">    ----------</span>
-</span><span id="read_qtop-528"><a href="#read_qtop-528"><span class="linenos">528</span></a><span class="sd">    path : str</span>
-</span><span id="read_qtop-529"><a href="#read_qtop-529"><span class="linenos">529</span></a><span class="sd">        path of the measurement files</span>
-</span><span id="read_qtop-530"><a href="#read_qtop-530"><span class="linenos">530</span></a><span class="sd">    prefix : str</span>
-</span><span id="read_qtop-531"><a href="#read_qtop-531"><span class="linenos">531</span></a><span class="sd">        prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat.</span>
-</span><span id="read_qtop-532"><a href="#read_qtop-532"><span class="linenos">532</span></a><span class="sd">        Ignored if file names are passed explicitly via keyword files.</span>
-</span><span id="read_qtop-533"><a href="#read_qtop-533"><span class="linenos">533</span></a><span class="sd">    c : double</span>
-</span><span id="read_qtop-534"><a href="#read_qtop-534"><span class="linenos">534</span></a><span class="sd">        Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</span>
-</span><span id="read_qtop-535"><a href="#read_qtop-535"><span class="linenos">535</span></a><span class="sd">    dtr_cnfg : int</span>
-</span><span id="read_qtop-536"><a href="#read_qtop-536"><span class="linenos">536</span></a><span class="sd">        (optional) parameter that specifies the number of measurements</span>
-</span><span id="read_qtop-537"><a href="#read_qtop-537"><span class="linenos">537</span></a><span class="sd">        between two configs.</span>
-</span><span id="read_qtop-538"><a href="#read_qtop-538"><span class="linenos">538</span></a><span class="sd">        If it is not set, the distance between two measurements</span>
-</span><span id="read_qtop-539"><a href="#read_qtop-539"><span class="linenos">539</span></a><span class="sd">        in the file is assumed to be the distance between two configurations.</span>
-</span><span id="read_qtop-540"><a href="#read_qtop-540"><span class="linenos">540</span></a><span class="sd">    steps : int</span>
-</span><span id="read_qtop-541"><a href="#read_qtop-541"><span class="linenos">541</span></a><span class="sd">        (optional) Distance between two configurations in units of trajectories /</span>
-</span><span id="read_qtop-542"><a href="#read_qtop-542"><span class="linenos">542</span></a><span class="sd">         cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
-</span><span id="read_qtop-543"><a href="#read_qtop-543"><span class="linenos">543</span></a><span class="sd">    version : str</span>
-</span><span id="read_qtop-544"><a href="#read_qtop-544"><span class="linenos">544</span></a><span class="sd">        Either openQCD or sfqcd, depending on the data.</span>
-</span><span id="read_qtop-545"><a href="#read_qtop-545"><span class="linenos">545</span></a><span class="sd">    L : int</span>
-</span><span id="read_qtop-546"><a href="#read_qtop-546"><span class="linenos">546</span></a><span class="sd">        spatial length of the lattice in L/a.</span>
-</span><span id="read_qtop-547"><a href="#read_qtop-547"><span class="linenos">547</span></a><span class="sd">        HAS to be set if version != sfqcd, since openQCD does not provide</span>
-</span><span id="read_qtop-548"><a href="#read_qtop-548"><span class="linenos">548</span></a><span class="sd">        this in the header</span>
-</span><span id="read_qtop-549"><a href="#read_qtop-549"><span class="linenos">549</span></a><span class="sd">    r_start : list</span>
-</span><span id="read_qtop-550"><a href="#read_qtop-550"><span class="linenos">550</span></a><span class="sd">        list which contains the first config to be read for each replicum.</span>
-</span><span id="read_qtop-551"><a href="#read_qtop-551"><span class="linenos">551</span></a><span class="sd">    r_stop : list</span>
-</span><span id="read_qtop-552"><a href="#read_qtop-552"><span class="linenos">552</span></a><span class="sd">        list which contains the last config to be read for each replicum.</span>
-</span><span id="read_qtop-553"><a href="#read_qtop-553"><span class="linenos">553</span></a><span class="sd">    files : list</span>
-</span><span id="read_qtop-554"><a href="#read_qtop-554"><span class="linenos">554</span></a><span class="sd">        specify the exact files that need to be read</span>
-</span><span id="read_qtop-555"><a href="#read_qtop-555"><span class="linenos">555</span></a><span class="sd">        from path, practical if e.g. only one replicum is needed</span>
-</span><span id="read_qtop-556"><a href="#read_qtop-556"><span class="linenos">556</span></a><span class="sd">    names : list</span>
-</span><span id="read_qtop-557"><a href="#read_qtop-557"><span class="linenos">557</span></a><span class="sd">        Alternative labeling for replicas/ensembles.</span>
-</span><span id="read_qtop-558"><a href="#read_qtop-558"><span class="linenos">558</span></a><span class="sd">        Has to have the appropriate length.</span>
-</span><span id="read_qtop-559"><a href="#read_qtop-559"><span class="linenos">559</span></a><span class="sd">    Zeuthen_flow : bool</span>
-</span><span id="read_qtop-560"><a href="#read_qtop-560"><span class="linenos">560</span></a><span class="sd">        (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
-</span><span id="read_qtop-561"><a href="#read_qtop-561"><span class="linenos">561</span></a><span class="sd">        for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
-</span><span id="read_qtop-562"><a href="#read_qtop-562"><span class="linenos">562</span></a><span class="sd">    integer_charge : bool</span>
-</span><span id="read_qtop-563"><a href="#read_qtop-563"><span class="linenos">563</span></a><span class="sd">        If True, the charge is rounded towards the nearest integer on each config.</span>
-</span><span id="read_qtop-564"><a href="#read_qtop-564"><span class="linenos">564</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_qtop-565"><a href="#read_qtop-565"><span class="linenos">565</span></a>    <span class="n">known_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;openQCD&quot;</span><span class="p">,</span> <span class="s2">&quot;sfqcd&quot;</span><span class="p">]</span>
-</span><span id="read_qtop-566"><a href="#read_qtop-566"><span class="linenos">566</span></a>
-</span><span id="read_qtop-567"><a href="#read_qtop-567"><span class="linenos">567</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">known_versions</span><span class="p">:</span>
-</span><span id="read_qtop-568"><a href="#read_qtop-568"><span class="linenos">568</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown openQCD version.&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-569"><a href="#read_qtop-569"><span class="linenos">569</span></a>    <span class="k">if</span> <span class="s2">&quot;steps&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_qtop-570"><a href="#read_qtop-570"><span class="linenos">570</span></a>        <span class="n">steps</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;steps&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-571"><a href="#read_qtop-571"><span class="linenos">571</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;sfqcd&quot;</span><span class="p">:</span>
-</span><span id="read_qtop-572"><a href="#read_qtop-572"><span class="linenos">572</span></a>        <span class="k">if</span> <span class="s2">&quot;L&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_qtop-573"><a href="#read_qtop-573"><span class="linenos">573</span></a>            <span class="n">supposed_L</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;L&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-574"><a href="#read_qtop-574"><span class="linenos">574</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-575"><a href="#read_qtop-575"><span class="linenos">575</span></a>            <span class="n">supposed_L</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="read_qtop-576"><a href="#read_qtop-576"><span class="linenos">576</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s2">&quot;.gfms.dat&quot;</span>
-</span><span id="read_qtop-577"><a href="#read_qtop-577"><span class="linenos">577</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-578"><a href="#read_qtop-578"><span class="linenos">578</span></a>        <span class="k">if</span> <span class="s2">&quot;L&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_qtop-579"><a href="#read_qtop-579"><span class="linenos">579</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;This version of openQCD needs you to provide the spatial length of the lattice as parameter &#39;L&#39;.&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-580"><a href="#read_qtop-580"><span class="linenos">580</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-581"><a href="#read_qtop-581"><span class="linenos">581</span></a>            <span class="n">L</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;L&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-582"><a href="#read_qtop-582"><span class="linenos">582</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s2">&quot;.ms.dat&quot;</span>
-</span><span id="read_qtop-583"><a href="#read_qtop-583"><span class="linenos">583</span></a>
-</span><span id="read_qtop-584"><a href="#read_qtop-584"><span class="linenos">584</span></a>    <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_qtop-585"><a href="#read_qtop-585"><span class="linenos">585</span></a>        <span class="n">files</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-586"><a href="#read_qtop-586"><span class="linenos">586</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
-</span><span id="read_qtop-587"><a href="#read_qtop-587"><span class="linenos">587</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-588"><a href="#read_qtop-588"><span class="linenos">588</span></a>        <span class="n">found</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_qtop-589"><a href="#read_qtop-589"><span class="linenos">589</span></a>        <span class="n">files</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_qtop-590"><a href="#read_qtop-590"><span class="linenos">590</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s2">&quot;/&quot;</span><span class="p">):</span>
-</span><span id="read_qtop-591"><a href="#read_qtop-591"><span class="linenos">591</span></a>            <span class="n">found</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
-</span><span id="read_qtop-592"><a href="#read_qtop-592"><span class="linenos">592</span></a>            <span class="k">break</span>
-</span><span id="read_qtop-593"><a href="#read_qtop-593"><span class="linenos">593</span></a>        <span class="k">for</span> <span class="n">f</span> <span class="ow">in</span> <span class="n">found</span><span class="p">:</span>
-</span><span id="read_qtop-594"><a href="#read_qtop-594"><span class="linenos">594</span></a>            <span class="k">if</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">f</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s2">&quot;*&quot;</span> <span class="o">+</span> <span class="n">postfix</span><span class="p">):</span>
-</span><span id="read_qtop-595"><a href="#read_qtop-595"><span class="linenos">595</span></a>                <span class="n">files</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">f</span><span class="p">)</span>
-</span><span id="read_qtop-596"><a href="#read_qtop-596"><span class="linenos">596</span></a>
-</span><span id="read_qtop-597"><a href="#read_qtop-597"><span class="linenos">597</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_qtop-598"><a href="#read_qtop-598"><span class="linenos">598</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
-</span><span id="read_qtop-599"><a href="#read_qtop-599"><span class="linenos">599</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
-</span><span id="read_qtop-600"><a href="#read_qtop-600"><span class="linenos">600</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="read_qtop-601"><a href="#read_qtop-601"><span class="linenos">601</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
-</span><span id="read_qtop-602"><a href="#read_qtop-602"><span class="linenos">602</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-603"><a href="#read_qtop-603"><span class="linenos">603</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
-</span><span id="read_qtop-604"><a href="#read_qtop-604"><span class="linenos">604</span></a>
-</span><span id="read_qtop-605"><a href="#read_qtop-605"><span class="linenos">605</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_qtop-606"><a href="#read_qtop-606"><span class="linenos">606</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
-</span><span id="read_qtop-607"><a href="#read_qtop-607"><span class="linenos">607</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
-</span><span id="read_qtop-608"><a href="#read_qtop-608"><span class="linenos">608</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
-</span><span id="read_qtop-609"><a href="#read_qtop-609"><span class="linenos">609</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-610"><a href="#read_qtop-610"><span class="linenos">610</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
-</span><span id="read_qtop-611"><a href="#read_qtop-611"><span class="linenos">611</span></a>    <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_qtop-612"><a href="#read_qtop-612"><span class="linenos">612</span></a>
-</span><span id="read_qtop-613"><a href="#read_qtop-613"><span class="linenos">613</span></a>    <span class="n">zeuthen</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;Zeuthen_flow&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
-</span><span id="read_qtop-614"><a href="#read_qtop-614"><span class="linenos">614</span></a>    <span class="k">if</span> <span class="n">zeuthen</span> <span class="ow">and</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
-</span><span id="read_qtop-615"><a href="#read_qtop-615"><span class="linenos">615</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Zeuthen flow can only be used for version==sfqcd&#39;</span><span class="p">)</span>
-</span><span id="read_qtop-616"><a href="#read_qtop-616"><span class="linenos">616</span></a>
-</span><span id="read_qtop-617"><a href="#read_qtop-617"><span class="linenos">617</span></a>    <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_qtop-618"><a href="#read_qtop-618"><span class="linenos">618</span></a>    <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_qtop-619"><a href="#read_qtop-619"><span class="linenos">619</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_qtop-620"><a href="#read_qtop-620"><span class="linenos">620</span></a>    <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_qtop-621"><a href="#read_qtop-621"><span class="linenos">621</span></a>    <span class="k">for</span> <span class="n">rep</span><span class="p">,</span> <span class="n">file</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
-</span><span id="read_qtop-622"><a href="#read_qtop-622"><span class="linenos">622</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s2">&quot;/&quot;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="s2">&quot;rb&quot;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="read_qtop-623"><a href="#read_qtop-623"><span class="linenos">623</span></a>
-</span><span id="read_qtop-624"><a href="#read_qtop-624"><span class="linenos">624</span></a>            <span class="n">Q</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_qtop-625"><a href="#read_qtop-625"><span class="linenos">625</span></a>            <span class="n">traj_list</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_qtop-626"><a href="#read_qtop-626"><span class="linenos">626</span></a>            <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
-</span><span id="read_qtop-627"><a href="#read_qtop-627"><span class="linenos">627</span></a>                <span class="k">if</span> <span class="n">zeuthen</span><span class="p">:</span>
-</span><span id="read_qtop-628"><a href="#read_qtop-628"><span class="linenos">628</span></a>                    <span class="n">obspos</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="read_qtop-629"><a href="#read_qtop-629"><span class="linenos">629</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-630"><a href="#read_qtop-630"><span class="linenos">630</span></a>                    <span class="n">obspos</span> <span class="o">=</span> <span class="mi">8</span>
-</span><span id="read_qtop-631"><a href="#read_qtop-631"><span class="linenos">631</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
-</span><span id="read_qtop-632"><a href="#read_qtop-632"><span class="linenos">632</span></a>                <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="read_qtop-633"><a href="#read_qtop-633"><span class="linenos">633</span></a>                <span class="n">zthfl</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>  <span class="c1"># Zeuthen flow -&gt; if it&#39;s equal to 2 it means that the Zeuthen flow is also &#39;measured&#39; (apart from the Wilson flow)</span>
-</span><span id="read_qtop-634"><a href="#read_qtop-634"><span class="linenos">634</span></a>                <span class="n">ncs</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>  <span class="c1"># number of different values for c in t_flow=1/8 c² L² -&gt; measurements done for ncs c&#39;s</span>
-</span><span id="read_qtop-635"><a href="#read_qtop-635"><span class="linenos">635</span></a>                <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>  <span class="c1"># lattice T/a</span>
-</span><span id="read_qtop-636"><a href="#read_qtop-636"><span class="linenos">636</span></a>
-</span><span id="read_qtop-637"><a href="#read_qtop-637"><span class="linenos">637</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
-</span><span id="read_qtop-638"><a href="#read_qtop-638"><span class="linenos">638</span></a>                <span class="n">Ls</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="read_qtop-639"><a href="#read_qtop-639"><span class="linenos">639</span></a>                <span class="k">if</span><span class="p">(</span><span class="n">Ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="ow">and</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">2</span><span class="p">]):</span>
-</span><span id="read_qtop-640"><a href="#read_qtop-640"><span class="linenos">640</span></a>                    <span class="n">L</span> <span class="o">=</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="read_qtop-641"><a href="#read_qtop-641"><span class="linenos">641</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">supposed_L</span> <span class="o">==</span> <span class="n">L</span><span class="p">)</span> <span class="ow">and</span> <span class="n">supposed_L</span><span class="p">:</span>
-</span><span id="read_qtop-642"><a href="#read_qtop-642"><span class="linenos">642</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It seems the length given in the header and by you contradict each other&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-643"><a href="#read_qtop-643"><span class="linenos">643</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-644"><a href="#read_qtop-644"><span class="linenos">644</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Found more than one spatial length in header!&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-645"><a href="#read_qtop-645"><span class="linenos">645</span></a>
-</span><span id="read_qtop-646"><a href="#read_qtop-646"><span class="linenos">646</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">16</span><span class="p">)</span>
-</span><span id="read_qtop-647"><a href="#read_qtop-647"><span class="linenos">647</span></a>                <span class="n">header2</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;dd&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="read_qtop-648"><a href="#read_qtop-648"><span class="linenos">648</span></a>                <span class="n">tol</span> <span class="o">=</span> <span class="n">header2</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="read_qtop-649"><a href="#read_qtop-649"><span class="linenos">649</span></a>                <span class="n">cmax</span> <span class="o">=</span> <span class="n">header2</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>  <span class="c1"># highest value of c used</span>
-</span><span id="read_qtop-650"><a href="#read_qtop-650"><span class="linenos">650</span></a>
-</span><span id="read_qtop-651"><a href="#read_qtop-651"><span class="linenos">651</span></a>                <span class="k">if</span> <span class="n">c</span> <span class="o">&gt;</span> <span class="n">cmax</span><span class="p">:</span>
-</span><span id="read_qtop-652"><a href="#read_qtop-652"><span class="linenos">652</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Flow has been determined between c=0 and c=</span><span class="si">%lf</span><span class="s1"> with tolerance </span><span class="si">%lf</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">cmax</span><span class="p">,</span> <span class="n">tol</span><span class="p">))</span>
-</span><span id="read_qtop-653"><a href="#read_qtop-653"><span class="linenos">653</span></a>
-</span><span id="read_qtop-654"><a href="#read_qtop-654"><span class="linenos">654</span></a>                <span class="k">if</span><span class="p">(</span><span class="n">zthfl</span> <span class="o">==</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="read_qtop-655"><a href="#read_qtop-655"><span class="linenos">655</span></a>                    <span class="n">nfl</span> <span class="o">=</span> <span class="mi">2</span>  <span class="c1"># number of flows</span>
-</span><span id="read_qtop-656"><a href="#read_qtop-656"><span class="linenos">656</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-657"><a href="#read_qtop-657"><span class="linenos">657</span></a>                    <span class="n">nfl</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="read_qtop-658"><a href="#read_qtop-658"><span class="linenos">658</span></a>                <span class="n">iobs</span> <span class="o">=</span> <span class="mi">8</span> <span class="o">*</span> <span class="n">nfl</span>  <span class="c1"># number of flow observables calculated</span>
-</span><span id="read_qtop-659"><a href="#read_qtop-659"><span class="linenos">659</span></a>
-</span><span id="read_qtop-660"><a href="#read_qtop-660"><span class="linenos">660</span></a>                <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_qtop-661"><a href="#read_qtop-661"><span class="linenos">661</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="read_qtop-662"><a href="#read_qtop-662"><span class="linenos">662</span></a>                    <span class="k">if</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
-</span><span id="read_qtop-663"><a href="#read_qtop-663"><span class="linenos">663</span></a>                        <span class="k">break</span>
-</span><span id="read_qtop-664"><a href="#read_qtop-664"><span class="linenos">664</span></a>                    <span class="n">traj_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>   <span class="c1"># trajectory number when measurement was done</span>
-</span><span id="read_qtop-665"><a href="#read_qtop-665"><span class="linenos">665</span></a>
-</span><span id="read_qtop-666"><a href="#read_qtop-666"><span class="linenos">666</span></a>                    <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="read_qtop-667"><a href="#read_qtop-667"><span class="linenos">667</span></a>                        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">iobs</span><span class="p">):</span>
-</span><span id="read_qtop-668"><a href="#read_qtop-668"><span class="linenos">668</span></a>                            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span><span class="p">)</span>
-</span><span id="read_qtop-669"><a href="#read_qtop-669"><span class="linenos">669</span></a>                            <span class="k">if</span> <span class="p">(</span><span class="n">i</span> <span class="o">==</span> <span class="n">obspos</span><span class="p">):</span>  <span class="c1"># determines the flow observable -&gt; i=0 &lt;-&gt; Zeuthen flow</span>
-</span><span id="read_qtop-670"><a href="#read_qtop-670"><span class="linenos">670</span></a>                                <span class="n">Q</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span><span class="p">,</span> <span class="n">t</span><span class="p">))</span>
-</span><span id="read_qtop-671"><a href="#read_qtop-671"><span class="linenos">671</span></a>
-</span><span id="read_qtop-672"><a href="#read_qtop-672"><span class="linenos">672</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-673"><a href="#read_qtop-673"><span class="linenos">673</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
-</span><span id="read_qtop-674"><a href="#read_qtop-674"><span class="linenos">674</span></a>                <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="read_qtop-675"><a href="#read_qtop-675"><span class="linenos">675</span></a>                <span class="c1"># step size in integration steps &quot;dnms&quot;</span>
-</span><span id="read_qtop-676"><a href="#read_qtop-676"><span class="linenos">676</span></a>                <span class="n">dn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="read_qtop-677"><a href="#read_qtop-677"><span class="linenos">677</span></a>                <span class="c1"># number of measurements, so &quot;ntot&quot;/dn</span>
-</span><span id="read_qtop-678"><a href="#read_qtop-678"><span class="linenos">678</span></a>                <span class="n">nn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="read_qtop-679"><a href="#read_qtop-679"><span class="linenos">679</span></a>                <span class="c1"># lattice T/a</span>
-</span><span id="read_qtop-680"><a href="#read_qtop-680"><span class="linenos">680</span></a>                <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
-</span><span id="read_qtop-681"><a href="#read_qtop-681"><span class="linenos">681</span></a>
-</span><span id="read_qtop-682"><a href="#read_qtop-682"><span class="linenos">682</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
-</span><span id="read_qtop-683"><a href="#read_qtop-683"><span class="linenos">683</span></a>                <span class="n">eps</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="read_qtop-684"><a href="#read_qtop-684"><span class="linenos">684</span></a>
-</span><span id="read_qtop-685"><a href="#read_qtop-685"><span class="linenos">685</span></a>                <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_qtop-686"><a href="#read_qtop-686"><span class="linenos">686</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
-</span><span id="read_qtop-687"><a href="#read_qtop-687"><span class="linenos">687</span></a>                    <span class="k">if</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
-</span><span id="read_qtop-688"><a href="#read_qtop-688"><span class="linenos">688</span></a>                        <span class="k">break</span>
-</span><span id="read_qtop-689"><a href="#read_qtop-689"><span class="linenos">689</span></a>                    <span class="n">traj_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="read_qtop-690"><a href="#read_qtop-690"><span class="linenos">690</span></a>                    <span class="c1"># Wsl</span>
-</span><span id="read_qtop-691"><a href="#read_qtop-691"><span class="linenos">691</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="read_qtop-692"><a href="#read_qtop-692"><span class="linenos">692</span></a>                    <span class="c1"># Ysl</span>
-</span><span id="read_qtop-693"><a href="#read_qtop-693"><span class="linenos">693</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="read_qtop-694"><a href="#read_qtop-694"><span class="linenos">694</span></a>                    <span class="c1"># Qsl, which is asked for in this method</span>
-</span><span id="read_qtop-695"><a href="#read_qtop-695"><span class="linenos">695</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="read_qtop-696"><a href="#read_qtop-696"><span class="linenos">696</span></a>                    <span class="c1"># unpack the array of Qtops,</span>
-</span><span id="read_qtop-697"><a href="#read_qtop-697"><span class="linenos">697</span></a>                    <span class="c1"># on each timeslice t=0,...,tmax-1 and the</span>
-</span><span id="read_qtop-698"><a href="#read_qtop-698"><span class="linenos">698</span></a>                    <span class="c1"># measurement number in = 0...nn (see README.qcd1)</span>
-</span><span id="read_qtop-699"><a href="#read_qtop-699"><span class="linenos">699</span></a>                    <span class="n">tmpd</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">)</span>
-</span><span id="read_qtop-700"><a href="#read_qtop-700"><span class="linenos">700</span></a>                    <span class="n">Q</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmpd</span><span class="p">)</span>
-</span><span id="read_qtop-701"><a href="#read_qtop-701"><span class="linenos">701</span></a>
-</span><span id="read_qtop-702"><a href="#read_qtop-702"><span class="linenos">702</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">traj_list</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_qtop-703"><a href="#read_qtop-703"><span class="linenos">703</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Irregularities in stepsize found&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-704"><a href="#read_qtop-704"><span class="linenos">704</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-705"><a href="#read_qtop-705"><span class="linenos">705</span></a>            <span class="k">if</span> <span class="s1">&#39;steps&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_qtop-706"><a href="#read_qtop-706"><span class="linenos">706</span></a>                <span class="k">if</span> <span class="n">steps</span> <span class="o">!=</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span>
-</span><span id="read_qtop-707"><a href="#read_qtop-707"><span class="linenos">707</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;steps and the found stepsize are not the same&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-708"><a href="#read_qtop-708"><span class="linenos">708</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-709"><a href="#read_qtop-709"><span class="linenos">709</span></a>                <span class="n">steps</span> <span class="o">=</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="read_qtop-710"><a href="#read_qtop-710"><span class="linenos">710</span></a>
-</span><span id="read_qtop-711"><a href="#read_qtop-711"><span class="linenos">711</span></a>        <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">tr</span> <span class="o">//</span> <span class="n">steps</span> <span class="o">//</span> <span class="n">dtr_cnfg</span> <span class="k">for</span> <span class="n">tr</span> <span class="ow">in</span> <span class="n">traj_list</span><span class="p">])</span>
-</span><span id="read_qtop-712"><a href="#read_qtop-712"><span class="linenos">712</span></a>        <span class="k">if</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_qtop-713"><a href="#read_qtop-713"><span class="linenos">713</span></a>            <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="read_qtop-714"><a href="#read_qtop-714"><span class="linenos">714</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config. Offset = </span><span class="si">%d</span><span class="s1"> configs (</span><span class="si">%d</span><span class="s1"> trajectories / cycles)&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="read_qtop-715"><a href="#read_qtop-715"><span class="linenos">715</span></a>                <span class="n">offset</span><span class="p">,</span> <span class="n">offset</span> <span class="o">*</span> <span class="n">steps</span><span class="p">))</span>
-</span><span id="read_qtop-716"><a href="#read_qtop-716"><span class="linenos">716</span></a>            <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="read_qtop-717"><a href="#read_qtop-717"><span class="linenos">717</span></a>
-</span><span id="read_qtop-718"><a href="#read_qtop-718"><span class="linenos">718</span></a>        <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_qtop-719"><a href="#read_qtop-719"><span class="linenos">719</span></a>            <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="read_qtop-720"><a href="#read_qtop-720"><span class="linenos">720</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-721"><a href="#read_qtop-721"><span class="linenos">721</span></a>            <span class="k">try</span><span class="p">:</span>
-</span><span id="read_qtop-722"><a href="#read_qtop-722"><span class="linenos">722</span></a>                <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
-</span><span id="read_qtop-723"><a href="#read_qtop-723"><span class="linenos">723</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
-</span><span id="read_qtop-724"><a href="#read_qtop-724"><span class="linenos">724</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="read_qtop-725"><a href="#read_qtop-725"><span class="linenos">725</span></a>                    <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="read_qtop-726"><a href="#read_qtop-726"><span class="linenos">726</span></a>
-</span><span id="read_qtop-727"><a href="#read_qtop-727"><span class="linenos">727</span></a>        <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="read_qtop-728"><a href="#read_qtop-728"><span class="linenos">728</span></a>            <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="read_qtop-729"><a href="#read_qtop-729"><span class="linenos">729</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-730"><a href="#read_qtop-730"><span class="linenos">730</span></a>            <span class="k">try</span><span class="p">:</span>
-</span><span id="read_qtop-731"><a href="#read_qtop-731"><span class="linenos">731</span></a>                <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
-</span><span id="read_qtop-732"><a href="#read_qtop-732"><span class="linenos">732</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
-</span><span id="read_qtop-733"><a href="#read_qtop-733"><span class="linenos">733</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
-</span><span id="read_qtop-734"><a href="#read_qtop-734"><span class="linenos">734</span></a>                    <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="read_qtop-735"><a href="#read_qtop-735"><span class="linenos">735</span></a>
-</span><span id="read_qtop-736"><a href="#read_qtop-736"><span class="linenos">736</span></a>        <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
-</span><span id="read_qtop-737"><a href="#read_qtop-737"><span class="linenos">737</span></a>            <span class="n">cstepsize</span> <span class="o">=</span> <span class="n">cmax</span> <span class="o">/</span> <span class="n">ncs</span>
-</span><span id="read_qtop-738"><a href="#read_qtop-738"><span class="linenos">738</span></a>            <span class="n">index_aim</span> <span class="o">=</span> <span class="nb">round</span><span class="p">(</span><span class="n">c</span> <span class="o">/</span> <span class="n">cstepsize</span><span class="p">)</span>
-</span><span id="read_qtop-739"><a href="#read_qtop-739"><span class="linenos">739</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-740"><a href="#read_qtop-740"><span class="linenos">740</span></a>            <span class="n">t_aim</span> <span class="o">=</span> <span class="p">(</span><span class="n">c</span> <span class="o">*</span> <span class="n">L</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">/</span> <span class="mi">8</span>
-</span><span id="read_qtop-741"><a href="#read_qtop-741"><span class="linenos">741</span></a>            <span class="n">index_aim</span> <span class="o">=</span> <span class="nb">round</span><span class="p">(</span><span class="n">t_aim</span> <span class="o">/</span> <span class="n">eps</span> <span class="o">/</span> <span class="n">dn</span><span class="p">)</span>
-</span><span id="read_qtop-742"><a href="#read_qtop-742"><span class="linenos">742</span></a>
-</span><span id="read_qtop-743"><a href="#read_qtop-743"><span class="linenos">743</span></a>        <span class="n">Q_sum</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_qtop-744"><a href="#read_qtop-744"><span class="linenos">744</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Q</span><span class="p">):</span>
-</span><span id="read_qtop-745"><a href="#read_qtop-745"><span class="linenos">745</span></a>            <span class="n">Q_sum</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="nb">sum</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="n">current</span><span class="p">:</span><span class="n">current</span> <span class="o">+</span> <span class="n">tmax</span><span class="p">])</span>
-</span><span id="read_qtop-746"><a href="#read_qtop-746"><span class="linenos">746</span></a>                         <span class="k">for</span> <span class="n">current</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">item</span><span class="p">),</span> <span class="n">tmax</span><span class="p">)])</span>
-</span><span id="read_qtop-747"><a href="#read_qtop-747"><span class="linenos">747</span></a>        <span class="n">Q_top</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_qtop-748"><a href="#read_qtop-748"><span class="linenos">748</span></a>        <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
-</span><span id="read_qtop-749"><a href="#read_qtop-749"><span class="linenos">749</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">)</span> <span class="o">//</span> <span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)):</span>
-</span><span id="read_qtop-750"><a href="#read_qtop-750"><span class="linenos">750</span></a>                <span class="n">Q_top</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">[</span><span class="n">i</span> <span class="o">*</span> <span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">+</span> <span class="n">index_aim</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="read_qtop-751"><a href="#read_qtop-751"><span class="linenos">751</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-752"><a href="#read_qtop-752"><span class="linenos">752</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">Q</span><span class="p">)</span> <span class="o">//</span> <span class="n">dtr_cnfg</span><span class="p">):</span>
-</span><span id="read_qtop-753"><a href="#read_qtop-753"><span class="linenos">753</span></a>                <span class="n">Q_top</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">[</span><span class="n">dtr_cnfg</span> <span class="o">*</span> <span class="n">i</span><span class="p">][</span><span class="n">index_aim</span><span class="p">])</span>
-</span><span id="read_qtop-754"><a href="#read_qtop-754"><span class="linenos">754</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">Q_top</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">traj_list</span><span class="p">)</span> <span class="o">//</span> <span class="n">dtr_cnfg</span><span class="p">:</span>
-</span><span id="read_qtop-755"><a href="#read_qtop-755"><span class="linenos">755</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;qtops and traj_list dont have the same length&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-756"><a href="#read_qtop-756"><span class="linenos">756</span></a>
-</span><span id="read_qtop-757"><a href="#read_qtop-757"><span class="linenos">757</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;integer_charge&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">):</span>
-</span><span id="read_qtop-758"><a href="#read_qtop-758"><span class="linenos">758</span></a>            <span class="n">Q_top</span> <span class="o">=</span> <span class="p">[</span><span class="nb">round</span><span class="p">(</span><span class="n">q</span><span class="p">)</span> <span class="k">for</span> <span class="n">q</span> <span class="ow">in</span> <span class="n">Q_top</span><span class="p">]</span>
-</span><span id="read_qtop-759"><a href="#read_qtop-759"><span class="linenos">759</span></a>
-</span><span id="read_qtop-760"><a href="#read_qtop-760"><span class="linenos">760</span></a>        <span class="n">truncated_file</span> <span class="o">=</span> <span class="n">file</span><span class="p">[:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">postfix</span><span class="p">)]</span>
-</span><span id="read_qtop-761"><a href="#read_qtop-761"><span class="linenos">761</span></a>
-</span><span id="read_qtop-762"><a href="#read_qtop-762"><span class="linenos">762</span></a>        <span class="k">if</span> <span class="s2">&quot;names&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_qtop-763"><a href="#read_qtop-763"><span class="linenos">763</span></a>            <span class="k">try</span><span class="p">:</span>
-</span><span id="read_qtop-764"><a href="#read_qtop-764"><span class="linenos">764</span></a>                <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_file</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
-</span><span id="read_qtop-765"><a href="#read_qtop-765"><span class="linenos">765</span></a>            <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="read_qtop-766"><a href="#read_qtop-766"><span class="linenos">766</span></a>                <span class="k">if</span> <span class="s2">&quot;names&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_qtop-767"><a href="#read_qtop-767"><span class="linenos">767</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-768"><a href="#read_qtop-768"><span class="linenos">768</span></a>            <span class="n">ens_name</span> <span class="o">=</span> <span class="n">truncated_file</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span>
-</span><span id="read_qtop-769"><a href="#read_qtop-769"><span class="linenos">769</span></a>            <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ens_name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_file</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="read_qtop-770"><a href="#read_qtop-770"><span class="linenos">770</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_qtop-771"><a href="#read_qtop-771"><span class="linenos">771</span></a>            <span class="n">names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;names&quot;</span><span class="p">)</span>
-</span><span id="read_qtop-772"><a href="#read_qtop-772"><span class="linenos">772</span></a>            <span class="n">rep_names</span> <span class="o">=</span> <span class="n">names</span>
-</span><span id="read_qtop-773"><a href="#read_qtop-773"><span class="linenos">773</span></a>        <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_top</span><span class="p">)</span>
-</span><span id="read_qtop-774"><a href="#read_qtop-774"><span class="linenos">774</span></a>
-</span><span id="read_qtop-775"><a href="#read_qtop-775"><span class="linenos">775</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]),</span> <span class="nb">int</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]])</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">))]</span>
-</span><span id="read_qtop-776"><a href="#read_qtop-776"><span class="linenos">776</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">deltas</span><span class="p">[</span><span class="n">nrep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">nrep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">))]</span>
-</span><span id="read_qtop-777"><a href="#read_qtop-777"><span class="linenos">777</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span>
-</span><span id="read_qtop-778"><a href="#read_qtop-778"><span class="linenos">778</span></a>    <span class="k">return</span> <span class="n">result</span>
+    <a class="headerlink" href="#read_qtop"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_qtop-524"><a href="#read_qtop-524"><span class="linenos">524</span></a><span class="k">def</span> <span class="nf">read_qtop</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;openQCD&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="read_qtop-525"><a href="#read_qtop-525"><span class="linenos">525</span></a>    <span class="sd">&quot;&quot;&quot;Read the topologial charge based on openQCD gradient flow measurements.</span>
+</span><span id="read_qtop-526"><a href="#read_qtop-526"><span class="linenos">526</span></a>
+</span><span id="read_qtop-527"><a href="#read_qtop-527"><span class="linenos">527</span></a><span class="sd">    Parameters</span>
+</span><span id="read_qtop-528"><a href="#read_qtop-528"><span class="linenos">528</span></a><span class="sd">    ----------</span>
+</span><span id="read_qtop-529"><a href="#read_qtop-529"><span class="linenos">529</span></a><span class="sd">    path : str</span>
+</span><span id="read_qtop-530"><a href="#read_qtop-530"><span class="linenos">530</span></a><span class="sd">        path of the measurement files</span>
+</span><span id="read_qtop-531"><a href="#read_qtop-531"><span class="linenos">531</span></a><span class="sd">    prefix : str</span>
+</span><span id="read_qtop-532"><a href="#read_qtop-532"><span class="linenos">532</span></a><span class="sd">        prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat.</span>
+</span><span id="read_qtop-533"><a href="#read_qtop-533"><span class="linenos">533</span></a><span class="sd">        Ignored if file names are passed explicitly via keyword files.</span>
+</span><span id="read_qtop-534"><a href="#read_qtop-534"><span class="linenos">534</span></a><span class="sd">    c : double</span>
+</span><span id="read_qtop-535"><a href="#read_qtop-535"><span class="linenos">535</span></a><span class="sd">        Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</span>
+</span><span id="read_qtop-536"><a href="#read_qtop-536"><span class="linenos">536</span></a><span class="sd">    dtr_cnfg : int</span>
+</span><span id="read_qtop-537"><a href="#read_qtop-537"><span class="linenos">537</span></a><span class="sd">        (optional) parameter that specifies the number of measurements</span>
+</span><span id="read_qtop-538"><a href="#read_qtop-538"><span class="linenos">538</span></a><span class="sd">        between two configs.</span>
+</span><span id="read_qtop-539"><a href="#read_qtop-539"><span class="linenos">539</span></a><span class="sd">        If it is not set, the distance between two measurements</span>
+</span><span id="read_qtop-540"><a href="#read_qtop-540"><span class="linenos">540</span></a><span class="sd">        in the file is assumed to be the distance between two configurations.</span>
+</span><span id="read_qtop-541"><a href="#read_qtop-541"><span class="linenos">541</span></a><span class="sd">    steps : int</span>
+</span><span id="read_qtop-542"><a href="#read_qtop-542"><span class="linenos">542</span></a><span class="sd">        (optional) Distance between two configurations in units of trajectories /</span>
+</span><span id="read_qtop-543"><a href="#read_qtop-543"><span class="linenos">543</span></a><span class="sd">         cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
+</span><span id="read_qtop-544"><a href="#read_qtop-544"><span class="linenos">544</span></a><span class="sd">    version : str</span>
+</span><span id="read_qtop-545"><a href="#read_qtop-545"><span class="linenos">545</span></a><span class="sd">        Either openQCD or sfqcd, depending on the data.</span>
+</span><span id="read_qtop-546"><a href="#read_qtop-546"><span class="linenos">546</span></a><span class="sd">    L : int</span>
+</span><span id="read_qtop-547"><a href="#read_qtop-547"><span class="linenos">547</span></a><span class="sd">        spatial length of the lattice in L/a.</span>
+</span><span id="read_qtop-548"><a href="#read_qtop-548"><span class="linenos">548</span></a><span class="sd">        HAS to be set if version != sfqcd, since openQCD does not provide</span>
+</span><span id="read_qtop-549"><a href="#read_qtop-549"><span class="linenos">549</span></a><span class="sd">        this in the header</span>
+</span><span id="read_qtop-550"><a href="#read_qtop-550"><span class="linenos">550</span></a><span class="sd">    r_start : list</span>
+</span><span id="read_qtop-551"><a href="#read_qtop-551"><span class="linenos">551</span></a><span class="sd">        list which contains the first config to be read for each replicum.</span>
+</span><span id="read_qtop-552"><a href="#read_qtop-552"><span class="linenos">552</span></a><span class="sd">    r_stop : list</span>
+</span><span id="read_qtop-553"><a href="#read_qtop-553"><span class="linenos">553</span></a><span class="sd">        list which contains the last config to be read for each replicum.</span>
+</span><span id="read_qtop-554"><a href="#read_qtop-554"><span class="linenos">554</span></a><span class="sd">    files : list</span>
+</span><span id="read_qtop-555"><a href="#read_qtop-555"><span class="linenos">555</span></a><span class="sd">        specify the exact files that need to be read</span>
+</span><span id="read_qtop-556"><a href="#read_qtop-556"><span class="linenos">556</span></a><span class="sd">        from path, practical if e.g. only one replicum is needed</span>
+</span><span id="read_qtop-557"><a href="#read_qtop-557"><span class="linenos">557</span></a><span class="sd">    names : list</span>
+</span><span id="read_qtop-558"><a href="#read_qtop-558"><span class="linenos">558</span></a><span class="sd">        Alternative labeling for replicas/ensembles.</span>
+</span><span id="read_qtop-559"><a href="#read_qtop-559"><span class="linenos">559</span></a><span class="sd">        Has to have the appropriate length.</span>
+</span><span id="read_qtop-560"><a href="#read_qtop-560"><span class="linenos">560</span></a><span class="sd">    Zeuthen_flow : bool</span>
+</span><span id="read_qtop-561"><a href="#read_qtop-561"><span class="linenos">561</span></a><span class="sd">        (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
+</span><span id="read_qtop-562"><a href="#read_qtop-562"><span class="linenos">562</span></a><span class="sd">        for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
+</span><span id="read_qtop-563"><a href="#read_qtop-563"><span class="linenos">563</span></a><span class="sd">    integer_charge : bool</span>
+</span><span id="read_qtop-564"><a href="#read_qtop-564"><span class="linenos">564</span></a><span class="sd">        If True, the charge is rounded towards the nearest integer on each config.</span>
+</span><span id="read_qtop-565"><a href="#read_qtop-565"><span class="linenos">565</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_qtop-566"><a href="#read_qtop-566"><span class="linenos">566</span></a>    <span class="n">known_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;openQCD&quot;</span><span class="p">,</span> <span class="s2">&quot;sfqcd&quot;</span><span class="p">]</span>
+</span><span id="read_qtop-567"><a href="#read_qtop-567"><span class="linenos">567</span></a>
+</span><span id="read_qtop-568"><a href="#read_qtop-568"><span class="linenos">568</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">known_versions</span><span class="p">:</span>
+</span><span id="read_qtop-569"><a href="#read_qtop-569"><span class="linenos">569</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown openQCD version.&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-570"><a href="#read_qtop-570"><span class="linenos">570</span></a>    <span class="k">if</span> <span class="s2">&quot;steps&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_qtop-571"><a href="#read_qtop-571"><span class="linenos">571</span></a>        <span class="n">steps</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;steps&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-572"><a href="#read_qtop-572"><span class="linenos">572</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;sfqcd&quot;</span><span class="p">:</span>
+</span><span id="read_qtop-573"><a href="#read_qtop-573"><span class="linenos">573</span></a>        <span class="k">if</span> <span class="s2">&quot;L&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_qtop-574"><a href="#read_qtop-574"><span class="linenos">574</span></a>            <span class="n">supposed_L</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;L&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-575"><a href="#read_qtop-575"><span class="linenos">575</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-576"><a href="#read_qtop-576"><span class="linenos">576</span></a>            <span class="n">supposed_L</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="read_qtop-577"><a href="#read_qtop-577"><span class="linenos">577</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s2">&quot;.gfms.dat&quot;</span>
+</span><span id="read_qtop-578"><a href="#read_qtop-578"><span class="linenos">578</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-579"><a href="#read_qtop-579"><span class="linenos">579</span></a>        <span class="k">if</span> <span class="s2">&quot;L&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_qtop-580"><a href="#read_qtop-580"><span class="linenos">580</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;This version of openQCD needs you to provide the spatial length of the lattice as parameter &#39;L&#39;.&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-581"><a href="#read_qtop-581"><span class="linenos">581</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-582"><a href="#read_qtop-582"><span class="linenos">582</span></a>            <span class="n">L</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;L&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-583"><a href="#read_qtop-583"><span class="linenos">583</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s2">&quot;.ms.dat&quot;</span>
+</span><span id="read_qtop-584"><a href="#read_qtop-584"><span class="linenos">584</span></a>
+</span><span id="read_qtop-585"><a href="#read_qtop-585"><span class="linenos">585</span></a>    <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_qtop-586"><a href="#read_qtop-586"><span class="linenos">586</span></a>        <span class="n">files</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-587"><a href="#read_qtop-587"><span class="linenos">587</span></a>        <span class="n">postfix</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
+</span><span id="read_qtop-588"><a href="#read_qtop-588"><span class="linenos">588</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-589"><a href="#read_qtop-589"><span class="linenos">589</span></a>        <span class="n">found</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_qtop-590"><a href="#read_qtop-590"><span class="linenos">590</span></a>        <span class="n">files</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_qtop-591"><a href="#read_qtop-591"><span class="linenos">591</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s2">&quot;/&quot;</span><span class="p">):</span>
+</span><span id="read_qtop-592"><a href="#read_qtop-592"><span class="linenos">592</span></a>            <span class="n">found</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
+</span><span id="read_qtop-593"><a href="#read_qtop-593"><span class="linenos">593</span></a>            <span class="k">break</span>
+</span><span id="read_qtop-594"><a href="#read_qtop-594"><span class="linenos">594</span></a>        <span class="k">for</span> <span class="n">f</span> <span class="ow">in</span> <span class="n">found</span><span class="p">:</span>
+</span><span id="read_qtop-595"><a href="#read_qtop-595"><span class="linenos">595</span></a>            <span class="k">if</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">f</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s2">&quot;*&quot;</span> <span class="o">+</span> <span class="n">postfix</span><span class="p">):</span>
+</span><span id="read_qtop-596"><a href="#read_qtop-596"><span class="linenos">596</span></a>                <span class="n">files</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">f</span><span class="p">)</span>
+</span><span id="read_qtop-597"><a href="#read_qtop-597"><span class="linenos">597</span></a>
+</span><span id="read_qtop-598"><a href="#read_qtop-598"><span class="linenos">598</span></a>    <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_qtop-599"><a href="#read_qtop-599"><span class="linenos">599</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
+</span><span id="read_qtop-600"><a href="#read_qtop-600"><span class="linenos">600</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
+</span><span id="read_qtop-601"><a href="#read_qtop-601"><span class="linenos">601</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="read_qtop-602"><a href="#read_qtop-602"><span class="linenos">602</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
+</span><span id="read_qtop-603"><a href="#read_qtop-603"><span class="linenos">603</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-604"><a href="#read_qtop-604"><span class="linenos">604</span></a>        <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
+</span><span id="read_qtop-605"><a href="#read_qtop-605"><span class="linenos">605</span></a>
+</span><span id="read_qtop-606"><a href="#read_qtop-606"><span class="linenos">606</span></a>    <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_qtop-607"><a href="#read_qtop-607"><span class="linenos">607</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
+</span><span id="read_qtop-608"><a href="#read_qtop-608"><span class="linenos">608</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
+</span><span id="read_qtop-609"><a href="#read_qtop-609"><span class="linenos">609</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
+</span><span id="read_qtop-610"><a href="#read_qtop-610"><span class="linenos">610</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-611"><a href="#read_qtop-611"><span class="linenos">611</span></a>        <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
+</span><span id="read_qtop-612"><a href="#read_qtop-612"><span class="linenos">612</span></a>    <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_qtop-613"><a href="#read_qtop-613"><span class="linenos">613</span></a>
+</span><span id="read_qtop-614"><a href="#read_qtop-614"><span class="linenos">614</span></a>    <span class="n">zeuthen</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;Zeuthen_flow&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
+</span><span id="read_qtop-615"><a href="#read_qtop-615"><span class="linenos">615</span></a>    <span class="k">if</span> <span class="n">zeuthen</span> <span class="ow">and</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
+</span><span id="read_qtop-616"><a href="#read_qtop-616"><span class="linenos">616</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Zeuthen flow can only be used for version==sfqcd&#39;</span><span class="p">)</span>
+</span><span id="read_qtop-617"><a href="#read_qtop-617"><span class="linenos">617</span></a>
+</span><span id="read_qtop-618"><a href="#read_qtop-618"><span class="linenos">618</span></a>    <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_qtop-619"><a href="#read_qtop-619"><span class="linenos">619</span></a>    <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_qtop-620"><a href="#read_qtop-620"><span class="linenos">620</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_qtop-621"><a href="#read_qtop-621"><span class="linenos">621</span></a>    <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_qtop-622"><a href="#read_qtop-622"><span class="linenos">622</span></a>    <span class="k">for</span> <span class="n">rep</span><span class="p">,</span> <span class="n">file</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
+</span><span id="read_qtop-623"><a href="#read_qtop-623"><span class="linenos">623</span></a>        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s2">&quot;/&quot;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="s2">&quot;rb&quot;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="read_qtop-624"><a href="#read_qtop-624"><span class="linenos">624</span></a>
+</span><span id="read_qtop-625"><a href="#read_qtop-625"><span class="linenos">625</span></a>            <span class="n">Q</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_qtop-626"><a href="#read_qtop-626"><span class="linenos">626</span></a>            <span class="n">traj_list</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_qtop-627"><a href="#read_qtop-627"><span class="linenos">627</span></a>            <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
+</span><span id="read_qtop-628"><a href="#read_qtop-628"><span class="linenos">628</span></a>                <span class="k">if</span> <span class="n">zeuthen</span><span class="p">:</span>
+</span><span id="read_qtop-629"><a href="#read_qtop-629"><span class="linenos">629</span></a>                    <span class="n">obspos</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="read_qtop-630"><a href="#read_qtop-630"><span class="linenos">630</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-631"><a href="#read_qtop-631"><span class="linenos">631</span></a>                    <span class="n">obspos</span> <span class="o">=</span> <span class="mi">8</span>
+</span><span id="read_qtop-632"><a href="#read_qtop-632"><span class="linenos">632</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
+</span><span id="read_qtop-633"><a href="#read_qtop-633"><span class="linenos">633</span></a>                <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="read_qtop-634"><a href="#read_qtop-634"><span class="linenos">634</span></a>                <span class="n">zthfl</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>  <span class="c1"># Zeuthen flow -&gt; if it&#39;s equal to 2 it means that the Zeuthen flow is also &#39;measured&#39; (apart from the Wilson flow)</span>
+</span><span id="read_qtop-635"><a href="#read_qtop-635"><span class="linenos">635</span></a>                <span class="n">ncs</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>  <span class="c1"># number of different values for c in t_flow=1/8 c² L² -&gt; measurements done for ncs c&#39;s</span>
+</span><span id="read_qtop-636"><a href="#read_qtop-636"><span class="linenos">636</span></a>                <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>  <span class="c1"># lattice T/a</span>
+</span><span id="read_qtop-637"><a href="#read_qtop-637"><span class="linenos">637</span></a>
+</span><span id="read_qtop-638"><a href="#read_qtop-638"><span class="linenos">638</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
+</span><span id="read_qtop-639"><a href="#read_qtop-639"><span class="linenos">639</span></a>                <span class="n">Ls</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="read_qtop-640"><a href="#read_qtop-640"><span class="linenos">640</span></a>                <span class="k">if</span><span class="p">(</span><span class="n">Ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="ow">and</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">2</span><span class="p">]):</span>
+</span><span id="read_qtop-641"><a href="#read_qtop-641"><span class="linenos">641</span></a>                    <span class="n">L</span> <span class="o">=</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="read_qtop-642"><a href="#read_qtop-642"><span class="linenos">642</span></a>                    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">supposed_L</span> <span class="o">==</span> <span class="n">L</span><span class="p">)</span> <span class="ow">and</span> <span class="n">supposed_L</span><span class="p">:</span>
+</span><span id="read_qtop-643"><a href="#read_qtop-643"><span class="linenos">643</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It seems the length given in the header and by you contradict each other&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-644"><a href="#read_qtop-644"><span class="linenos">644</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-645"><a href="#read_qtop-645"><span class="linenos">645</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Found more than one spatial length in header!&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-646"><a href="#read_qtop-646"><span class="linenos">646</span></a>
+</span><span id="read_qtop-647"><a href="#read_qtop-647"><span class="linenos">647</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">16</span><span class="p">)</span>
+</span><span id="read_qtop-648"><a href="#read_qtop-648"><span class="linenos">648</span></a>                <span class="n">header2</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;dd&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="read_qtop-649"><a href="#read_qtop-649"><span class="linenos">649</span></a>                <span class="n">tol</span> <span class="o">=</span> <span class="n">header2</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="read_qtop-650"><a href="#read_qtop-650"><span class="linenos">650</span></a>                <span class="n">cmax</span> <span class="o">=</span> <span class="n">header2</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>  <span class="c1"># highest value of c used</span>
+</span><span id="read_qtop-651"><a href="#read_qtop-651"><span class="linenos">651</span></a>
+</span><span id="read_qtop-652"><a href="#read_qtop-652"><span class="linenos">652</span></a>                <span class="k">if</span> <span class="n">c</span> <span class="o">&gt;</span> <span class="n">cmax</span><span class="p">:</span>
+</span><span id="read_qtop-653"><a href="#read_qtop-653"><span class="linenos">653</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Flow has been determined between c=0 and c=</span><span class="si">%lf</span><span class="s1"> with tolerance </span><span class="si">%lf</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">cmax</span><span class="p">,</span> <span class="n">tol</span><span class="p">))</span>
+</span><span id="read_qtop-654"><a href="#read_qtop-654"><span class="linenos">654</span></a>
+</span><span id="read_qtop-655"><a href="#read_qtop-655"><span class="linenos">655</span></a>                <span class="k">if</span><span class="p">(</span><span class="n">zthfl</span> <span class="o">==</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="read_qtop-656"><a href="#read_qtop-656"><span class="linenos">656</span></a>                    <span class="n">nfl</span> <span class="o">=</span> <span class="mi">2</span>  <span class="c1"># number of flows</span>
+</span><span id="read_qtop-657"><a href="#read_qtop-657"><span class="linenos">657</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-658"><a href="#read_qtop-658"><span class="linenos">658</span></a>                    <span class="n">nfl</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="read_qtop-659"><a href="#read_qtop-659"><span class="linenos">659</span></a>                <span class="n">iobs</span> <span class="o">=</span> <span class="mi">8</span> <span class="o">*</span> <span class="n">nfl</span>  <span class="c1"># number of flow observables calculated</span>
+</span><span id="read_qtop-660"><a href="#read_qtop-660"><span class="linenos">660</span></a>
+</span><span id="read_qtop-661"><a href="#read_qtop-661"><span class="linenos">661</span></a>                <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_qtop-662"><a href="#read_qtop-662"><span class="linenos">662</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="read_qtop-663"><a href="#read_qtop-663"><span class="linenos">663</span></a>                    <span class="k">if</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
+</span><span id="read_qtop-664"><a href="#read_qtop-664"><span class="linenos">664</span></a>                        <span class="k">break</span>
+</span><span id="read_qtop-665"><a href="#read_qtop-665"><span class="linenos">665</span></a>                    <span class="n">traj_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>   <span class="c1"># trajectory number when measurement was done</span>
+</span><span id="read_qtop-666"><a href="#read_qtop-666"><span class="linenos">666</span></a>
+</span><span id="read_qtop-667"><a href="#read_qtop-667"><span class="linenos">667</span></a>                    <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="read_qtop-668"><a href="#read_qtop-668"><span class="linenos">668</span></a>                        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">iobs</span><span class="p">):</span>
+</span><span id="read_qtop-669"><a href="#read_qtop-669"><span class="linenos">669</span></a>                            <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span><span class="p">)</span>
+</span><span id="read_qtop-670"><a href="#read_qtop-670"><span class="linenos">670</span></a>                            <span class="k">if</span> <span class="p">(</span><span class="n">i</span> <span class="o">==</span> <span class="n">obspos</span><span class="p">):</span>  <span class="c1"># determines the flow observable -&gt; i=0 &lt;-&gt; Zeuthen flow</span>
+</span><span id="read_qtop-671"><a href="#read_qtop-671"><span class="linenos">671</span></a>                                <span class="n">Q</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span><span class="p">,</span> <span class="n">t</span><span class="p">))</span>
+</span><span id="read_qtop-672"><a href="#read_qtop-672"><span class="linenos">672</span></a>
+</span><span id="read_qtop-673"><a href="#read_qtop-673"><span class="linenos">673</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-674"><a href="#read_qtop-674"><span class="linenos">674</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
+</span><span id="read_qtop-675"><a href="#read_qtop-675"><span class="linenos">675</span></a>                <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="read_qtop-676"><a href="#read_qtop-676"><span class="linenos">676</span></a>                <span class="c1"># step size in integration steps &quot;dnms&quot;</span>
+</span><span id="read_qtop-677"><a href="#read_qtop-677"><span class="linenos">677</span></a>                <span class="n">dn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="read_qtop-678"><a href="#read_qtop-678"><span class="linenos">678</span></a>                <span class="c1"># number of measurements, so &quot;ntot&quot;/dn</span>
+</span><span id="read_qtop-679"><a href="#read_qtop-679"><span class="linenos">679</span></a>                <span class="n">nn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="read_qtop-680"><a href="#read_qtop-680"><span class="linenos">680</span></a>                <span class="c1"># lattice T/a</span>
+</span><span id="read_qtop-681"><a href="#read_qtop-681"><span class="linenos">681</span></a>                <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
+</span><span id="read_qtop-682"><a href="#read_qtop-682"><span class="linenos">682</span></a>
+</span><span id="read_qtop-683"><a href="#read_qtop-683"><span class="linenos">683</span></a>                <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
+</span><span id="read_qtop-684"><a href="#read_qtop-684"><span class="linenos">684</span></a>                <span class="n">eps</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="read_qtop-685"><a href="#read_qtop-685"><span class="linenos">685</span></a>
+</span><span id="read_qtop-686"><a href="#read_qtop-686"><span class="linenos">686</span></a>                <span class="k">while</span> <span class="mi">0</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_qtop-687"><a href="#read_qtop-687"><span class="linenos">687</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
+</span><span id="read_qtop-688"><a href="#read_qtop-688"><span class="linenos">688</span></a>                    <span class="k">if</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
+</span><span id="read_qtop-689"><a href="#read_qtop-689"><span class="linenos">689</span></a>                        <span class="k">break</span>
+</span><span id="read_qtop-690"><a href="#read_qtop-690"><span class="linenos">690</span></a>                    <span class="n">traj_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="read_qtop-691"><a href="#read_qtop-691"><span class="linenos">691</span></a>                    <span class="c1"># Wsl</span>
+</span><span id="read_qtop-692"><a href="#read_qtop-692"><span class="linenos">692</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="read_qtop-693"><a href="#read_qtop-693"><span class="linenos">693</span></a>                    <span class="c1"># Ysl</span>
+</span><span id="read_qtop-694"><a href="#read_qtop-694"><span class="linenos">694</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="read_qtop-695"><a href="#read_qtop-695"><span class="linenos">695</span></a>                    <span class="c1"># Qsl, which is asked for in this method</span>
+</span><span id="read_qtop-696"><a href="#read_qtop-696"><span class="linenos">696</span></a>                    <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="read_qtop-697"><a href="#read_qtop-697"><span class="linenos">697</span></a>                    <span class="c1"># unpack the array of Qtops,</span>
+</span><span id="read_qtop-698"><a href="#read_qtop-698"><span class="linenos">698</span></a>                    <span class="c1"># on each timeslice t=0,...,tmax-1 and the</span>
+</span><span id="read_qtop-699"><a href="#read_qtop-699"><span class="linenos">699</span></a>                    <span class="c1"># measurement number in = 0...nn (see README.qcd1)</span>
+</span><span id="read_qtop-700"><a href="#read_qtop-700"><span class="linenos">700</span></a>                    <span class="n">tmpd</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">)</span>
+</span><span id="read_qtop-701"><a href="#read_qtop-701"><span class="linenos">701</span></a>                    <span class="n">Q</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmpd</span><span class="p">)</span>
+</span><span id="read_qtop-702"><a href="#read_qtop-702"><span class="linenos">702</span></a>
+</span><span id="read_qtop-703"><a href="#read_qtop-703"><span class="linenos">703</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">traj_list</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_qtop-704"><a href="#read_qtop-704"><span class="linenos">704</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Irregularities in stepsize found&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-705"><a href="#read_qtop-705"><span class="linenos">705</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-706"><a href="#read_qtop-706"><span class="linenos">706</span></a>            <span class="k">if</span> <span class="s1">&#39;steps&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_qtop-707"><a href="#read_qtop-707"><span class="linenos">707</span></a>                <span class="k">if</span> <span class="n">steps</span> <span class="o">!=</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span>
+</span><span id="read_qtop-708"><a href="#read_qtop-708"><span class="linenos">708</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;steps and the found stepsize are not the same&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-709"><a href="#read_qtop-709"><span class="linenos">709</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-710"><a href="#read_qtop-710"><span class="linenos">710</span></a>                <span class="n">steps</span> <span class="o">=</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="read_qtop-711"><a href="#read_qtop-711"><span class="linenos">711</span></a>
+</span><span id="read_qtop-712"><a href="#read_qtop-712"><span class="linenos">712</span></a>        <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">tr</span> <span class="o">//</span> <span class="n">steps</span> <span class="o">//</span> <span class="n">dtr_cnfg</span> <span class="k">for</span> <span class="n">tr</span> <span class="ow">in</span> <span class="n">traj_list</span><span class="p">])</span>
+</span><span id="read_qtop-713"><a href="#read_qtop-713"><span class="linenos">713</span></a>        <span class="k">if</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_qtop-714"><a href="#read_qtop-714"><span class="linenos">714</span></a>            <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="read_qtop-715"><a href="#read_qtop-715"><span class="linenos">715</span></a>            <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config. Offset = </span><span class="si">%d</span><span class="s1"> configs (</span><span class="si">%d</span><span class="s1"> trajectories / cycles)&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="read_qtop-716"><a href="#read_qtop-716"><span class="linenos">716</span></a>                <span class="n">offset</span><span class="p">,</span> <span class="n">offset</span> <span class="o">*</span> <span class="n">steps</span><span class="p">))</span>
+</span><span id="read_qtop-717"><a href="#read_qtop-717"><span class="linenos">717</span></a>            <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="read_qtop-718"><a href="#read_qtop-718"><span class="linenos">718</span></a>
+</span><span id="read_qtop-719"><a href="#read_qtop-719"><span class="linenos">719</span></a>        <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_qtop-720"><a href="#read_qtop-720"><span class="linenos">720</span></a>            <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="read_qtop-721"><a href="#read_qtop-721"><span class="linenos">721</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-722"><a href="#read_qtop-722"><span class="linenos">722</span></a>            <span class="k">try</span><span class="p">:</span>
+</span><span id="read_qtop-723"><a href="#read_qtop-723"><span class="linenos">723</span></a>                <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
+</span><span id="read_qtop-724"><a href="#read_qtop-724"><span class="linenos">724</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+</span><span id="read_qtop-725"><a href="#read_qtop-725"><span class="linenos">725</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="read_qtop-726"><a href="#read_qtop-726"><span class="linenos">726</span></a>                    <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="read_qtop-727"><a href="#read_qtop-727"><span class="linenos">727</span></a>
+</span><span id="read_qtop-728"><a href="#read_qtop-728"><span class="linenos">728</span></a>        <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="read_qtop-729"><a href="#read_qtop-729"><span class="linenos">729</span></a>            <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="read_qtop-730"><a href="#read_qtop-730"><span class="linenos">730</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-731"><a href="#read_qtop-731"><span class="linenos">731</span></a>            <span class="k">try</span><span class="p">:</span>
+</span><span id="read_qtop-732"><a href="#read_qtop-732"><span class="linenos">732</span></a>                <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
+</span><span id="read_qtop-733"><a href="#read_qtop-733"><span class="linenos">733</span></a>            <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
+</span><span id="read_qtop-734"><a href="#read_qtop-734"><span class="linenos">734</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
+</span><span id="read_qtop-735"><a href="#read_qtop-735"><span class="linenos">735</span></a>                    <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="read_qtop-736"><a href="#read_qtop-736"><span class="linenos">736</span></a>
+</span><span id="read_qtop-737"><a href="#read_qtop-737"><span class="linenos">737</span></a>        <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
+</span><span id="read_qtop-738"><a href="#read_qtop-738"><span class="linenos">738</span></a>            <span class="n">cstepsize</span> <span class="o">=</span> <span class="n">cmax</span> <span class="o">/</span> <span class="n">ncs</span>
+</span><span id="read_qtop-739"><a href="#read_qtop-739"><span class="linenos">739</span></a>            <span class="n">index_aim</span> <span class="o">=</span> <span class="nb">round</span><span class="p">(</span><span class="n">c</span> <span class="o">/</span> <span class="n">cstepsize</span><span class="p">)</span>
+</span><span id="read_qtop-740"><a href="#read_qtop-740"><span class="linenos">740</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-741"><a href="#read_qtop-741"><span class="linenos">741</span></a>            <span class="n">t_aim</span> <span class="o">=</span> <span class="p">(</span><span class="n">c</span> <span class="o">*</span> <span class="n">L</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">/</span> <span class="mi">8</span>
+</span><span id="read_qtop-742"><a href="#read_qtop-742"><span class="linenos">742</span></a>            <span class="n">index_aim</span> <span class="o">=</span> <span class="nb">round</span><span class="p">(</span><span class="n">t_aim</span> <span class="o">/</span> <span class="n">eps</span> <span class="o">/</span> <span class="n">dn</span><span class="p">)</span>
+</span><span id="read_qtop-743"><a href="#read_qtop-743"><span class="linenos">743</span></a>
+</span><span id="read_qtop-744"><a href="#read_qtop-744"><span class="linenos">744</span></a>        <span class="n">Q_sum</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_qtop-745"><a href="#read_qtop-745"><span class="linenos">745</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Q</span><span class="p">):</span>
+</span><span id="read_qtop-746"><a href="#read_qtop-746"><span class="linenos">746</span></a>            <span class="n">Q_sum</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="nb">sum</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="n">current</span><span class="p">:</span><span class="n">current</span> <span class="o">+</span> <span class="n">tmax</span><span class="p">])</span>
+</span><span id="read_qtop-747"><a href="#read_qtop-747"><span class="linenos">747</span></a>                         <span class="k">for</span> <span class="n">current</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">item</span><span class="p">),</span> <span class="n">tmax</span><span class="p">)])</span>
+</span><span id="read_qtop-748"><a href="#read_qtop-748"><span class="linenos">748</span></a>        <span class="n">Q_top</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_qtop-749"><a href="#read_qtop-749"><span class="linenos">749</span></a>        <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
+</span><span id="read_qtop-750"><a href="#read_qtop-750"><span class="linenos">750</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">)</span> <span class="o">//</span> <span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)):</span>
+</span><span id="read_qtop-751"><a href="#read_qtop-751"><span class="linenos">751</span></a>                <span class="n">Q_top</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">[</span><span class="n">i</span> <span class="o">*</span> <span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">+</span> <span class="n">index_aim</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="read_qtop-752"><a href="#read_qtop-752"><span class="linenos">752</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-753"><a href="#read_qtop-753"><span class="linenos">753</span></a>            <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">Q</span><span class="p">)</span> <span class="o">//</span> <span class="n">dtr_cnfg</span><span class="p">):</span>
+</span><span id="read_qtop-754"><a href="#read_qtop-754"><span class="linenos">754</span></a>                <span class="n">Q_top</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">[</span><span class="n">dtr_cnfg</span> <span class="o">*</span> <span class="n">i</span><span class="p">][</span><span class="n">index_aim</span><span class="p">])</span>
+</span><span id="read_qtop-755"><a href="#read_qtop-755"><span class="linenos">755</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">Q_top</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">traj_list</span><span class="p">)</span> <span class="o">//</span> <span class="n">dtr_cnfg</span><span class="p">:</span>
+</span><span id="read_qtop-756"><a href="#read_qtop-756"><span class="linenos">756</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;qtops and traj_list dont have the same length&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-757"><a href="#read_qtop-757"><span class="linenos">757</span></a>
+</span><span id="read_qtop-758"><a href="#read_qtop-758"><span class="linenos">758</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;integer_charge&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">):</span>
+</span><span id="read_qtop-759"><a href="#read_qtop-759"><span class="linenos">759</span></a>            <span class="n">Q_top</span> <span class="o">=</span> <span class="p">[</span><span class="nb">round</span><span class="p">(</span><span class="n">q</span><span class="p">)</span> <span class="k">for</span> <span class="n">q</span> <span class="ow">in</span> <span class="n">Q_top</span><span class="p">]</span>
+</span><span id="read_qtop-760"><a href="#read_qtop-760"><span class="linenos">760</span></a>
+</span><span id="read_qtop-761"><a href="#read_qtop-761"><span class="linenos">761</span></a>        <span class="n">truncated_file</span> <span class="o">=</span> <span class="n">file</span><span class="p">[:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">postfix</span><span class="p">)]</span>
+</span><span id="read_qtop-762"><a href="#read_qtop-762"><span class="linenos">762</span></a>
+</span><span id="read_qtop-763"><a href="#read_qtop-763"><span class="linenos">763</span></a>        <span class="k">if</span> <span class="s2">&quot;names&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_qtop-764"><a href="#read_qtop-764"><span class="linenos">764</span></a>            <span class="k">try</span><span class="p">:</span>
+</span><span id="read_qtop-765"><a href="#read_qtop-765"><span class="linenos">765</span></a>                <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_file</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
+</span><span id="read_qtop-766"><a href="#read_qtop-766"><span class="linenos">766</span></a>            <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="read_qtop-767"><a href="#read_qtop-767"><span class="linenos">767</span></a>                <span class="k">if</span> <span class="s2">&quot;names&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_qtop-768"><a href="#read_qtop-768"><span class="linenos">768</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-769"><a href="#read_qtop-769"><span class="linenos">769</span></a>            <span class="n">ens_name</span> <span class="o">=</span> <span class="n">truncated_file</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span>
+</span><span id="read_qtop-770"><a href="#read_qtop-770"><span class="linenos">770</span></a>            <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ens_name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_file</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="read_qtop-771"><a href="#read_qtop-771"><span class="linenos">771</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_qtop-772"><a href="#read_qtop-772"><span class="linenos">772</span></a>            <span class="n">names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;names&quot;</span><span class="p">)</span>
+</span><span id="read_qtop-773"><a href="#read_qtop-773"><span class="linenos">773</span></a>            <span class="n">rep_names</span> <span class="o">=</span> <span class="n">names</span>
+</span><span id="read_qtop-774"><a href="#read_qtop-774"><span class="linenos">774</span></a>        <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_top</span><span class="p">)</span>
+</span><span id="read_qtop-775"><a href="#read_qtop-775"><span class="linenos">775</span></a>
+</span><span id="read_qtop-776"><a href="#read_qtop-776"><span class="linenos">776</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]),</span> <span class="nb">int</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]])</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">))]</span>
+</span><span id="read_qtop-777"><a href="#read_qtop-777"><span class="linenos">777</span></a>    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">deltas</span><span class="p">[</span><span class="n">nrep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">nrep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">))]</span>
+</span><span id="read_qtop-778"><a href="#read_qtop-778"><span class="linenos">778</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span>
+</span><span id="read_qtop-779"><a href="#read_qtop-779"><span class="linenos">779</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Read the topologial charge based on openQCD gradient flow measurements.</p>
 
@@ -1839,38 +1840,38 @@ If True, the charge is rounded towards the nearest integer on each config.</li>
 
                 </section>
                 <section id="qtop_projection">
-                            <div class="attr function"><a class="headerlink" href="#qtop_projection">#&nbsp;&nbsp</a>
+                            <input id="qtop_projection-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">qtop_projection</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">qtop</span>, </span><span class="param"><span class="n">target</span><span class="o">=</span><span class="mi">0</span></span>)</span>
+
+                <label class="view-source-button" for="qtop_projection-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">qtop_projection</span><span class="signature">(qtop, target=0)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="qtop_projection-781"><a href="#qtop_projection-781"><span class="linenos">781</span></a><span class="k">def</span> <span class="nf">qtop_projection</span><span class="p">(</span><span class="n">qtop</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span>
-</span><span id="qtop_projection-782"><a href="#qtop_projection-782"><span class="linenos">782</span></a>    <span class="sd">&quot;&quot;&quot;Returns the projection to the topological charge sector defined by target.</span>
-</span><span id="qtop_projection-783"><a href="#qtop_projection-783"><span class="linenos">783</span></a>
-</span><span id="qtop_projection-784"><a href="#qtop_projection-784"><span class="linenos">784</span></a><span class="sd">    Parameters</span>
-</span><span id="qtop_projection-785"><a href="#qtop_projection-785"><span class="linenos">785</span></a><span class="sd">    ----------</span>
-</span><span id="qtop_projection-786"><a href="#qtop_projection-786"><span class="linenos">786</span></a><span class="sd">    path : Obs</span>
-</span><span id="qtop_projection-787"><a href="#qtop_projection-787"><span class="linenos">787</span></a><span class="sd">        Topological charge.</span>
-</span><span id="qtop_projection-788"><a href="#qtop_projection-788"><span class="linenos">788</span></a><span class="sd">    target : int</span>
-</span><span id="qtop_projection-789"><a href="#qtop_projection-789"><span class="linenos">789</span></a><span class="sd">        Specifies the topological sector to be reweighted to (default 0)</span>
-</span><span id="qtop_projection-790"><a href="#qtop_projection-790"><span class="linenos">790</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="qtop_projection-791"><a href="#qtop_projection-791"><span class="linenos">791</span></a>    <span class="k">if</span> <span class="n">qtop</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
-</span><span id="qtop_projection-792"><a href="#qtop_projection-792"><span class="linenos">792</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You can not use a reweighted observable for reweighting!&#39;</span><span class="p">)</span>
-</span><span id="qtop_projection-793"><a href="#qtop_projection-793"><span class="linenos">793</span></a>
-</span><span id="qtop_projection-794"><a href="#qtop_projection-794"><span class="linenos">794</span></a>    <span class="n">proj_qtop</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="qtop_projection-795"><a href="#qtop_projection-795"><span class="linenos">795</span></a>    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">deltas</span><span class="p">:</span>
-</span><span id="qtop_projection-796"><a href="#qtop_projection-796"><span class="linenos">796</span></a>        <span class="n">proj_qtop</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="mi">1</span> <span class="k">if</span> <span class="nb">round</span><span class="p">(</span><span class="n">qtop</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">q</span><span class="p">)</span> <span class="o">==</span> <span class="n">target</span> <span class="k">else</span> <span class="mi">0</span> <span class="k">for</span> <span class="n">q</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">n</span><span class="p">]]))</span>
-</span><span id="qtop_projection-797"><a href="#qtop_projection-797"><span class="linenos">797</span></a>
-</span><span id="qtop_projection-798"><a href="#qtop_projection-798"><span class="linenos">798</span></a>    <span class="n">reto</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">proj_qtop</span><span class="p">,</span> <span class="n">qtop</span><span class="o">.</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">qtop</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">names</span><span class="p">])</span>
-</span><span id="qtop_projection-799"><a href="#qtop_projection-799"><span class="linenos">799</span></a>    <span class="n">reto</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">qtop</span><span class="o">.</span><span class="n">is_merged</span>
-</span><span id="qtop_projection-800"><a href="#qtop_projection-800"><span class="linenos">800</span></a>    <span class="k">return</span> <span class="n">reto</span>
+    <a class="headerlink" href="#qtop_projection"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="qtop_projection-782"><a href="#qtop_projection-782"><span class="linenos">782</span></a><span class="k">def</span> <span class="nf">qtop_projection</span><span class="p">(</span><span class="n">qtop</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span>
+</span><span id="qtop_projection-783"><a href="#qtop_projection-783"><span class="linenos">783</span></a>    <span class="sd">&quot;&quot;&quot;Returns the projection to the topological charge sector defined by target.</span>
+</span><span id="qtop_projection-784"><a href="#qtop_projection-784"><span class="linenos">784</span></a>
+</span><span id="qtop_projection-785"><a href="#qtop_projection-785"><span class="linenos">785</span></a><span class="sd">    Parameters</span>
+</span><span id="qtop_projection-786"><a href="#qtop_projection-786"><span class="linenos">786</span></a><span class="sd">    ----------</span>
+</span><span id="qtop_projection-787"><a href="#qtop_projection-787"><span class="linenos">787</span></a><span class="sd">    path : Obs</span>
+</span><span id="qtop_projection-788"><a href="#qtop_projection-788"><span class="linenos">788</span></a><span class="sd">        Topological charge.</span>
+</span><span id="qtop_projection-789"><a href="#qtop_projection-789"><span class="linenos">789</span></a><span class="sd">    target : int</span>
+</span><span id="qtop_projection-790"><a href="#qtop_projection-790"><span class="linenos">790</span></a><span class="sd">        Specifies the topological sector to be reweighted to (default 0)</span>
+</span><span id="qtop_projection-791"><a href="#qtop_projection-791"><span class="linenos">791</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="qtop_projection-792"><a href="#qtop_projection-792"><span class="linenos">792</span></a>    <span class="k">if</span> <span class="n">qtop</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
+</span><span id="qtop_projection-793"><a href="#qtop_projection-793"><span class="linenos">793</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You can not use a reweighted observable for reweighting!&#39;</span><span class="p">)</span>
+</span><span id="qtop_projection-794"><a href="#qtop_projection-794"><span class="linenos">794</span></a>
+</span><span id="qtop_projection-795"><a href="#qtop_projection-795"><span class="linenos">795</span></a>    <span class="n">proj_qtop</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="qtop_projection-796"><a href="#qtop_projection-796"><span class="linenos">796</span></a>    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">deltas</span><span class="p">:</span>
+</span><span id="qtop_projection-797"><a href="#qtop_projection-797"><span class="linenos">797</span></a>        <span class="n">proj_qtop</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="mi">1</span> <span class="k">if</span> <span class="nb">round</span><span class="p">(</span><span class="n">qtop</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">q</span><span class="p">)</span> <span class="o">==</span> <span class="n">target</span> <span class="k">else</span> <span class="mi">0</span> <span class="k">for</span> <span class="n">q</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">n</span><span class="p">]]))</span>
+</span><span id="qtop_projection-798"><a href="#qtop_projection-798"><span class="linenos">798</span></a>
+</span><span id="qtop_projection-799"><a href="#qtop_projection-799"><span class="linenos">799</span></a>    <span class="n">reto</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">proj_qtop</span><span class="p">,</span> <span class="n">qtop</span><span class="o">.</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">qtop</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">names</span><span class="p">])</span>
+</span><span id="qtop_projection-800"><a href="#qtop_projection-800"><span class="linenos">800</span></a>    <span class="n">reto</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">qtop</span><span class="o">.</span><span class="n">is_merged</span>
+</span><span id="qtop_projection-801"><a href="#qtop_projection-801"><span class="linenos">801</span></a>    <span class="k">return</span> <span class="n">reto</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Returns the projection to the topological charge sector defined by target.</p>
 
@@ -1887,69 +1888,69 @@ Specifies the topological sector to be reweighted to (default 0)</li>
 
                 </section>
                 <section id="read_qtop_sector">
-                            <div class="attr function"><a class="headerlink" href="#read_qtop_sector">#&nbsp;&nbsp</a>
+                            <input id="read_qtop_sector-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_qtop_sector</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">prefix</span>, </span><span class="param"><span class="n">c</span>, </span><span class="param"><span class="n">target</span><span class="o">=</span><span class="mi">0</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="read_qtop_sector-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_qtop_sector</span><span class="signature">(path, prefix, c, target=0, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_qtop_sector-803"><a href="#read_qtop_sector-803"><span class="linenos">803</span></a><span class="k">def</span> <span class="nf">read_qtop_sector</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="read_qtop_sector-804"><a href="#read_qtop_sector-804"><span class="linenos">804</span></a>    <span class="sd">&quot;&quot;&quot;Constructs reweighting factors to a specified topological sector.</span>
-</span><span id="read_qtop_sector-805"><a href="#read_qtop_sector-805"><span class="linenos">805</span></a>
-</span><span id="read_qtop_sector-806"><a href="#read_qtop_sector-806"><span class="linenos">806</span></a><span class="sd">    Parameters</span>
-</span><span id="read_qtop_sector-807"><a href="#read_qtop_sector-807"><span class="linenos">807</span></a><span class="sd">    ----------</span>
-</span><span id="read_qtop_sector-808"><a href="#read_qtop_sector-808"><span class="linenos">808</span></a><span class="sd">    path : str</span>
-</span><span id="read_qtop_sector-809"><a href="#read_qtop_sector-809"><span class="linenos">809</span></a><span class="sd">        path of the measurement files</span>
-</span><span id="read_qtop_sector-810"><a href="#read_qtop_sector-810"><span class="linenos">810</span></a><span class="sd">    prefix : str</span>
-</span><span id="read_qtop_sector-811"><a href="#read_qtop_sector-811"><span class="linenos">811</span></a><span class="sd">        prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat</span>
-</span><span id="read_qtop_sector-812"><a href="#read_qtop_sector-812"><span class="linenos">812</span></a><span class="sd">    c : double</span>
-</span><span id="read_qtop_sector-813"><a href="#read_qtop_sector-813"><span class="linenos">813</span></a><span class="sd">        Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L</span>
-</span><span id="read_qtop_sector-814"><a href="#read_qtop_sector-814"><span class="linenos">814</span></a><span class="sd">    target : int</span>
-</span><span id="read_qtop_sector-815"><a href="#read_qtop_sector-815"><span class="linenos">815</span></a><span class="sd">        Specifies the topological sector to be reweighted to (default 0)</span>
-</span><span id="read_qtop_sector-816"><a href="#read_qtop_sector-816"><span class="linenos">816</span></a><span class="sd">    dtr_cnfg : int</span>
-</span><span id="read_qtop_sector-817"><a href="#read_qtop_sector-817"><span class="linenos">817</span></a><span class="sd">        (optional) parameter that specifies the number of trajectories</span>
-</span><span id="read_qtop_sector-818"><a href="#read_qtop_sector-818"><span class="linenos">818</span></a><span class="sd">        between two configs.</span>
-</span><span id="read_qtop_sector-819"><a href="#read_qtop_sector-819"><span class="linenos">819</span></a><span class="sd">        if it is not set, the distance between two measurements</span>
-</span><span id="read_qtop_sector-820"><a href="#read_qtop_sector-820"><span class="linenos">820</span></a><span class="sd">        in the file is assumed to be the distance between two configurations.</span>
-</span><span id="read_qtop_sector-821"><a href="#read_qtop_sector-821"><span class="linenos">821</span></a><span class="sd">    steps : int</span>
-</span><span id="read_qtop_sector-822"><a href="#read_qtop_sector-822"><span class="linenos">822</span></a><span class="sd">        (optional) Distance between two configurations in units of trajectories /</span>
-</span><span id="read_qtop_sector-823"><a href="#read_qtop_sector-823"><span class="linenos">823</span></a><span class="sd">         cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
-</span><span id="read_qtop_sector-824"><a href="#read_qtop_sector-824"><span class="linenos">824</span></a><span class="sd">    version : str</span>
-</span><span id="read_qtop_sector-825"><a href="#read_qtop_sector-825"><span class="linenos">825</span></a><span class="sd">        version string of the openQCD (sfqcd) version used to create</span>
-</span><span id="read_qtop_sector-826"><a href="#read_qtop_sector-826"><span class="linenos">826</span></a><span class="sd">        the ensemble. Default is 2.0. May also be set to sfqcd.</span>
-</span><span id="read_qtop_sector-827"><a href="#read_qtop_sector-827"><span class="linenos">827</span></a><span class="sd">    L : int</span>
-</span><span id="read_qtop_sector-828"><a href="#read_qtop_sector-828"><span class="linenos">828</span></a><span class="sd">        spatial length of the lattice in L/a.</span>
-</span><span id="read_qtop_sector-829"><a href="#read_qtop_sector-829"><span class="linenos">829</span></a><span class="sd">        HAS to be set if version != sfqcd, since openQCD does not provide</span>
-</span><span id="read_qtop_sector-830"><a href="#read_qtop_sector-830"><span class="linenos">830</span></a><span class="sd">        this in the header</span>
-</span><span id="read_qtop_sector-831"><a href="#read_qtop_sector-831"><span class="linenos">831</span></a><span class="sd">    r_start : list</span>
-</span><span id="read_qtop_sector-832"><a href="#read_qtop_sector-832"><span class="linenos">832</span></a><span class="sd">        offset of the first ensemble, making it easier to match</span>
-</span><span id="read_qtop_sector-833"><a href="#read_qtop_sector-833"><span class="linenos">833</span></a><span class="sd">        later on with other Obs</span>
-</span><span id="read_qtop_sector-834"><a href="#read_qtop_sector-834"><span class="linenos">834</span></a><span class="sd">    r_stop : list</span>
-</span><span id="read_qtop_sector-835"><a href="#read_qtop_sector-835"><span class="linenos">835</span></a><span class="sd">        last configurations that need to be read (per replicum)</span>
-</span><span id="read_qtop_sector-836"><a href="#read_qtop_sector-836"><span class="linenos">836</span></a><span class="sd">    files : list</span>
-</span><span id="read_qtop_sector-837"><a href="#read_qtop_sector-837"><span class="linenos">837</span></a><span class="sd">        specify the exact files that need to be read</span>
-</span><span id="read_qtop_sector-838"><a href="#read_qtop_sector-838"><span class="linenos">838</span></a><span class="sd">        from path, practical if e.g. only one replicum is needed</span>
-</span><span id="read_qtop_sector-839"><a href="#read_qtop_sector-839"><span class="linenos">839</span></a><span class="sd">    names : list</span>
-</span><span id="read_qtop_sector-840"><a href="#read_qtop_sector-840"><span class="linenos">840</span></a><span class="sd">        Alternative labeling for replicas/ensembles.</span>
-</span><span id="read_qtop_sector-841"><a href="#read_qtop_sector-841"><span class="linenos">841</span></a><span class="sd">        Has to have the appropriate length</span>
-</span><span id="read_qtop_sector-842"><a href="#read_qtop_sector-842"><span class="linenos">842</span></a><span class="sd">    Zeuthen_flow : bool</span>
-</span><span id="read_qtop_sector-843"><a href="#read_qtop_sector-843"><span class="linenos">843</span></a><span class="sd">        (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
-</span><span id="read_qtop_sector-844"><a href="#read_qtop_sector-844"><span class="linenos">844</span></a><span class="sd">        for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
-</span><span id="read_qtop_sector-845"><a href="#read_qtop_sector-845"><span class="linenos">845</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_qtop_sector-846"><a href="#read_qtop_sector-846"><span class="linenos">846</span></a>
-</span><span id="read_qtop_sector-847"><a href="#read_qtop_sector-847"><span class="linenos">847</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">target</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
-</span><span id="read_qtop_sector-848"><a href="#read_qtop_sector-848"><span class="linenos">848</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;target&#39; has to be an integer.&quot;</span><span class="p">)</span>
-</span><span id="read_qtop_sector-849"><a href="#read_qtop_sector-849"><span class="linenos">849</span></a>
-</span><span id="read_qtop_sector-850"><a href="#read_qtop_sector-850"><span class="linenos">850</span></a>    <span class="n">kwargs</span><span class="p">[</span><span class="s1">&#39;integer_charge&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="read_qtop_sector-851"><a href="#read_qtop_sector-851"><span class="linenos">851</span></a>    <span class="n">qtop</span> <span class="o">=</span> <span class="n">read_qtop</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="read_qtop_sector-852"><a href="#read_qtop_sector-852"><span class="linenos">852</span></a>
-</span><span id="read_qtop_sector-853"><a href="#read_qtop_sector-853"><span class="linenos">853</span></a>    <span class="k">return</span> <span class="n">qtop_projection</span><span class="p">(</span><span class="n">qtop</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="n">target</span><span class="p">)</span>
+    <a class="headerlink" href="#read_qtop_sector"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_qtop_sector-804"><a href="#read_qtop_sector-804"><span class="linenos">804</span></a><span class="k">def</span> <span class="nf">read_qtop_sector</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="read_qtop_sector-805"><a href="#read_qtop_sector-805"><span class="linenos">805</span></a>    <span class="sd">&quot;&quot;&quot;Constructs reweighting factors to a specified topological sector.</span>
+</span><span id="read_qtop_sector-806"><a href="#read_qtop_sector-806"><span class="linenos">806</span></a>
+</span><span id="read_qtop_sector-807"><a href="#read_qtop_sector-807"><span class="linenos">807</span></a><span class="sd">    Parameters</span>
+</span><span id="read_qtop_sector-808"><a href="#read_qtop_sector-808"><span class="linenos">808</span></a><span class="sd">    ----------</span>
+</span><span id="read_qtop_sector-809"><a href="#read_qtop_sector-809"><span class="linenos">809</span></a><span class="sd">    path : str</span>
+</span><span id="read_qtop_sector-810"><a href="#read_qtop_sector-810"><span class="linenos">810</span></a><span class="sd">        path of the measurement files</span>
+</span><span id="read_qtop_sector-811"><a href="#read_qtop_sector-811"><span class="linenos">811</span></a><span class="sd">    prefix : str</span>
+</span><span id="read_qtop_sector-812"><a href="#read_qtop_sector-812"><span class="linenos">812</span></a><span class="sd">        prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat</span>
+</span><span id="read_qtop_sector-813"><a href="#read_qtop_sector-813"><span class="linenos">813</span></a><span class="sd">    c : double</span>
+</span><span id="read_qtop_sector-814"><a href="#read_qtop_sector-814"><span class="linenos">814</span></a><span class="sd">        Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L</span>
+</span><span id="read_qtop_sector-815"><a href="#read_qtop_sector-815"><span class="linenos">815</span></a><span class="sd">    target : int</span>
+</span><span id="read_qtop_sector-816"><a href="#read_qtop_sector-816"><span class="linenos">816</span></a><span class="sd">        Specifies the topological sector to be reweighted to (default 0)</span>
+</span><span id="read_qtop_sector-817"><a href="#read_qtop_sector-817"><span class="linenos">817</span></a><span class="sd">    dtr_cnfg : int</span>
+</span><span id="read_qtop_sector-818"><a href="#read_qtop_sector-818"><span class="linenos">818</span></a><span class="sd">        (optional) parameter that specifies the number of trajectories</span>
+</span><span id="read_qtop_sector-819"><a href="#read_qtop_sector-819"><span class="linenos">819</span></a><span class="sd">        between two configs.</span>
+</span><span id="read_qtop_sector-820"><a href="#read_qtop_sector-820"><span class="linenos">820</span></a><span class="sd">        if it is not set, the distance between two measurements</span>
+</span><span id="read_qtop_sector-821"><a href="#read_qtop_sector-821"><span class="linenos">821</span></a><span class="sd">        in the file is assumed to be the distance between two configurations.</span>
+</span><span id="read_qtop_sector-822"><a href="#read_qtop_sector-822"><span class="linenos">822</span></a><span class="sd">    steps : int</span>
+</span><span id="read_qtop_sector-823"><a href="#read_qtop_sector-823"><span class="linenos">823</span></a><span class="sd">        (optional) Distance between two configurations in units of trajectories /</span>
+</span><span id="read_qtop_sector-824"><a href="#read_qtop_sector-824"><span class="linenos">824</span></a><span class="sd">         cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
+</span><span id="read_qtop_sector-825"><a href="#read_qtop_sector-825"><span class="linenos">825</span></a><span class="sd">    version : str</span>
+</span><span id="read_qtop_sector-826"><a href="#read_qtop_sector-826"><span class="linenos">826</span></a><span class="sd">        version string of the openQCD (sfqcd) version used to create</span>
+</span><span id="read_qtop_sector-827"><a href="#read_qtop_sector-827"><span class="linenos">827</span></a><span class="sd">        the ensemble. Default is 2.0. May also be set to sfqcd.</span>
+</span><span id="read_qtop_sector-828"><a href="#read_qtop_sector-828"><span class="linenos">828</span></a><span class="sd">    L : int</span>
+</span><span id="read_qtop_sector-829"><a href="#read_qtop_sector-829"><span class="linenos">829</span></a><span class="sd">        spatial length of the lattice in L/a.</span>
+</span><span id="read_qtop_sector-830"><a href="#read_qtop_sector-830"><span class="linenos">830</span></a><span class="sd">        HAS to be set if version != sfqcd, since openQCD does not provide</span>
+</span><span id="read_qtop_sector-831"><a href="#read_qtop_sector-831"><span class="linenos">831</span></a><span class="sd">        this in the header</span>
+</span><span id="read_qtop_sector-832"><a href="#read_qtop_sector-832"><span class="linenos">832</span></a><span class="sd">    r_start : list</span>
+</span><span id="read_qtop_sector-833"><a href="#read_qtop_sector-833"><span class="linenos">833</span></a><span class="sd">        offset of the first ensemble, making it easier to match</span>
+</span><span id="read_qtop_sector-834"><a href="#read_qtop_sector-834"><span class="linenos">834</span></a><span class="sd">        later on with other Obs</span>
+</span><span id="read_qtop_sector-835"><a href="#read_qtop_sector-835"><span class="linenos">835</span></a><span class="sd">    r_stop : list</span>
+</span><span id="read_qtop_sector-836"><a href="#read_qtop_sector-836"><span class="linenos">836</span></a><span class="sd">        last configurations that need to be read (per replicum)</span>
+</span><span id="read_qtop_sector-837"><a href="#read_qtop_sector-837"><span class="linenos">837</span></a><span class="sd">    files : list</span>
+</span><span id="read_qtop_sector-838"><a href="#read_qtop_sector-838"><span class="linenos">838</span></a><span class="sd">        specify the exact files that need to be read</span>
+</span><span id="read_qtop_sector-839"><a href="#read_qtop_sector-839"><span class="linenos">839</span></a><span class="sd">        from path, practical if e.g. only one replicum is needed</span>
+</span><span id="read_qtop_sector-840"><a href="#read_qtop_sector-840"><span class="linenos">840</span></a><span class="sd">    names : list</span>
+</span><span id="read_qtop_sector-841"><a href="#read_qtop_sector-841"><span class="linenos">841</span></a><span class="sd">        Alternative labeling for replicas/ensembles.</span>
+</span><span id="read_qtop_sector-842"><a href="#read_qtop_sector-842"><span class="linenos">842</span></a><span class="sd">        Has to have the appropriate length</span>
+</span><span id="read_qtop_sector-843"><a href="#read_qtop_sector-843"><span class="linenos">843</span></a><span class="sd">    Zeuthen_flow : bool</span>
+</span><span id="read_qtop_sector-844"><a href="#read_qtop_sector-844"><span class="linenos">844</span></a><span class="sd">        (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
+</span><span id="read_qtop_sector-845"><a href="#read_qtop_sector-845"><span class="linenos">845</span></a><span class="sd">        for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
+</span><span id="read_qtop_sector-846"><a href="#read_qtop_sector-846"><span class="linenos">846</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_qtop_sector-847"><a href="#read_qtop_sector-847"><span class="linenos">847</span></a>
+</span><span id="read_qtop_sector-848"><a href="#read_qtop_sector-848"><span class="linenos">848</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">target</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
+</span><span id="read_qtop_sector-849"><a href="#read_qtop_sector-849"><span class="linenos">849</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;target&#39; has to be an integer.&quot;</span><span class="p">)</span>
+</span><span id="read_qtop_sector-850"><a href="#read_qtop_sector-850"><span class="linenos">850</span></a>
+</span><span id="read_qtop_sector-851"><a href="#read_qtop_sector-851"><span class="linenos">851</span></a>    <span class="n">kwargs</span><span class="p">[</span><span class="s1">&#39;integer_charge&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="read_qtop_sector-852"><a href="#read_qtop_sector-852"><span class="linenos">852</span></a>    <span class="n">qtop</span> <span class="o">=</span> <span class="n">read_qtop</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="read_qtop_sector-853"><a href="#read_qtop_sector-853"><span class="linenos">853</span></a>
+</span><span id="read_qtop_sector-854"><a href="#read_qtop_sector-854"><span class="linenos">854</span></a>    <span class="k">return</span> <span class="n">qtop_projection</span><span class="p">(</span><span class="n">qtop</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="n">target</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Constructs reweighting factors to a specified topological sector.</p>
 
diff --git a/docs/pyerrors/input/sfcf.html b/docs/pyerrors/input/sfcf.html
index 58ccddcb..9ef9d4d1 100644
--- a/docs/pyerrors/input/sfcf.html
+++ b/docs/pyerrors/input/sfcf.html
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     <title>pyerrors.input.sfcf API documentation</title>
 
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@@ -67,744 +67,733 @@
 <a href="./../../pyerrors.html">pyerrors</a><wbr>.<a href="./../input.html">input</a><wbr>.sfcf    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">  0</span></a><span class="kn">import</span> <span class="nn">os</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">fnmatch</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">re</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>  <span class="c1"># Thinly-wrapped numpy</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">utils</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a>
+                        <input id="sfcf-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="sfcf-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">os</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">fnmatch</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">import</span> <span class="nn">re</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>  <span class="c1"># Thinly-wrapped numpy</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="kn">from</span> <span class="nn">.</span> <span class="kn">import</span> <span class="n">utils</span>
 </span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="k">def</span> <span class="nf">read_sfcf</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">quarks</span><span class="o">=</span><span class="s1">&#39;.*&#39;</span><span class="p">,</span> <span class="n">corr_type</span><span class="o">=</span><span class="s1">&#39;bi&#39;</span><span class="p">,</span> <span class="n">noffset</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">wf</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">wf2</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;1.0c&quot;</span><span class="p">,</span> <span class="n">cfg_separator</span><span class="o">=</span><span class="s2">&quot;n&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a>    <span class="sd">&quot;&quot;&quot;Read sfcf c format from given folder structure.</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a>
-</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="sd">    Parameters</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd">    ----------</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd">    quarks: str</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">        Label of the quarks used in the sfcf input file. e.g. &quot;quark quark&quot;</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">        for version 0.0 this does NOT need to be given with the typical &quot; - &quot;</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">        that is present in the output file,</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">        this is done automatically for this version</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd">    noffset: int</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd">        Offset of the source (only relevant when wavefunctions are used)</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">    wf: int</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">        ID of wave function</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd">    wf2: int</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd">        ID of the second wavefunction</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd">        (only relevant for boundary-to-boundary correlation functions)</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd">    im: bool</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a><span class="sd">        if True, read imaginary instead of real part</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a><span class="sd">        of the correlation function.</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd">    corr_type : str</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd">        change between bi (boundary - inner) (default) bib (boundary - inner - boundary) and bb (boundary - boundary)</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd">        correlator types</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a><span class="sd">    names : list</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a><span class="sd">        Alternative labeling for replicas/ensembles.</span>
-</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a><span class="sd">        Has to have the appropriate length</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a><span class="sd">    ens_name : str</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a><span class="sd">        replaces the name of the ensemble</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a><span class="sd">    version: str</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a><span class="sd">        version of SFCF, with which the measurement was done.</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a><span class="sd">        if the compact output option (-c) was specified,</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a><span class="sd">        append a &quot;c&quot; to the version (e.g. &quot;1.0c&quot;)</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a><span class="sd">        if the append output option (-a) was specified,</span>
-</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a><span class="sd">        append an &quot;a&quot; to the version</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a><span class="sd">    cfg_separator : str</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a><span class="sd">        String that separates the ensemble identifier from the configuration number (default &#39;n&#39;).</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a><span class="sd">    replica: list</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a><span class="sd">        list of replica to be read, default is all</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a><span class="sd">    files: list</span>
-</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a><span class="sd">        list of files to be read per replica, default is all.</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a><span class="sd">        for non-compact output format, hand the folders to be read here.</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a><span class="sd">    check_configs:</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a><span class="sd">        list of list of supposed configs, eg. [range(1,1000)]</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a><span class="sd">        for one replicum with 1000 configs</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;im&#39;</span><span class="p">):</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>        <span class="n">im</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>        <span class="n">part</span> <span class="o">=</span> <span class="s1">&#39;imaginary&#39;</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>        <span class="n">im</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>        <span class="n">part</span> <span class="o">=</span> <span class="s1">&#39;real&#39;</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>    <span class="k">if</span> <span class="s2">&quot;replica&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>        <span class="n">reps</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;replica&quot;</span><span class="p">)</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>    <span class="k">if</span> <span class="n">corr_type</span> <span class="o">==</span> <span class="s1">&#39;bb&#39;</span><span class="p">:</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>        <span class="n">b2b</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>        <span class="n">single</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>    <span class="k">elif</span> <span class="n">corr_type</span> <span class="o">==</span> <span class="s1">&#39;bib&#39;</span><span class="p">:</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>        <span class="n">b2b</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>        <span class="n">single</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>        <span class="n">b2b</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>        <span class="n">single</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>    <span class="n">compact</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>    <span class="n">appended</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>    <span class="n">known_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;0.0&quot;</span><span class="p">,</span> <span class="s2">&quot;1.0&quot;</span><span class="p">,</span> <span class="s2">&quot;2.0&quot;</span><span class="p">,</span> <span class="s2">&quot;1.0c&quot;</span><span class="p">,</span> <span class="s2">&quot;2.0c&quot;</span><span class="p">,</span> <span class="s2">&quot;1.0a&quot;</span><span class="p">,</span> <span class="s2">&quot;2.0a&quot;</span><span class="p">]</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>
-</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">known_versions</span><span class="p">:</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;This version is not known!&quot;</span><span class="p">)</span>
-</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>    <span class="k">if</span><span class="p">(</span><span class="n">version</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;c&quot;</span><span class="p">):</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>        <span class="n">appended</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>        <span class="n">compact</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>        <span class="n">version</span> <span class="o">=</span> <span class="n">version</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>    <span class="k">elif</span><span class="p">(</span><span class="n">version</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;a&quot;</span><span class="p">):</span>
-</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>        <span class="n">appended</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>        <span class="n">compact</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>        <span class="n">version</span> <span class="o">=</span> <span class="n">version</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>        <span class="n">compact</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>        <span class="n">appended</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>    <span class="n">T</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>    <span class="n">start</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>    <span class="k">if</span> <span class="s2">&quot;replica&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>        <span class="n">ls</span> <span class="o">=</span> <span class="n">reps</span>
-</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
-</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>                <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">dirnames</span><span class="p">)</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>                <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
-</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>            <span class="k">break</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>        <span class="c1"># Exclude folders with different names</span>
-</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>        <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*&#39;</span><span class="p">):</span>
-</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>                <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>
-</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
-</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>            <span class="c1"># New version, to cope with ids, etc.</span>
-</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
-</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>        <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>        <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">([</span><span class="n">file</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">file</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">])</span> <span class="o">//</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">file</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">file</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">]))</span>
-</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Read&#39;</span><span class="p">,</span> <span class="n">part</span><span class="p">,</span> <span class="s1">&#39;part of&#39;</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span>
-</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>          <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">)</span>
-</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>    <span class="k">if</span> <span class="s1">&#39;names&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>        <span class="n">new_names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;names&#39;</span><span class="p">)</span>
-</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">new_names</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">new_names</span><span class="p">)):</span>
-</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;names are not unique!&quot;</span><span class="p">)</span>
-</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">new_names</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Names does not have the required length&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">)</span>
-</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>        <span class="n">new_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
-</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>            <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>                    <span class="n">idx</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
-</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
-</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>
-</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>                <span class="k">if</span> <span class="s1">&#39;ens_name&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;ens_name&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>
-</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>            <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">):</span>
-</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>                    <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>            <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>                <span class="n">myentry</span> <span class="o">=</span> <span class="n">entry</span><span class="p">[:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">name</span><span class="p">)</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
-</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>                    <span class="n">idx</span> <span class="o">=</span> <span class="n">myentry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
-</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
-</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>
-</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>                <span class="k">if</span> <span class="s1">&#39;ens_name&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;ens_name&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">myentry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">myentry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">myentry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
-</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">ls</span><span class="p">):</span>
-</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>            <span class="n">sub_ls</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>            <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>                <span class="n">sub_ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
-</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>                <span class="n">sub_ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>                <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span><span class="p">):</span>
-</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a>                    <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
-</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>                        <span class="n">sub_ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
-</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>                        <span class="n">sub_ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">dirnames</span><span class="p">)</span>
-</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>                    <span class="k">break</span>
-</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>                <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
-</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>                    <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">sub_ls</span><span class="p">:</span>
-</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>                        <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*&#39;</span><span class="p">):</span>
-</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>                            <span class="n">sub_ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>                    <span class="n">sub_ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>                    <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">sub_ls</span><span class="p">:</span>
-</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>                        <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="s1">&#39;cfg*&#39;</span><span class="p">):</span>
-</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>                            <span class="n">sub_ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>                    <span class="n">sub_ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">:]))</span>
-</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>            <span class="n">rep_idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>            <span class="n">no_cfg</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">)</span>
-</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>            <span class="k">for</span> <span class="n">cfg</span> <span class="ow">in</span> <span class="n">sub_ls</span><span class="p">:</span>
-</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>                    <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
-</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>                        <span class="n">rep_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">cfg</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">cfg_separator</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>                        <span class="n">rep_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">cfg</span><span class="p">[</span><span class="mi">3</span><span class="p">:]))</span>
-</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Couldn&#39;t parse idl from directroy, problem with file &quot;</span> <span class="o">+</span> <span class="n">cfg</span><span class="p">)</span>
-</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>            <span class="n">rep_idl</span><span class="o">.</span><span class="n">sort</span><span class="p">()</span>
-</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>            <span class="c1"># maybe there is a better way to print the idls</span>
-</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>            <span class="nb">print</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="s1">&#39;:&#39;</span><span class="p">,</span> <span class="n">no_cfg</span><span class="p">,</span> <span class="s1">&#39; configurations&#39;</span><span class="p">)</span>
-</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rep_idl</span><span class="p">)</span>
-</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>            <span class="c1"># here we have found all the files we need to look into.</span>
-</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a>            <span class="k">if</span> <span class="n">i</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a>                <span class="c1"># here, we want to find the place within the file,</span>
-</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a>                <span class="c1"># where the correlator we need is stored.</span>
-</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>                <span class="c1"># to do so, the pattern needed is put together</span>
-</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>                <span class="c1"># from the input values</span>
-</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a>                <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;0.0&quot;</span><span class="p">:</span>
-</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a>                    <span class="n">pattern</span> <span class="o">=</span> <span class="s2">&quot;# &quot;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s2">&quot; : offset &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noffset</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;, wf &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf</span><span class="p">)</span>
-</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a>                    <span class="c1"># if b2b, a second wf is needed</span>
-</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>                    <span class="k">if</span> <span class="n">b2b</span><span class="p">:</span>
-</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>                        <span class="n">pattern</span> <span class="o">+=</span> <span class="s2">&quot;, wf_2 &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf2</span><span class="p">)</span>
-</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>                    <span class="n">qs</span> <span class="o">=</span> <span class="n">quarks</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot; &quot;</span><span class="p">)</span>
-</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>                    <span class="n">pattern</span> <span class="o">+=</span> <span class="s2">&quot; : &quot;</span> <span class="o">+</span> <span class="n">qs</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s2">&quot; - &quot;</span> <span class="o">+</span> <span class="n">qs</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>                    <span class="n">file</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>                    <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">file</span><span class="p">):</span>
-</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>                        <span class="k">if</span> <span class="n">read</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">line</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&gt;</span> <span class="n">start</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>                            <span class="k">break</span>
-</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>                        <span class="k">if</span> <span class="n">read</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&gt;=</span> <span class="n">start</span><span class="p">:</span>
-</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>                            <span class="n">T</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>                        <span class="k">if</span> <span class="n">pattern</span> <span class="ow">in</span> <span class="n">line</span><span class="p">:</span>
-</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>                            <span class="n">read</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>                            <span class="n">start</span> <span class="o">=</span> <span class="n">k</span> <span class="o">+</span> <span class="mi">1</span>
-</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">T</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot; entries found.&quot;</span><span class="p">)</span>
-</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>                    <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>                    <span class="n">pattern</span> <span class="o">=</span> <span class="s1">&#39;name      &#39;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">quarks    &#39;</span> <span class="o">+</span> <span class="n">quarks</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">offset    &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noffset</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf        &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf</span><span class="p">)</span>
-</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>                    <span class="k">if</span> <span class="n">b2b</span><span class="p">:</span>
-</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>                        <span class="n">pattern</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf_2      &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf2</span><span class="p">)</span>
-</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>                    <span class="c1"># and the file is parsed through to find the pattern</span>
-</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>                    <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
-</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>                        <span class="n">file</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>                        <span class="c1"># for non-compactified versions of the files</span>
-</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>                        <span class="n">file</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>
-</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>                    <span class="n">content</span> <span class="o">=</span> <span class="n">file</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
-</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>                    <span class="n">match</span> <span class="o">=</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="n">pattern</span><span class="p">,</span> <span class="n">content</span><span class="p">)</span>
-</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>                    <span class="k">if</span> <span class="n">match</span><span class="p">:</span>
-</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>                        <span class="n">start_read</span> <span class="o">=</span> <span class="n">content</span><span class="o">.</span><span class="n">count</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">match</span><span class="o">.</span><span class="n">start</span><span class="p">())</span> <span class="o">+</span> <span class="mi">5</span> <span class="o">+</span> <span class="n">b2b</span>
-</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>                        <span class="n">end_match</span> <span class="o">=</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\n\s*\n&#39;</span><span class="p">,</span> <span class="n">content</span><span class="p">[</span><span class="n">match</span><span class="o">.</span><span class="n">start</span><span class="p">():])</span>
-</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>                        <span class="n">T</span> <span class="o">=</span> <span class="n">content</span><span class="p">[</span><span class="n">match</span><span class="o">.</span><span class="n">start</span><span class="p">():]</span><span class="o">.</span><span class="n">count</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">end_match</span><span class="o">.</span><span class="n">start</span><span class="p">())</span> <span class="o">-</span> <span class="mi">4</span> <span class="o">-</span> <span class="n">b2b</span>
-</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>                        <span class="k">assert</span> <span class="n">T</span> <span class="o">&gt;</span> <span class="mi">0</span>
-</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="n">T</span><span class="p">,</span> <span class="s1">&#39;entries, starting to read in line&#39;</span><span class="p">,</span> <span class="n">start_read</span><span class="p">)</span>
-</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>                        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a>                        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Correlator with pattern</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">pattern</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">not found.&#39;</span><span class="p">)</span>
-</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a>
-</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a>                <span class="c1"># we found where the correlator</span>
-</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a>                <span class="c1"># that is to be read is in the files</span>
-</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a>                <span class="c1"># after preparing the datastructure</span>
-</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a>                <span class="c1"># the correlators get parsed into...</span>
-</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a>                <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a>                    <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a>
-</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>                <span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">no_cfg</span><span class="p">))</span>
-</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>            <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
-</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>                <span class="k">for</span> <span class="n">cfg</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_cfg</span><span class="p">):</span>
-</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>                    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="n">cfg</span><span class="p">])</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>                        <span class="n">lines</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">readlines</span><span class="p">()</span>
-</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>                        <span class="c1"># check, if the correlator is in fact</span>
-</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>                        <span class="c1"># printed completely</span>
-</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>                        <span class="k">if</span><span class="p">(</span><span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span> <span class="o">&gt;</span> <span class="nb">len</span><span class="p">(</span><span class="n">lines</span><span class="p">)):</span>
-</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>                            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;EOF before end of correlator data! Maybe &quot;</span> <span class="o">+</span> <span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="n">cfg</span><span class="p">]</span> <span class="o">+</span> <span class="s2">&quot; is corrupted?&quot;</span><span class="p">)</span>
-</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>                        <span class="c1"># and start to read the correlator.</span>
-</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>                        <span class="c1"># the range here is chosen like this,</span>
-</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>                        <span class="c1"># since this allows for implementing</span>
-</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>                        <span class="c1"># a security check for every read correlator later...</span>
-</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>                        <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">start_read</span> <span class="o">-</span> <span class="mi">6</span><span class="p">,</span> <span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">):</span>
-</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>                            <span class="k">if</span> <span class="n">k</span> <span class="o">==</span> <span class="n">start_read</span> <span class="o">-</span> <span class="mi">5</span> <span class="o">-</span> <span class="n">b2b</span><span class="p">:</span>
-</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>                                <span class="k">if</span> <span class="n">lines</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span> <span class="o">!=</span> <span class="s1">&#39;name      &#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">:</span>
-</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>                                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Wrong format&#39;</span><span class="p">,</span> <span class="n">sub_ls</span><span class="p">[</span><span class="n">cfg</span><span class="p">])</span>
-</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>                            <span class="k">if</span><span class="p">(</span><span class="n">k</span> <span class="o">&gt;=</span> <span class="n">start_read</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&lt;</span> <span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">):</span>
-</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>                                <span class="n">floats</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="n">lines</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">split</span><span class="p">()))</span>
-</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>                                <span class="n">deltas</span><span class="p">[</span><span class="n">k</span> <span class="o">-</span> <span class="n">start_read</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">cfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">:][</span><span class="n">im</span><span class="p">]</span>
-</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>                <span class="k">for</span> <span class="n">cnfg</span><span class="p">,</span> <span class="n">subitem</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">):</span>
-</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>                    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">subitem</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>                        <span class="c1"># since the non-compatified files</span>
-</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>                        <span class="c1"># are typically not so long,</span>
-</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>                        <span class="c1"># we can iterate over the whole file.</span>
-</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>                        <span class="c1"># here one can also implement the chekc from above.</span>
-</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>                        <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">fp</span><span class="p">):</span>
-</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>                            <span class="k">if</span><span class="p">(</span><span class="n">k</span> <span class="o">&gt;=</span> <span class="n">start_read</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&lt;</span> <span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">):</span>
-</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>                                <span class="n">floats</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">()))</span>
-</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>                                <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;0.0&quot;</span><span class="p">:</span>
-</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a>                                    <span class="n">deltas</span><span class="p">[</span><span class="n">k</span> <span class="o">-</span> <span class="n">start</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">cnfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="n">im</span> <span class="o">-</span> <span class="n">single</span><span class="p">]</span>
-</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>                                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>                                    <span class="n">deltas</span><span class="p">[</span><span class="n">k</span> <span class="o">-</span> <span class="n">start_read</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">cnfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="mi">1</span> <span class="o">+</span> <span class="n">im</span> <span class="o">-</span> <span class="n">single</span><span class="p">]</span>
-</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>
-</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a>        <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>            <span class="n">ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
-</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>            <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">):</span>
-</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>                    <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a>                <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a>        <span class="n">pattern</span> <span class="o">=</span> <span class="s1">&#39;name      &#39;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">quarks    &#39;</span> <span class="o">+</span> <span class="n">quarks</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">offset    &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noffset</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf        &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf</span><span class="p">)</span>
-</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>        <span class="k">if</span> <span class="n">b2b</span><span class="p">:</span>
-</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>            <span class="n">pattern</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf_2      &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf2</span><span class="p">)</span>
-</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a>        <span class="k">for</span> <span class="n">rep</span><span class="p">,</span> <span class="n">file</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">ls</span><span class="p">):</span>
-</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a>            <span class="n">rep_idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a>            <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a>                <span class="n">content</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">readlines</span><span class="p">()</span>
-</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a>                <span class="n">data_starts</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a>                <span class="k">for</span> <span class="n">linenumber</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">content</span><span class="p">):</span>
-</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a>                    <span class="k">if</span> <span class="s2">&quot;[run]&quot;</span> <span class="ow">in</span> <span class="n">line</span><span class="p">:</span>
-</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a>                        <span class="n">data_starts</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">linenumber</span><span class="p">)</span>
-</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">data_starts</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">-</span> <span class="n">data_starts</span><span class="p">[</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_starts</span><span class="p">))]))</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Irregularities in file structure found, not all runs have the same output length&quot;</span><span class="p">)</span>
-</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a>                <span class="n">chunk</span> <span class="o">=</span> <span class="n">content</span><span class="p">[:</span><span class="n">data_starts</span><span class="p">[</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a>                <span class="k">for</span> <span class="n">linenumber</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">chunk</span><span class="p">):</span>
-</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a>                    <span class="k">if</span> <span class="n">line</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s2">&quot;gauge_name&quot;</span><span class="p">):</span>
-</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a>                        <span class="n">gauge_line</span> <span class="o">=</span> <span class="n">linenumber</span>
-</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a>                    <span class="k">elif</span> <span class="n">line</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s2">&quot;[correlator]&quot;</span><span class="p">):</span>
-</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a>                        <span class="n">corr_line</span> <span class="o">=</span> <span class="n">linenumber</span>
-</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>                        <span class="n">found_pat</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
-</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>                        <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">chunk</span><span class="p">[</span><span class="n">corr_line</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span> <span class="n">corr_line</span> <span class="o">+</span> <span class="mi">6</span> <span class="o">+</span> <span class="n">b2b</span><span class="p">]:</span>
-</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>                            <span class="n">found_pat</span> <span class="o">+=</span> <span class="n">li</span>
-</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>                        <span class="k">if</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="n">pattern</span><span class="p">,</span> <span class="n">found_pat</span><span class="p">):</span>
-</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>                            <span class="n">start_read</span> <span class="o">=</span> <span class="n">corr_line</span> <span class="o">+</span> <span class="mi">7</span> <span class="o">+</span> <span class="n">b2b</span>
-</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a>                            <span class="k">break</span>
-</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a>                <span class="n">endline</span> <span class="o">=</span> <span class="n">corr_line</span> <span class="o">+</span> <span class="mi">6</span> <span class="o">+</span> <span class="n">b2b</span>
-</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a>                <span class="k">while</span> <span class="ow">not</span> <span class="n">chunk</span><span class="p">[</span><span class="n">endline</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;</span><span class="se">\n</span><span class="s2">&quot;</span><span class="p">:</span>
-</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>                    <span class="n">endline</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>                <span class="n">T</span> <span class="o">=</span> <span class="n">endline</span> <span class="o">-</span> <span class="n">start_read</span>
-</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>                <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>                    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>                    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>                        <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>                <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>                    <span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">data_starts</span><span class="p">)))</span>
-</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>                <span class="c1"># all other chunks should follow the same structure</span>
-</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>                <span class="k">for</span> <span class="n">cnfg</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">data_starts</span><span class="p">)):</span>
-</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>                    <span class="n">start</span> <span class="o">=</span> <span class="n">data_starts</span><span class="p">[</span><span class="n">cnfg</span><span class="p">]</span>
-</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>                    <span class="n">stop</span> <span class="o">=</span> <span class="n">start</span> <span class="o">+</span> <span class="n">data_starts</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>                    <span class="n">chunk</span> <span class="o">=</span> <span class="n">content</span><span class="p">[</span><span class="n">start</span><span class="p">:</span><span class="n">stop</span><span class="p">]</span>
-</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>                    <span class="k">try</span><span class="p">:</span>
-</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>                        <span class="n">rep_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">chunk</span><span class="p">[</span><span class="n">gauge_line</span><span class="p">]</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">cfg_separator</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>                    <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Couldn&#39;t parse idl from directory, problem with chunk around line &quot;</span><span class="p">,</span> <span class="n">gauge_line</span><span class="p">)</span>
-</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>
-</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>                    <span class="n">found_pat</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
-</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>                    <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">chunk</span><span class="p">[</span><span class="n">corr_line</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span><span class="n">corr_line</span> <span class="o">+</span> <span class="mi">6</span> <span class="o">+</span> <span class="n">b2b</span><span class="p">]:</span>
-</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>                        <span class="n">found_pat</span> <span class="o">+=</span> <span class="n">li</span>
-</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>                    <span class="k">if</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="n">pattern</span><span class="p">,</span> <span class="n">found_pat</span><span class="p">):</span>
-</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>                        <span class="k">for</span> <span class="n">t</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">chunk</span><span class="p">[</span><span class="n">start_read</span><span class="p">:</span><span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">]):</span>
-</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>                            <span class="n">floats</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">()))</span>
-</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>                            <span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">rep</span><span class="p">][</span><span class="n">cnfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="n">im</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">-</span> <span class="n">single</span><span class="p">]</span>
-</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rep_idl</span><span class="p">)</span>
-</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>
-</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>    <span class="k">if</span> <span class="s2">&quot;check_configs&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Checking for missing configs...&quot;</span><span class="p">)</span>
-</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>        <span class="n">che</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;check_configs&quot;</span><span class="p">)</span>
-</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">che</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)):</span>
-</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;check_configs has to be the same length as replica!&quot;</span><span class="p">)</span>
-</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>        <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)):</span>
-</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;checking &quot;</span> <span class="o">+</span> <span class="n">new_names</span><span class="p">[</span><span class="n">r</span><span class="p">])</span>
-</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>            <span class="n">utils</span><span class="o">.</span><span class="n">check_idl</span><span class="p">(</span><span class="n">idl</span><span class="p">[</span><span class="n">r</span><span class="p">],</span> <span class="n">che</span><span class="p">[</span><span class="n">r</span><span class="p">])</span>
-</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Done&quot;</span><span class="p">)</span>
-</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">new_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
-</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>    <span class="k">return</span> <span class="n">result</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="k">def</span> <span class="nf">read_sfcf</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">quarks</span><span class="o">=</span><span class="s1">&#39;.*&#39;</span><span class="p">,</span> <span class="n">corr_type</span><span class="o">=</span><span class="s1">&#39;bi&#39;</span><span class="p">,</span> <span class="n">noffset</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">wf</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">wf2</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;1.0c&quot;</span><span class="p">,</span> <span class="n">cfg_separator</span><span class="o">=</span><span class="s2">&quot;n&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a>    <span class="sd">&quot;&quot;&quot;Read sfcf c format from given folder structure.</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a>
+</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd">    Parameters</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd">    ----------</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">    quarks: str</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">        Label of the quarks used in the sfcf input file. e.g. &quot;quark quark&quot;</span>
+</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">        for version 0.0 this does NOT need to be given with the typical &quot; - &quot;</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">        that is present in the output file,</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd">        this is done automatically for this version</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd">    noffset: int</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd">        Offset of the source (only relevant when wavefunctions are used)</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd">    wf: int</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd">        ID of wave function</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd">    wf2: int</span>
+</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd">        ID of the second wavefunction</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd">        (only relevant for boundary-to-boundary correlation functions)</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a><span class="sd">    im: bool</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a><span class="sd">        if True, read imaginary instead of real part</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd">        of the correlation function.</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd">    corr_type : str</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd">        change between bi (boundary - inner) (default) bib (boundary - inner - boundary) and bb (boundary - boundary)</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a><span class="sd">        correlator types</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a><span class="sd">    names : list</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a><span class="sd">        Alternative labeling for replicas/ensembles.</span>
+</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a><span class="sd">        Has to have the appropriate length</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a><span class="sd">    ens_name : str</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a><span class="sd">        replaces the name of the ensemble</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a><span class="sd">    version: str</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a><span class="sd">        version of SFCF, with which the measurement was done.</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a><span class="sd">        if the compact output option (-c) was specified,</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a><span class="sd">        append a &quot;c&quot; to the version (e.g. &quot;1.0c&quot;)</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a><span class="sd">        if the append output option (-a) was specified,</span>
+</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a><span class="sd">        append an &quot;a&quot; to the version</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a><span class="sd">    cfg_separator : str</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a><span class="sd">        String that separates the ensemble identifier from the configuration number (default &#39;n&#39;).</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a><span class="sd">    replica: list</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a><span class="sd">        list of replica to be read, default is all</span>
+</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a><span class="sd">    files: list</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a><span class="sd">        list of files to be read per replica, default is all.</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a><span class="sd">        for non-compact output format, hand the folders to be read here.</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a><span class="sd">    check_configs:</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a><span class="sd">        list of list of supposed configs, eg. [range(1,1000)]</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a><span class="sd">        for one replicum with 1000 configs</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;im&#39;</span><span class="p">):</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>        <span class="n">im</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>        <span class="n">part</span> <span class="o">=</span> <span class="s1">&#39;imaginary&#39;</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>        <span class="n">im</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>        <span class="n">part</span> <span class="o">=</span> <span class="s1">&#39;real&#39;</span>
+</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>    <span class="k">if</span> <span class="s2">&quot;replica&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>        <span class="n">reps</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;replica&quot;</span><span class="p">)</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>    <span class="k">if</span> <span class="n">corr_type</span> <span class="o">==</span> <span class="s1">&#39;bb&#39;</span><span class="p">:</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>        <span class="n">b2b</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>        <span class="n">single</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>    <span class="k">elif</span> <span class="n">corr_type</span> <span class="o">==</span> <span class="s1">&#39;bib&#39;</span><span class="p">:</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>        <span class="n">b2b</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>        <span class="n">single</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>        <span class="n">b2b</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>        <span class="n">single</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>    <span class="n">compact</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>    <span class="n">appended</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>    <span class="n">known_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;0.0&quot;</span><span class="p">,</span> <span class="s2">&quot;1.0&quot;</span><span class="p">,</span> <span class="s2">&quot;2.0&quot;</span><span class="p">,</span> <span class="s2">&quot;1.0c&quot;</span><span class="p">,</span> <span class="s2">&quot;2.0c&quot;</span><span class="p">,</span> <span class="s2">&quot;1.0a&quot;</span><span class="p">,</span> <span class="s2">&quot;2.0a&quot;</span><span class="p">]</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>
+</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">known_versions</span><span class="p">:</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;This version is not known!&quot;</span><span class="p">)</span>
+</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>    <span class="k">if</span><span class="p">(</span><span class="n">version</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;c&quot;</span><span class="p">):</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>        <span class="n">appended</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>        <span class="n">compact</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>        <span class="n">version</span> <span class="o">=</span> <span class="n">version</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>    <span class="k">elif</span><span class="p">(</span><span class="n">version</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;a&quot;</span><span class="p">):</span>
+</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>        <span class="n">appended</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>        <span class="n">compact</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>        <span class="n">version</span> <span class="o">=</span> <span class="n">version</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>        <span class="n">compact</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>        <span class="n">appended</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>    <span class="n">T</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>    <span class="n">start</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>    <span class="k">if</span> <span class="s2">&quot;replica&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>        <span class="n">ls</span> <span class="o">=</span> <span class="n">reps</span>
+</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
+</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>                <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">dirnames</span><span class="p">)</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>                <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
+</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>            <span class="k">break</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>        <span class="c1"># Exclude folders with different names</span>
+</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>        <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*&#39;</span><span class="p">):</span>
+</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>                <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>
+</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
+</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>            <span class="c1"># New version, to cope with ids, etc.</span>
+</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
+</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>        <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>        <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">([</span><span class="n">file</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">file</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">])</span> <span class="o">//</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">file</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">file</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">]))</span>
+</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Read&#39;</span><span class="p">,</span> <span class="n">part</span><span class="p">,</span> <span class="s1">&#39;part of&#39;</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span>
+</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>          <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">)</span>
+</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>    <span class="k">if</span> <span class="s1">&#39;names&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>        <span class="n">new_names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;names&#39;</span><span class="p">)</span>
+</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">new_names</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">new_names</span><span class="p">)):</span>
+</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;names are not unique!&quot;</span><span class="p">)</span>
+</span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">new_names</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Names does not have the required length&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">)</span>
+</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>        <span class="n">new_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
+</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a>            <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a>                    <span class="n">idx</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
+</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
+</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a>
+</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a>                <span class="k">if</span> <span class="s1">&#39;ens_name&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;ens_name&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>
+</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>            <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">):</span>
+</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>                    <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>            <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>                <span class="n">myentry</span> <span class="o">=</span> <span class="n">entry</span><span class="p">[:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">name</span><span class="p">)</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
+</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a>                    <span class="n">idx</span> <span class="o">=</span> <span class="n">myentry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
+</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
+</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>
+</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>                <span class="k">if</span> <span class="s1">&#39;ens_name&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;ens_name&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">myentry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">myentry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">myentry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
+</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">ls</span><span class="p">):</span>
+</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>            <span class="n">sub_ls</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>            <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>                <span class="n">sub_ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
+</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>                <span class="n">sub_ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a>                <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span><span class="p">):</span>
+</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>                    <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
+</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>                        <span class="n">sub_ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
+</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>                        <span class="n">sub_ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">dirnames</span><span class="p">)</span>
+</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>                    <span class="k">break</span>
+</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>                <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
+</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>                    <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">sub_ls</span><span class="p">:</span>
+</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>                        <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*&#39;</span><span class="p">):</span>
+</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>                            <span class="n">sub_ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>                    <span class="n">sub_ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>                    <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">sub_ls</span><span class="p">:</span>
+</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>                        <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="s1">&#39;cfg*&#39;</span><span class="p">):</span>
+</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>                            <span class="n">sub_ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>                    <span class="n">sub_ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">:]))</span>
+</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>            <span class="n">rep_idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>            <span class="n">no_cfg</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">)</span>
+</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>            <span class="k">for</span> <span class="n">cfg</span> <span class="ow">in</span> <span class="n">sub_ls</span><span class="p">:</span>
+</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>                    <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
+</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>                        <span class="n">rep_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">cfg</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">cfg_separator</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>                        <span class="n">rep_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">cfg</span><span class="p">[</span><span class="mi">3</span><span class="p">:]))</span>
+</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Couldn&#39;t parse idl from directroy, problem with file &quot;</span> <span class="o">+</span> <span class="n">cfg</span><span class="p">)</span>
+</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>            <span class="n">rep_idl</span><span class="o">.</span><span class="n">sort</span><span class="p">()</span>
+</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>            <span class="c1"># maybe there is a better way to print the idls</span>
+</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>            <span class="nb">print</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="s1">&#39;:&#39;</span><span class="p">,</span> <span class="n">no_cfg</span><span class="p">,</span> <span class="s1">&#39; configurations&#39;</span><span class="p">)</span>
+</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rep_idl</span><span class="p">)</span>
+</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a>            <span class="c1"># here we have found all the files we need to look into.</span>
+</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a>            <span class="k">if</span> <span class="n">i</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a>                <span class="c1"># here, we want to find the place within the file,</span>
+</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>                <span class="c1"># where the correlator we need is stored.</span>
+</span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>                <span class="c1"># to do so, the pattern needed is put together</span>
+</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a>                <span class="c1"># from the input values</span>
+</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a>                <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;0.0&quot;</span><span class="p">:</span>
+</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a>                    <span class="n">pattern</span> <span class="o">=</span> <span class="s2">&quot;# &quot;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s2">&quot; : offset &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noffset</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;, wf &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf</span><span class="p">)</span>
+</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>                    <span class="c1"># if b2b, a second wf is needed</span>
+</span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>                    <span class="k">if</span> <span class="n">b2b</span><span class="p">:</span>
+</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>                        <span class="n">pattern</span> <span class="o">+=</span> <span class="s2">&quot;, wf_2 &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf2</span><span class="p">)</span>
+</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>                    <span class="n">qs</span> <span class="o">=</span> <span class="n">quarks</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot; &quot;</span><span class="p">)</span>
+</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>                    <span class="n">pattern</span> <span class="o">+=</span> <span class="s2">&quot; : &quot;</span> <span class="o">+</span> <span class="n">qs</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s2">&quot; - &quot;</span> <span class="o">+</span> <span class="n">qs</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>                    <span class="n">file</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>                    <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">file</span><span class="p">):</span>
+</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>                        <span class="k">if</span> <span class="n">read</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">line</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&gt;</span> <span class="n">start</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>                            <span class="k">break</span>
+</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>                        <span class="k">if</span> <span class="n">read</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&gt;=</span> <span class="n">start</span><span class="p">:</span>
+</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>                            <span class="n">T</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>                        <span class="k">if</span> <span class="n">pattern</span> <span class="ow">in</span> <span class="n">line</span><span class="p">:</span>
+</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>                            <span class="n">read</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>                            <span class="n">start</span> <span class="o">=</span> <span class="n">k</span> <span class="o">+</span> <span class="mi">1</span>
+</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">T</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot; entries found.&quot;</span><span class="p">)</span>
+</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>                    <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>                    <span class="n">pattern</span> <span class="o">=</span> <span class="s1">&#39;name      &#39;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">quarks    &#39;</span> <span class="o">+</span> <span class="n">quarks</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">offset    &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noffset</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf        &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf</span><span class="p">)</span>
+</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>                    <span class="k">if</span> <span class="n">b2b</span><span class="p">:</span>
+</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>                        <span class="n">pattern</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf_2      &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf2</span><span class="p">)</span>
+</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>                    <span class="c1"># and the file is parsed through to find the pattern</span>
+</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>                    <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
+</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>                        <span class="n">file</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>                        <span class="c1"># for non-compactified versions of the files</span>
+</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>                        <span class="n">file</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>
+</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>                    <span class="n">content</span> <span class="o">=</span> <span class="n">file</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
+</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>                    <span class="n">match</span> <span class="o">=</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="n">pattern</span><span class="p">,</span> <span class="n">content</span><span class="p">)</span>
+</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>                    <span class="k">if</span> <span class="n">match</span><span class="p">:</span>
+</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>                        <span class="n">start_read</span> <span class="o">=</span> <span class="n">content</span><span class="o">.</span><span class="n">count</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">match</span><span class="o">.</span><span class="n">start</span><span class="p">())</span> <span class="o">+</span> <span class="mi">5</span> <span class="o">+</span> <span class="n">b2b</span>
+</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>                        <span class="n">end_match</span> <span class="o">=</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\n\s*\n&#39;</span><span class="p">,</span> <span class="n">content</span><span class="p">[</span><span class="n">match</span><span class="o">.</span><span class="n">start</span><span class="p">():])</span>
+</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>                        <span class="n">T</span> <span class="o">=</span> <span class="n">content</span><span class="p">[</span><span class="n">match</span><span class="o">.</span><span class="n">start</span><span class="p">():]</span><span class="o">.</span><span class="n">count</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">end_match</span><span class="o">.</span><span class="n">start</span><span class="p">())</span> <span class="o">-</span> <span class="mi">4</span> <span class="o">-</span> <span class="n">b2b</span>
+</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>                        <span class="k">assert</span> <span class="n">T</span> <span class="o">&gt;</span> <span class="mi">0</span>
+</span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="n">T</span><span class="p">,</span> <span class="s1">&#39;entries, starting to read in line&#39;</span><span class="p">,</span> <span class="n">start_read</span><span class="p">)</span>
+</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a>                        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a>                        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Correlator with pattern</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">pattern</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">not found.&#39;</span><span class="p">)</span>
+</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a>
+</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a>                <span class="c1"># we found where the correlator</span>
+</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a>                <span class="c1"># that is to be read is in the files</span>
+</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a>                <span class="c1"># after preparing the datastructure</span>
+</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a>                <span class="c1"># the correlators get parsed into...</span>
+</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a>                <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a>                    <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a>
+</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>                <span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">no_cfg</span><span class="p">))</span>
+</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>            <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
+</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>                <span class="k">for</span> <span class="n">cfg</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_cfg</span><span class="p">):</span>
+</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>                    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="n">cfg</span><span class="p">])</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>                        <span class="n">lines</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">readlines</span><span class="p">()</span>
+</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>                        <span class="c1"># check, if the correlator is in fact</span>
+</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>                        <span class="c1"># printed completely</span>
+</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>                        <span class="k">if</span><span class="p">(</span><span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span> <span class="o">&gt;</span> <span class="nb">len</span><span class="p">(</span><span class="n">lines</span><span class="p">)):</span>
+</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>                            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;EOF before end of correlator data! Maybe &quot;</span> <span class="o">+</span> <span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="n">cfg</span><span class="p">]</span> <span class="o">+</span> <span class="s2">&quot; is corrupted?&quot;</span><span class="p">)</span>
+</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>                        <span class="c1"># and start to read the correlator.</span>
+</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>                        <span class="c1"># the range here is chosen like this,</span>
+</span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>                        <span class="c1"># since this allows for implementing</span>
+</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>                        <span class="c1"># a security check for every read correlator later...</span>
+</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>                        <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">start_read</span> <span class="o">-</span> <span class="mi">6</span><span class="p">,</span> <span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">):</span>
+</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>                            <span class="k">if</span> <span class="n">k</span> <span class="o">==</span> <span class="n">start_read</span> <span class="o">-</span> <span class="mi">5</span> <span class="o">-</span> <span class="n">b2b</span><span class="p">:</span>
+</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>                                <span class="k">if</span> <span class="n">lines</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span> <span class="o">!=</span> <span class="s1">&#39;name      &#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">:</span>
+</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>                                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Wrong format&#39;</span><span class="p">,</span> <span class="n">sub_ls</span><span class="p">[</span><span class="n">cfg</span><span class="p">])</span>
+</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>                            <span class="k">if</span><span class="p">(</span><span class="n">k</span> <span class="o">&gt;=</span> <span class="n">start_read</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&lt;</span> <span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">):</span>
+</span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>                                <span class="n">floats</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="n">lines</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">split</span><span class="p">()))</span>
+</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>                                <span class="n">deltas</span><span class="p">[</span><span class="n">k</span> <span class="o">-</span> <span class="n">start_read</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">cfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">:][</span><span class="n">im</span><span class="p">]</span>
+</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>                <span class="k">for</span> <span class="n">cnfg</span><span class="p">,</span> <span class="n">subitem</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">):</span>
+</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>                    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">subitem</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>                        <span class="c1"># since the non-compatified files</span>
+</span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>                        <span class="c1"># are typically not so long,</span>
+</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>                        <span class="c1"># we can iterate over the whole file.</span>
+</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>                        <span class="c1"># here one can also implement the chekc from above.</span>
+</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>                        <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">fp</span><span class="p">):</span>
+</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>                            <span class="k">if</span><span class="p">(</span><span class="n">k</span> <span class="o">&gt;=</span> <span class="n">start_read</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&lt;</span> <span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">):</span>
+</span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>                                <span class="n">floats</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">()))</span>
+</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a>                                <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;0.0&quot;</span><span class="p">:</span>
+</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>                                    <span class="n">deltas</span><span class="p">[</span><span class="n">k</span> <span class="o">-</span> <span class="n">start</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">cnfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="n">im</span> <span class="o">-</span> <span class="n">single</span><span class="p">]</span>
+</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>                                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>                                    <span class="n">deltas</span><span class="p">[</span><span class="n">k</span> <span class="o">-</span> <span class="n">start_read</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">cnfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="mi">1</span> <span class="o">+</span> <span class="n">im</span> <span class="o">-</span> <span class="n">single</span><span class="p">]</span>
+</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>
+</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>        <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-285"><a href="#L-285"><span class="linenos">285</span></a>            <span class="n">ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
+</span><span id="L-286"><a href="#L-286"><span class="linenos">286</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-287"><a href="#L-287"><span class="linenos">287</span></a>            <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="L-288"><a href="#L-288"><span class="linenos">288</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">):</span>
+</span><span id="L-289"><a href="#L-289"><span class="linenos">289</span></a>                    <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="L-290"><a href="#L-290"><span class="linenos">290</span></a>                <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-291"><a href="#L-291"><span class="linenos">291</span></a>        <span class="n">pattern</span> <span class="o">=</span> <span class="s1">&#39;name      &#39;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">quarks    &#39;</span> <span class="o">+</span> <span class="n">quarks</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">offset    &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noffset</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf        &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf</span><span class="p">)</span>
+</span><span id="L-292"><a href="#L-292"><span class="linenos">292</span></a>        <span class="k">if</span> <span class="n">b2b</span><span class="p">:</span>
+</span><span id="L-293"><a href="#L-293"><span class="linenos">293</span></a>            <span class="n">pattern</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf_2      &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf2</span><span class="p">)</span>
+</span><span id="L-294"><a href="#L-294"><span class="linenos">294</span></a>        <span class="k">for</span> <span class="n">rep</span><span class="p">,</span> <span class="n">file</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">ls</span><span class="p">):</span>
+</span><span id="L-295"><a href="#L-295"><span class="linenos">295</span></a>            <span class="n">rep_idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-296"><a href="#L-296"><span class="linenos">296</span></a>            <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="L-297"><a href="#L-297"><span class="linenos">297</span></a>                <span class="n">content</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">readlines</span><span class="p">()</span>
+</span><span id="L-298"><a href="#L-298"><span class="linenos">298</span></a>                <span class="n">data_starts</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-299"><a href="#L-299"><span class="linenos">299</span></a>                <span class="k">for</span> <span class="n">linenumber</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">content</span><span class="p">):</span>
+</span><span id="L-300"><a href="#L-300"><span class="linenos">300</span></a>                    <span class="k">if</span> <span class="s2">&quot;[run]&quot;</span> <span class="ow">in</span> <span class="n">line</span><span class="p">:</span>
+</span><span id="L-301"><a href="#L-301"><span class="linenos">301</span></a>                        <span class="n">data_starts</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">linenumber</span><span class="p">)</span>
+</span><span id="L-302"><a href="#L-302"><span class="linenos">302</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">data_starts</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">-</span> <span class="n">data_starts</span><span class="p">[</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_starts</span><span class="p">))]))</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-303"><a href="#L-303"><span class="linenos">303</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Irregularities in file structure found, not all runs have the same output length&quot;</span><span class="p">)</span>
+</span><span id="L-304"><a href="#L-304"><span class="linenos">304</span></a>                <span class="n">chunk</span> <span class="o">=</span> <span class="n">content</span><span class="p">[:</span><span class="n">data_starts</span><span class="p">[</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="L-305"><a href="#L-305"><span class="linenos">305</span></a>                <span class="k">for</span> <span class="n">linenumber</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">chunk</span><span class="p">):</span>
+</span><span id="L-306"><a href="#L-306"><span class="linenos">306</span></a>                    <span class="k">if</span> <span class="n">line</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s2">&quot;gauge_name&quot;</span><span class="p">):</span>
+</span><span id="L-307"><a href="#L-307"><span class="linenos">307</span></a>                        <span class="n">gauge_line</span> <span class="o">=</span> <span class="n">linenumber</span>
+</span><span id="L-308"><a href="#L-308"><span class="linenos">308</span></a>                    <span class="k">elif</span> <span class="n">line</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s2">&quot;[correlator]&quot;</span><span class="p">):</span>
+</span><span id="L-309"><a href="#L-309"><span class="linenos">309</span></a>                        <span class="n">corr_line</span> <span class="o">=</span> <span class="n">linenumber</span>
+</span><span id="L-310"><a href="#L-310"><span class="linenos">310</span></a>                        <span class="n">found_pat</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
+</span><span id="L-311"><a href="#L-311"><span class="linenos">311</span></a>                        <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">chunk</span><span class="p">[</span><span class="n">corr_line</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span> <span class="n">corr_line</span> <span class="o">+</span> <span class="mi">6</span> <span class="o">+</span> <span class="n">b2b</span><span class="p">]:</span>
+</span><span id="L-312"><a href="#L-312"><span class="linenos">312</span></a>                            <span class="n">found_pat</span> <span class="o">+=</span> <span class="n">li</span>
+</span><span id="L-313"><a href="#L-313"><span class="linenos">313</span></a>                        <span class="k">if</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="n">pattern</span><span class="p">,</span> <span class="n">found_pat</span><span class="p">):</span>
+</span><span id="L-314"><a href="#L-314"><span class="linenos">314</span></a>                            <span class="n">start_read</span> <span class="o">=</span> <span class="n">corr_line</span> <span class="o">+</span> <span class="mi">7</span> <span class="o">+</span> <span class="n">b2b</span>
+</span><span id="L-315"><a href="#L-315"><span class="linenos">315</span></a>                            <span class="k">break</span>
+</span><span id="L-316"><a href="#L-316"><span class="linenos">316</span></a>                <span class="n">endline</span> <span class="o">=</span> <span class="n">corr_line</span> <span class="o">+</span> <span class="mi">6</span> <span class="o">+</span> <span class="n">b2b</span>
+</span><span id="L-317"><a href="#L-317"><span class="linenos">317</span></a>                <span class="k">while</span> <span class="ow">not</span> <span class="n">chunk</span><span class="p">[</span><span class="n">endline</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;</span><span class="se">\n</span><span class="s2">&quot;</span><span class="p">:</span>
+</span><span id="L-318"><a href="#L-318"><span class="linenos">318</span></a>                    <span class="n">endline</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="L-319"><a href="#L-319"><span class="linenos">319</span></a>                <span class="n">T</span> <span class="o">=</span> <span class="n">endline</span> <span class="o">-</span> <span class="n">start_read</span>
+</span><span id="L-320"><a href="#L-320"><span class="linenos">320</span></a>                <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-321"><a href="#L-321"><span class="linenos">321</span></a>                    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-322"><a href="#L-322"><span class="linenos">322</span></a>                    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-323"><a href="#L-323"><span class="linenos">323</span></a>                        <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="L-324"><a href="#L-324"><span class="linenos">324</span></a>                <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-325"><a href="#L-325"><span class="linenos">325</span></a>                    <span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">data_starts</span><span class="p">)))</span>
+</span><span id="L-326"><a href="#L-326"><span class="linenos">326</span></a>                <span class="c1"># all other chunks should follow the same structure</span>
+</span><span id="L-327"><a href="#L-327"><span class="linenos">327</span></a>                <span class="k">for</span> <span class="n">cnfg</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">data_starts</span><span class="p">)):</span>
+</span><span id="L-328"><a href="#L-328"><span class="linenos">328</span></a>                    <span class="n">start</span> <span class="o">=</span> <span class="n">data_starts</span><span class="p">[</span><span class="n">cnfg</span><span class="p">]</span>
+</span><span id="L-329"><a href="#L-329"><span class="linenos">329</span></a>                    <span class="n">stop</span> <span class="o">=</span> <span class="n">start</span> <span class="o">+</span> <span class="n">data_starts</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-330"><a href="#L-330"><span class="linenos">330</span></a>                    <span class="n">chunk</span> <span class="o">=</span> <span class="n">content</span><span class="p">[</span><span class="n">start</span><span class="p">:</span><span class="n">stop</span><span class="p">]</span>
+</span><span id="L-331"><a href="#L-331"><span class="linenos">331</span></a>                    <span class="k">try</span><span class="p">:</span>
+</span><span id="L-332"><a href="#L-332"><span class="linenos">332</span></a>                        <span class="n">rep_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">chunk</span><span class="p">[</span><span class="n">gauge_line</span><span class="p">]</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">cfg_separator</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-333"><a href="#L-333"><span class="linenos">333</span></a>                    <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="L-334"><a href="#L-334"><span class="linenos">334</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Couldn&#39;t parse idl from directory, problem with chunk around line &quot;</span><span class="p">,</span> <span class="n">gauge_line</span><span class="p">)</span>
+</span><span id="L-335"><a href="#L-335"><span class="linenos">335</span></a>
+</span><span id="L-336"><a href="#L-336"><span class="linenos">336</span></a>                    <span class="n">found_pat</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
+</span><span id="L-337"><a href="#L-337"><span class="linenos">337</span></a>                    <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">chunk</span><span class="p">[</span><span class="n">corr_line</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span><span class="n">corr_line</span> <span class="o">+</span> <span class="mi">6</span> <span class="o">+</span> <span class="n">b2b</span><span class="p">]:</span>
+</span><span id="L-338"><a href="#L-338"><span class="linenos">338</span></a>                        <span class="n">found_pat</span> <span class="o">+=</span> <span class="n">li</span>
+</span><span id="L-339"><a href="#L-339"><span class="linenos">339</span></a>                    <span class="k">if</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="n">pattern</span><span class="p">,</span> <span class="n">found_pat</span><span class="p">):</span>
+</span><span id="L-340"><a href="#L-340"><span class="linenos">340</span></a>                        <span class="k">for</span> <span class="n">t</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">chunk</span><span class="p">[</span><span class="n">start_read</span><span class="p">:</span><span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">]):</span>
+</span><span id="L-341"><a href="#L-341"><span class="linenos">341</span></a>                            <span class="n">floats</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">()))</span>
+</span><span id="L-342"><a href="#L-342"><span class="linenos">342</span></a>                            <span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">rep</span><span class="p">][</span><span class="n">cnfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="n">im</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">-</span> <span class="n">single</span><span class="p">]</span>
+</span><span id="L-343"><a href="#L-343"><span class="linenos">343</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rep_idl</span><span class="p">)</span>
+</span><span id="L-344"><a href="#L-344"><span class="linenos">344</span></a>
+</span><span id="L-345"><a href="#L-345"><span class="linenos">345</span></a>    <span class="k">if</span> <span class="s2">&quot;check_configs&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-346"><a href="#L-346"><span class="linenos">346</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Checking for missing configs...&quot;</span><span class="p">)</span>
+</span><span id="L-347"><a href="#L-347"><span class="linenos">347</span></a>        <span class="n">che</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;check_configs&quot;</span><span class="p">)</span>
+</span><span id="L-348"><a href="#L-348"><span class="linenos">348</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">che</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)):</span>
+</span><span id="L-349"><a href="#L-349"><span class="linenos">349</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;check_configs has to be the same length as replica!&quot;</span><span class="p">)</span>
+</span><span id="L-350"><a href="#L-350"><span class="linenos">350</span></a>        <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)):</span>
+</span><span id="L-351"><a href="#L-351"><span class="linenos">351</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;checking &quot;</span> <span class="o">+</span> <span class="n">new_names</span><span class="p">[</span><span class="n">r</span><span class="p">])</span>
+</span><span id="L-352"><a href="#L-352"><span class="linenos">352</span></a>            <span class="n">utils</span><span class="o">.</span><span class="n">check_idl</span><span class="p">(</span><span class="n">idl</span><span class="p">[</span><span class="n">r</span><span class="p">],</span> <span class="n">che</span><span class="p">[</span><span class="n">r</span><span class="p">])</span>
+</span><span id="L-353"><a href="#L-353"><span class="linenos">353</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Done&quot;</span><span class="p">)</span>
+</span><span id="L-354"><a href="#L-354"><span class="linenos">354</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-355"><a href="#L-355"><span class="linenos">355</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="L-356"><a href="#L-356"><span class="linenos">356</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">new_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
+</span><span id="L-357"><a href="#L-357"><span class="linenos">357</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="read_sfcf">
-                            <div class="attr function"><a class="headerlink" href="#read_sfcf">#&nbsp;&nbsp</a>
+                            <input id="read_sfcf-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">read_sfcf</span><span class="signature pdoc-code multiline">(<span class="param">	<span class="n">path</span>,</span><span class="param">	<span class="n">prefix</span>,</span><span class="param">	<span class="n">name</span>,</span><span class="param">	<span class="n">quarks</span><span class="o">=</span><span class="s1">&#39;.*&#39;</span>,</span><span class="param">	<span class="n">corr_type</span><span class="o">=</span><span class="s1">&#39;bi&#39;</span>,</span><span class="param">	<span class="n">noffset</span><span class="o">=</span><span class="mi">0</span>,</span><span class="param">	<span class="n">wf</span><span class="o">=</span><span class="mi">0</span>,</span><span class="param">	<span class="n">wf2</span><span class="o">=</span><span class="mi">0</span>,</span><span class="param">	<span class="n">version</span><span class="o">=</span><span class="s1">&#39;1.0c&#39;</span>,</span><span class="param">	<span class="n">cfg_separator</span><span class="o">=</span><span class="s1">&#39;n&#39;</span>,</span><span class="param">	<span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="read_sfcf-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">read_sfcf</span><span class="signature">(
-    path,
-    prefix,
-    name,
-    quarks=&#39;.*&#39;,
-    corr_type=&#39;bi&#39;,
-    noffset=0,
-    wf=0,
-    wf2=0,
-    version=&#39;1.0c&#39;,
-    cfg_separator=&#39;n&#39;,
-    **kwargs
-)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="read_sfcf-9"><a href="#read_sfcf-9"><span class="linenos">  9</span></a><span class="k">def</span> <span class="nf">read_sfcf</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">quarks</span><span class="o">=</span><span class="s1">&#39;.*&#39;</span><span class="p">,</span> <span class="n">corr_type</span><span class="o">=</span><span class="s1">&#39;bi&#39;</span><span class="p">,</span> <span class="n">noffset</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">wf</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">wf2</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;1.0c&quot;</span><span class="p">,</span> <span class="n">cfg_separator</span><span class="o">=</span><span class="s2">&quot;n&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="read_sfcf-10"><a href="#read_sfcf-10"><span class="linenos"> 10</span></a>    <span class="sd">&quot;&quot;&quot;Read sfcf c format from given folder structure.</span>
-</span><span id="read_sfcf-11"><a href="#read_sfcf-11"><span class="linenos"> 11</span></a>
-</span><span id="read_sfcf-12"><a href="#read_sfcf-12"><span class="linenos"> 12</span></a><span class="sd">    Parameters</span>
-</span><span id="read_sfcf-13"><a href="#read_sfcf-13"><span class="linenos"> 13</span></a><span class="sd">    ----------</span>
-</span><span id="read_sfcf-14"><a href="#read_sfcf-14"><span class="linenos"> 14</span></a><span class="sd">    quarks: str</span>
-</span><span id="read_sfcf-15"><a href="#read_sfcf-15"><span class="linenos"> 15</span></a><span class="sd">        Label of the quarks used in the sfcf input file. e.g. &quot;quark quark&quot;</span>
-</span><span id="read_sfcf-16"><a href="#read_sfcf-16"><span class="linenos"> 16</span></a><span class="sd">        for version 0.0 this does NOT need to be given with the typical &quot; - &quot;</span>
-</span><span id="read_sfcf-17"><a href="#read_sfcf-17"><span class="linenos"> 17</span></a><span class="sd">        that is present in the output file,</span>
-</span><span id="read_sfcf-18"><a href="#read_sfcf-18"><span class="linenos"> 18</span></a><span class="sd">        this is done automatically for this version</span>
-</span><span id="read_sfcf-19"><a href="#read_sfcf-19"><span class="linenos"> 19</span></a><span class="sd">    noffset: int</span>
-</span><span id="read_sfcf-20"><a href="#read_sfcf-20"><span class="linenos"> 20</span></a><span class="sd">        Offset of the source (only relevant when wavefunctions are used)</span>
-</span><span id="read_sfcf-21"><a href="#read_sfcf-21"><span class="linenos"> 21</span></a><span class="sd">    wf: int</span>
-</span><span id="read_sfcf-22"><a href="#read_sfcf-22"><span class="linenos"> 22</span></a><span class="sd">        ID of wave function</span>
-</span><span id="read_sfcf-23"><a href="#read_sfcf-23"><span class="linenos"> 23</span></a><span class="sd">    wf2: int</span>
-</span><span id="read_sfcf-24"><a href="#read_sfcf-24"><span class="linenos"> 24</span></a><span class="sd">        ID of the second wavefunction</span>
-</span><span id="read_sfcf-25"><a href="#read_sfcf-25"><span class="linenos"> 25</span></a><span class="sd">        (only relevant for boundary-to-boundary correlation functions)</span>
-</span><span id="read_sfcf-26"><a href="#read_sfcf-26"><span class="linenos"> 26</span></a><span class="sd">    im: bool</span>
-</span><span id="read_sfcf-27"><a href="#read_sfcf-27"><span class="linenos"> 27</span></a><span class="sd">        if True, read imaginary instead of real part</span>
-</span><span id="read_sfcf-28"><a href="#read_sfcf-28"><span class="linenos"> 28</span></a><span class="sd">        of the correlation function.</span>
-</span><span id="read_sfcf-29"><a href="#read_sfcf-29"><span class="linenos"> 29</span></a><span class="sd">    corr_type : str</span>
-</span><span id="read_sfcf-30"><a href="#read_sfcf-30"><span class="linenos"> 30</span></a><span class="sd">        change between bi (boundary - inner) (default) bib (boundary - inner - boundary) and bb (boundary - boundary)</span>
-</span><span id="read_sfcf-31"><a href="#read_sfcf-31"><span class="linenos"> 31</span></a><span class="sd">        correlator types</span>
-</span><span id="read_sfcf-32"><a href="#read_sfcf-32"><span class="linenos"> 32</span></a><span class="sd">    names : list</span>
-</span><span id="read_sfcf-33"><a href="#read_sfcf-33"><span class="linenos"> 33</span></a><span class="sd">        Alternative labeling for replicas/ensembles.</span>
-</span><span id="read_sfcf-34"><a href="#read_sfcf-34"><span class="linenos"> 34</span></a><span class="sd">        Has to have the appropriate length</span>
-</span><span id="read_sfcf-35"><a href="#read_sfcf-35"><span class="linenos"> 35</span></a><span class="sd">    ens_name : str</span>
-</span><span id="read_sfcf-36"><a href="#read_sfcf-36"><span class="linenos"> 36</span></a><span class="sd">        replaces the name of the ensemble</span>
-</span><span id="read_sfcf-37"><a href="#read_sfcf-37"><span class="linenos"> 37</span></a><span class="sd">    version: str</span>
-</span><span id="read_sfcf-38"><a href="#read_sfcf-38"><span class="linenos"> 38</span></a><span class="sd">        version of SFCF, with which the measurement was done.</span>
-</span><span id="read_sfcf-39"><a href="#read_sfcf-39"><span class="linenos"> 39</span></a><span class="sd">        if the compact output option (-c) was specified,</span>
-</span><span id="read_sfcf-40"><a href="#read_sfcf-40"><span class="linenos"> 40</span></a><span class="sd">        append a &quot;c&quot; to the version (e.g. &quot;1.0c&quot;)</span>
-</span><span id="read_sfcf-41"><a href="#read_sfcf-41"><span class="linenos"> 41</span></a><span class="sd">        if the append output option (-a) was specified,</span>
-</span><span id="read_sfcf-42"><a href="#read_sfcf-42"><span class="linenos"> 42</span></a><span class="sd">        append an &quot;a&quot; to the version</span>
-</span><span id="read_sfcf-43"><a href="#read_sfcf-43"><span class="linenos"> 43</span></a><span class="sd">    cfg_separator : str</span>
-</span><span id="read_sfcf-44"><a href="#read_sfcf-44"><span class="linenos"> 44</span></a><span class="sd">        String that separates the ensemble identifier from the configuration number (default &#39;n&#39;).</span>
-</span><span id="read_sfcf-45"><a href="#read_sfcf-45"><span class="linenos"> 45</span></a><span class="sd">    replica: list</span>
-</span><span id="read_sfcf-46"><a href="#read_sfcf-46"><span class="linenos"> 46</span></a><span class="sd">        list of replica to be read, default is all</span>
-</span><span id="read_sfcf-47"><a href="#read_sfcf-47"><span class="linenos"> 47</span></a><span class="sd">    files: list</span>
-</span><span id="read_sfcf-48"><a href="#read_sfcf-48"><span class="linenos"> 48</span></a><span class="sd">        list of files to be read per replica, default is all.</span>
-</span><span id="read_sfcf-49"><a href="#read_sfcf-49"><span class="linenos"> 49</span></a><span class="sd">        for non-compact output format, hand the folders to be read here.</span>
-</span><span id="read_sfcf-50"><a href="#read_sfcf-50"><span class="linenos"> 50</span></a><span class="sd">    check_configs:</span>
-</span><span id="read_sfcf-51"><a href="#read_sfcf-51"><span class="linenos"> 51</span></a><span class="sd">        list of list of supposed configs, eg. [range(1,1000)]</span>
-</span><span id="read_sfcf-52"><a href="#read_sfcf-52"><span class="linenos"> 52</span></a><span class="sd">        for one replicum with 1000 configs</span>
-</span><span id="read_sfcf-53"><a href="#read_sfcf-53"><span class="linenos"> 53</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="read_sfcf-54"><a href="#read_sfcf-54"><span class="linenos"> 54</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;im&#39;</span><span class="p">):</span>
-</span><span id="read_sfcf-55"><a href="#read_sfcf-55"><span class="linenos"> 55</span></a>        <span class="n">im</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="read_sfcf-56"><a href="#read_sfcf-56"><span class="linenos"> 56</span></a>        <span class="n">part</span> <span class="o">=</span> <span class="s1">&#39;imaginary&#39;</span>
-</span><span id="read_sfcf-57"><a href="#read_sfcf-57"><span class="linenos"> 57</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-58"><a href="#read_sfcf-58"><span class="linenos"> 58</span></a>        <span class="n">im</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="read_sfcf-59"><a href="#read_sfcf-59"><span class="linenos"> 59</span></a>        <span class="n">part</span> <span class="o">=</span> <span class="s1">&#39;real&#39;</span>
-</span><span id="read_sfcf-60"><a href="#read_sfcf-60"><span class="linenos"> 60</span></a>    <span class="k">if</span> <span class="s2">&quot;replica&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_sfcf-61"><a href="#read_sfcf-61"><span class="linenos"> 61</span></a>        <span class="n">reps</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;replica&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-62"><a href="#read_sfcf-62"><span class="linenos"> 62</span></a>    <span class="k">if</span> <span class="n">corr_type</span> <span class="o">==</span> <span class="s1">&#39;bb&#39;</span><span class="p">:</span>
-</span><span id="read_sfcf-63"><a href="#read_sfcf-63"><span class="linenos"> 63</span></a>        <span class="n">b2b</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="read_sfcf-64"><a href="#read_sfcf-64"><span class="linenos"> 64</span></a>        <span class="n">single</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="read_sfcf-65"><a href="#read_sfcf-65"><span class="linenos"> 65</span></a>    <span class="k">elif</span> <span class="n">corr_type</span> <span class="o">==</span> <span class="s1">&#39;bib&#39;</span><span class="p">:</span>
-</span><span id="read_sfcf-66"><a href="#read_sfcf-66"><span class="linenos"> 66</span></a>        <span class="n">b2b</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="read_sfcf-67"><a href="#read_sfcf-67"><span class="linenos"> 67</span></a>        <span class="n">single</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="read_sfcf-68"><a href="#read_sfcf-68"><span class="linenos"> 68</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-69"><a href="#read_sfcf-69"><span class="linenos"> 69</span></a>        <span class="n">b2b</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="read_sfcf-70"><a href="#read_sfcf-70"><span class="linenos"> 70</span></a>        <span class="n">single</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="read_sfcf-71"><a href="#read_sfcf-71"><span class="linenos"> 71</span></a>    <span class="n">compact</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="read_sfcf-72"><a href="#read_sfcf-72"><span class="linenos"> 72</span></a>    <span class="n">appended</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="read_sfcf-73"><a href="#read_sfcf-73"><span class="linenos"> 73</span></a>    <span class="n">known_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;0.0&quot;</span><span class="p">,</span> <span class="s2">&quot;1.0&quot;</span><span class="p">,</span> <span class="s2">&quot;2.0&quot;</span><span class="p">,</span> <span class="s2">&quot;1.0c&quot;</span><span class="p">,</span> <span class="s2">&quot;2.0c&quot;</span><span class="p">,</span> <span class="s2">&quot;1.0a&quot;</span><span class="p">,</span> <span class="s2">&quot;2.0a&quot;</span><span class="p">]</span>
-</span><span id="read_sfcf-74"><a href="#read_sfcf-74"><span class="linenos"> 74</span></a>
-</span><span id="read_sfcf-75"><a href="#read_sfcf-75"><span class="linenos"> 75</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">known_versions</span><span class="p">:</span>
-</span><span id="read_sfcf-76"><a href="#read_sfcf-76"><span class="linenos"> 76</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;This version is not known!&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-77"><a href="#read_sfcf-77"><span class="linenos"> 77</span></a>    <span class="k">if</span><span class="p">(</span><span class="n">version</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;c&quot;</span><span class="p">):</span>
-</span><span id="read_sfcf-78"><a href="#read_sfcf-78"><span class="linenos"> 78</span></a>        <span class="n">appended</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="read_sfcf-79"><a href="#read_sfcf-79"><span class="linenos"> 79</span></a>        <span class="n">compact</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="read_sfcf-80"><a href="#read_sfcf-80"><span class="linenos"> 80</span></a>        <span class="n">version</span> <span class="o">=</span> <span class="n">version</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="read_sfcf-81"><a href="#read_sfcf-81"><span class="linenos"> 81</span></a>    <span class="k">elif</span><span class="p">(</span><span class="n">version</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;a&quot;</span><span class="p">):</span>
-</span><span id="read_sfcf-82"><a href="#read_sfcf-82"><span class="linenos"> 82</span></a>        <span class="n">appended</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="read_sfcf-83"><a href="#read_sfcf-83"><span class="linenos"> 83</span></a>        <span class="n">compact</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="read_sfcf-84"><a href="#read_sfcf-84"><span class="linenos"> 84</span></a>        <span class="n">version</span> <span class="o">=</span> <span class="n">version</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="read_sfcf-85"><a href="#read_sfcf-85"><span class="linenos"> 85</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-86"><a href="#read_sfcf-86"><span class="linenos"> 86</span></a>        <span class="n">compact</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="read_sfcf-87"><a href="#read_sfcf-87"><span class="linenos"> 87</span></a>        <span class="n">appended</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="read_sfcf-88"><a href="#read_sfcf-88"><span class="linenos"> 88</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="read_sfcf-89"><a href="#read_sfcf-89"><span class="linenos"> 89</span></a>    <span class="n">T</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="read_sfcf-90"><a href="#read_sfcf-90"><span class="linenos"> 90</span></a>    <span class="n">start</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="read_sfcf-91"><a href="#read_sfcf-91"><span class="linenos"> 91</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_sfcf-92"><a href="#read_sfcf-92"><span class="linenos"> 92</span></a>    <span class="k">if</span> <span class="s2">&quot;replica&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_sfcf-93"><a href="#read_sfcf-93"><span class="linenos"> 93</span></a>        <span class="n">ls</span> <span class="o">=</span> <span class="n">reps</span>
-</span><span id="read_sfcf-94"><a href="#read_sfcf-94"><span class="linenos"> 94</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-95"><a href="#read_sfcf-95"><span class="linenos"> 95</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
-</span><span id="read_sfcf-96"><a href="#read_sfcf-96"><span class="linenos"> 96</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
-</span><span id="read_sfcf-97"><a href="#read_sfcf-97"><span class="linenos"> 97</span></a>                <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">dirnames</span><span class="p">)</span>
-</span><span id="read_sfcf-98"><a href="#read_sfcf-98"><span class="linenos"> 98</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-99"><a href="#read_sfcf-99"><span class="linenos"> 99</span></a>                <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
-</span><span id="read_sfcf-100"><a href="#read_sfcf-100"><span class="linenos">100</span></a>            <span class="k">break</span>
-</span><span id="read_sfcf-101"><a href="#read_sfcf-101"><span class="linenos">101</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="read_sfcf-102"><a href="#read_sfcf-102"><span class="linenos">102</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
-</span><span id="read_sfcf-103"><a href="#read_sfcf-103"><span class="linenos">103</span></a>        <span class="c1"># Exclude folders with different names</span>
-</span><span id="read_sfcf-104"><a href="#read_sfcf-104"><span class="linenos">104</span></a>        <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="read_sfcf-105"><a href="#read_sfcf-105"><span class="linenos">105</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*&#39;</span><span class="p">):</span>
-</span><span id="read_sfcf-106"><a href="#read_sfcf-106"><span class="linenos">106</span></a>                <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="read_sfcf-107"><a href="#read_sfcf-107"><span class="linenos">107</span></a>
-</span><span id="read_sfcf-108"><a href="#read_sfcf-108"><span class="linenos">108</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
-</span><span id="read_sfcf-109"><a href="#read_sfcf-109"><span class="linenos">109</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_sfcf-110"><a href="#read_sfcf-110"><span class="linenos">110</span></a>            <span class="c1"># New version, to cope with ids, etc.</span>
-</span><span id="read_sfcf-111"><a href="#read_sfcf-111"><span class="linenos">111</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
-</span><span id="read_sfcf-112"><a href="#read_sfcf-112"><span class="linenos">112</span></a>        <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
-</span><span id="read_sfcf-113"><a href="#read_sfcf-113"><span class="linenos">113</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-114"><a href="#read_sfcf-114"><span class="linenos">114</span></a>        <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">([</span><span class="n">file</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">file</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">])</span> <span class="o">//</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">file</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">file</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">]))</span>
-</span><span id="read_sfcf-115"><a href="#read_sfcf-115"><span class="linenos">115</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Read&#39;</span><span class="p">,</span> <span class="n">part</span><span class="p">,</span> <span class="s1">&#39;part of&#39;</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span>
-</span><span id="read_sfcf-116"><a href="#read_sfcf-116"><span class="linenos">116</span></a>          <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">)</span>
-</span><span id="read_sfcf-117"><a href="#read_sfcf-117"><span class="linenos">117</span></a>    <span class="k">if</span> <span class="s1">&#39;names&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_sfcf-118"><a href="#read_sfcf-118"><span class="linenos">118</span></a>        <span class="n">new_names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;names&#39;</span><span class="p">)</span>
-</span><span id="read_sfcf-119"><a href="#read_sfcf-119"><span class="linenos">119</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">new_names</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">new_names</span><span class="p">)):</span>
-</span><span id="read_sfcf-120"><a href="#read_sfcf-120"><span class="linenos">120</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;names are not unique!&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-121"><a href="#read_sfcf-121"><span class="linenos">121</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">new_names</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
-</span><span id="read_sfcf-122"><a href="#read_sfcf-122"><span class="linenos">122</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Names does not have the required length&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">)</span>
-</span><span id="read_sfcf-123"><a href="#read_sfcf-123"><span class="linenos">123</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-124"><a href="#read_sfcf-124"><span class="linenos">124</span></a>        <span class="n">new_names</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_sfcf-125"><a href="#read_sfcf-125"><span class="linenos">125</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
-</span><span id="read_sfcf-126"><a href="#read_sfcf-126"><span class="linenos">126</span></a>            <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="read_sfcf-127"><a href="#read_sfcf-127"><span class="linenos">127</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="read_sfcf-128"><a href="#read_sfcf-128"><span class="linenos">128</span></a>                    <span class="n">idx</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
-</span><span id="read_sfcf-129"><a href="#read_sfcf-129"><span class="linenos">129</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="read_sfcf-130"><a href="#read_sfcf-130"><span class="linenos">130</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-131"><a href="#read_sfcf-131"><span class="linenos">131</span></a>
-</span><span id="read_sfcf-132"><a href="#read_sfcf-132"><span class="linenos">132</span></a>                <span class="k">if</span> <span class="s1">&#39;ens_name&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_sfcf-133"><a href="#read_sfcf-133"><span class="linenos">133</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;ens_name&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="read_sfcf-134"><a href="#read_sfcf-134"><span class="linenos">134</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-135"><a href="#read_sfcf-135"><span class="linenos">135</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="read_sfcf-136"><a href="#read_sfcf-136"><span class="linenos">136</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-137"><a href="#read_sfcf-137"><span class="linenos">137</span></a>
-</span><span id="read_sfcf-138"><a href="#read_sfcf-138"><span class="linenos">138</span></a>            <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="read_sfcf-139"><a href="#read_sfcf-139"><span class="linenos">139</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">):</span>
-</span><span id="read_sfcf-140"><a href="#read_sfcf-140"><span class="linenos">140</span></a>                    <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="read_sfcf-141"><a href="#read_sfcf-141"><span class="linenos">141</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="read_sfcf-142"><a href="#read_sfcf-142"><span class="linenos">142</span></a>            <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="read_sfcf-143"><a href="#read_sfcf-143"><span class="linenos">143</span></a>                <span class="n">myentry</span> <span class="o">=</span> <span class="n">entry</span><span class="p">[:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">name</span><span class="p">)</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
-</span><span id="read_sfcf-144"><a href="#read_sfcf-144"><span class="linenos">144</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="read_sfcf-145"><a href="#read_sfcf-145"><span class="linenos">145</span></a>                    <span class="n">idx</span> <span class="o">=</span> <span class="n">myentry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
-</span><span id="read_sfcf-146"><a href="#read_sfcf-146"><span class="linenos">146</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="read_sfcf-147"><a href="#read_sfcf-147"><span class="linenos">147</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-148"><a href="#read_sfcf-148"><span class="linenos">148</span></a>
-</span><span id="read_sfcf-149"><a href="#read_sfcf-149"><span class="linenos">149</span></a>                <span class="k">if</span> <span class="s1">&#39;ens_name&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_sfcf-150"><a href="#read_sfcf-150"><span class="linenos">150</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;ens_name&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">myentry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="read_sfcf-151"><a href="#read_sfcf-151"><span class="linenos">151</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-152"><a href="#read_sfcf-152"><span class="linenos">152</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">myentry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">myentry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
-</span><span id="read_sfcf-153"><a href="#read_sfcf-153"><span class="linenos">153</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_sfcf-154"><a href="#read_sfcf-154"><span class="linenos">154</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
-</span><span id="read_sfcf-155"><a href="#read_sfcf-155"><span class="linenos">155</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">ls</span><span class="p">):</span>
-</span><span id="read_sfcf-156"><a href="#read_sfcf-156"><span class="linenos">156</span></a>            <span class="n">sub_ls</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_sfcf-157"><a href="#read_sfcf-157"><span class="linenos">157</span></a>            <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_sfcf-158"><a href="#read_sfcf-158"><span class="linenos">158</span></a>                <span class="n">sub_ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-159"><a href="#read_sfcf-159"><span class="linenos">159</span></a>                <span class="n">sub_ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="read_sfcf-160"><a href="#read_sfcf-160"><span class="linenos">160</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-161"><a href="#read_sfcf-161"><span class="linenos">161</span></a>                <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span><span class="p">):</span>
-</span><span id="read_sfcf-162"><a href="#read_sfcf-162"><span class="linenos">162</span></a>                    <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
-</span><span id="read_sfcf-163"><a href="#read_sfcf-163"><span class="linenos">163</span></a>                        <span class="n">sub_ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
-</span><span id="read_sfcf-164"><a href="#read_sfcf-164"><span class="linenos">164</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-165"><a href="#read_sfcf-165"><span class="linenos">165</span></a>                        <span class="n">sub_ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">dirnames</span><span class="p">)</span>
-</span><span id="read_sfcf-166"><a href="#read_sfcf-166"><span class="linenos">166</span></a>                    <span class="k">break</span>
-</span><span id="read_sfcf-167"><a href="#read_sfcf-167"><span class="linenos">167</span></a>                <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
-</span><span id="read_sfcf-168"><a href="#read_sfcf-168"><span class="linenos">168</span></a>                    <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">sub_ls</span><span class="p">:</span>
-</span><span id="read_sfcf-169"><a href="#read_sfcf-169"><span class="linenos">169</span></a>                        <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*&#39;</span><span class="p">):</span>
-</span><span id="read_sfcf-170"><a href="#read_sfcf-170"><span class="linenos">170</span></a>                            <span class="n">sub_ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="read_sfcf-171"><a href="#read_sfcf-171"><span class="linenos">171</span></a>                    <span class="n">sub_ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="read_sfcf-172"><a href="#read_sfcf-172"><span class="linenos">172</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-173"><a href="#read_sfcf-173"><span class="linenos">173</span></a>                    <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">sub_ls</span><span class="p">:</span>
-</span><span id="read_sfcf-174"><a href="#read_sfcf-174"><span class="linenos">174</span></a>                        <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="s1">&#39;cfg*&#39;</span><span class="p">):</span>
-</span><span id="read_sfcf-175"><a href="#read_sfcf-175"><span class="linenos">175</span></a>                            <span class="n">sub_ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="read_sfcf-176"><a href="#read_sfcf-176"><span class="linenos">176</span></a>                    <span class="n">sub_ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">:]))</span>
-</span><span id="read_sfcf-177"><a href="#read_sfcf-177"><span class="linenos">177</span></a>            <span class="n">rep_idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_sfcf-178"><a href="#read_sfcf-178"><span class="linenos">178</span></a>            <span class="n">no_cfg</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">)</span>
-</span><span id="read_sfcf-179"><a href="#read_sfcf-179"><span class="linenos">179</span></a>            <span class="k">for</span> <span class="n">cfg</span> <span class="ow">in</span> <span class="n">sub_ls</span><span class="p">:</span>
-</span><span id="read_sfcf-180"><a href="#read_sfcf-180"><span class="linenos">180</span></a>                <span class="k">try</span><span class="p">:</span>
-</span><span id="read_sfcf-181"><a href="#read_sfcf-181"><span class="linenos">181</span></a>                    <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
-</span><span id="read_sfcf-182"><a href="#read_sfcf-182"><span class="linenos">182</span></a>                        <span class="n">rep_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">cfg</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">cfg_separator</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="read_sfcf-183"><a href="#read_sfcf-183"><span class="linenos">183</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-184"><a href="#read_sfcf-184"><span class="linenos">184</span></a>                        <span class="n">rep_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">cfg</span><span class="p">[</span><span class="mi">3</span><span class="p">:]))</span>
-</span><span id="read_sfcf-185"><a href="#read_sfcf-185"><span class="linenos">185</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="read_sfcf-186"><a href="#read_sfcf-186"><span class="linenos">186</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Couldn&#39;t parse idl from directroy, problem with file &quot;</span> <span class="o">+</span> <span class="n">cfg</span><span class="p">)</span>
-</span><span id="read_sfcf-187"><a href="#read_sfcf-187"><span class="linenos">187</span></a>            <span class="n">rep_idl</span><span class="o">.</span><span class="n">sort</span><span class="p">()</span>
-</span><span id="read_sfcf-188"><a href="#read_sfcf-188"><span class="linenos">188</span></a>            <span class="c1"># maybe there is a better way to print the idls</span>
-</span><span id="read_sfcf-189"><a href="#read_sfcf-189"><span class="linenos">189</span></a>            <span class="nb">print</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="s1">&#39;:&#39;</span><span class="p">,</span> <span class="n">no_cfg</span><span class="p">,</span> <span class="s1">&#39; configurations&#39;</span><span class="p">)</span>
-</span><span id="read_sfcf-190"><a href="#read_sfcf-190"><span class="linenos">190</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rep_idl</span><span class="p">)</span>
-</span><span id="read_sfcf-191"><a href="#read_sfcf-191"><span class="linenos">191</span></a>            <span class="c1"># here we have found all the files we need to look into.</span>
-</span><span id="read_sfcf-192"><a href="#read_sfcf-192"><span class="linenos">192</span></a>            <span class="k">if</span> <span class="n">i</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_sfcf-193"><a href="#read_sfcf-193"><span class="linenos">193</span></a>                <span class="c1"># here, we want to find the place within the file,</span>
-</span><span id="read_sfcf-194"><a href="#read_sfcf-194"><span class="linenos">194</span></a>                <span class="c1"># where the correlator we need is stored.</span>
-</span><span id="read_sfcf-195"><a href="#read_sfcf-195"><span class="linenos">195</span></a>                <span class="c1"># to do so, the pattern needed is put together</span>
-</span><span id="read_sfcf-196"><a href="#read_sfcf-196"><span class="linenos">196</span></a>                <span class="c1"># from the input values</span>
-</span><span id="read_sfcf-197"><a href="#read_sfcf-197"><span class="linenos">197</span></a>                <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;0.0&quot;</span><span class="p">:</span>
-</span><span id="read_sfcf-198"><a href="#read_sfcf-198"><span class="linenos">198</span></a>                    <span class="n">pattern</span> <span class="o">=</span> <span class="s2">&quot;# &quot;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s2">&quot; : offset &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noffset</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;, wf &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf</span><span class="p">)</span>
-</span><span id="read_sfcf-199"><a href="#read_sfcf-199"><span class="linenos">199</span></a>                    <span class="c1"># if b2b, a second wf is needed</span>
-</span><span id="read_sfcf-200"><a href="#read_sfcf-200"><span class="linenos">200</span></a>                    <span class="k">if</span> <span class="n">b2b</span><span class="p">:</span>
-</span><span id="read_sfcf-201"><a href="#read_sfcf-201"><span class="linenos">201</span></a>                        <span class="n">pattern</span> <span class="o">+=</span> <span class="s2">&quot;, wf_2 &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf2</span><span class="p">)</span>
-</span><span id="read_sfcf-202"><a href="#read_sfcf-202"><span class="linenos">202</span></a>                    <span class="n">qs</span> <span class="o">=</span> <span class="n">quarks</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot; &quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-203"><a href="#read_sfcf-203"><span class="linenos">203</span></a>                    <span class="n">pattern</span> <span class="o">+=</span> <span class="s2">&quot; : &quot;</span> <span class="o">+</span> <span class="n">qs</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s2">&quot; - &quot;</span> <span class="o">+</span> <span class="n">qs</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="read_sfcf-204"><a href="#read_sfcf-204"><span class="linenos">204</span></a>                    <span class="n">file</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-205"><a href="#read_sfcf-205"><span class="linenos">205</span></a>                    <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">file</span><span class="p">):</span>
-</span><span id="read_sfcf-206"><a href="#read_sfcf-206"><span class="linenos">206</span></a>                        <span class="k">if</span> <span class="n">read</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">line</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&gt;</span> <span class="n">start</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_sfcf-207"><a href="#read_sfcf-207"><span class="linenos">207</span></a>                            <span class="k">break</span>
-</span><span id="read_sfcf-208"><a href="#read_sfcf-208"><span class="linenos">208</span></a>                        <span class="k">if</span> <span class="n">read</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&gt;=</span> <span class="n">start</span><span class="p">:</span>
-</span><span id="read_sfcf-209"><a href="#read_sfcf-209"><span class="linenos">209</span></a>                            <span class="n">T</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="read_sfcf-210"><a href="#read_sfcf-210"><span class="linenos">210</span></a>                        <span class="k">if</span> <span class="n">pattern</span> <span class="ow">in</span> <span class="n">line</span><span class="p">:</span>
-</span><span id="read_sfcf-211"><a href="#read_sfcf-211"><span class="linenos">211</span></a>                            <span class="n">read</span> <span class="o">=</span> <span class="mi">1</span>
-</span><span id="read_sfcf-212"><a href="#read_sfcf-212"><span class="linenos">212</span></a>                            <span class="n">start</span> <span class="o">=</span> <span class="n">k</span> <span class="o">+</span> <span class="mi">1</span>
-</span><span id="read_sfcf-213"><a href="#read_sfcf-213"><span class="linenos">213</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">T</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot; entries found.&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-214"><a href="#read_sfcf-214"><span class="linenos">214</span></a>                    <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="read_sfcf-215"><a href="#read_sfcf-215"><span class="linenos">215</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-216"><a href="#read_sfcf-216"><span class="linenos">216</span></a>                    <span class="n">pattern</span> <span class="o">=</span> <span class="s1">&#39;name      &#39;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">quarks    &#39;</span> <span class="o">+</span> <span class="n">quarks</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">offset    &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noffset</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf        &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf</span><span class="p">)</span>
-</span><span id="read_sfcf-217"><a href="#read_sfcf-217"><span class="linenos">217</span></a>                    <span class="k">if</span> <span class="n">b2b</span><span class="p">:</span>
-</span><span id="read_sfcf-218"><a href="#read_sfcf-218"><span class="linenos">218</span></a>                        <span class="n">pattern</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf_2      &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf2</span><span class="p">)</span>
-</span><span id="read_sfcf-219"><a href="#read_sfcf-219"><span class="linenos">219</span></a>                    <span class="c1"># and the file is parsed through to find the pattern</span>
-</span><span id="read_sfcf-220"><a href="#read_sfcf-220"><span class="linenos">220</span></a>                    <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
-</span><span id="read_sfcf-221"><a href="#read_sfcf-221"><span class="linenos">221</span></a>                        <span class="n">file</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-222"><a href="#read_sfcf-222"><span class="linenos">222</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-223"><a href="#read_sfcf-223"><span class="linenos">223</span></a>                        <span class="c1"># for non-compactified versions of the files</span>
-</span><span id="read_sfcf-224"><a href="#read_sfcf-224"><span class="linenos">224</span></a>                        <span class="n">file</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-225"><a href="#read_sfcf-225"><span class="linenos">225</span></a>
-</span><span id="read_sfcf-226"><a href="#read_sfcf-226"><span class="linenos">226</span></a>                    <span class="n">content</span> <span class="o">=</span> <span class="n">file</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
-</span><span id="read_sfcf-227"><a href="#read_sfcf-227"><span class="linenos">227</span></a>                    <span class="n">match</span> <span class="o">=</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="n">pattern</span><span class="p">,</span> <span class="n">content</span><span class="p">)</span>
-</span><span id="read_sfcf-228"><a href="#read_sfcf-228"><span class="linenos">228</span></a>                    <span class="k">if</span> <span class="n">match</span><span class="p">:</span>
-</span><span id="read_sfcf-229"><a href="#read_sfcf-229"><span class="linenos">229</span></a>                        <span class="n">start_read</span> <span class="o">=</span> <span class="n">content</span><span class="o">.</span><span class="n">count</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">match</span><span class="o">.</span><span class="n">start</span><span class="p">())</span> <span class="o">+</span> <span class="mi">5</span> <span class="o">+</span> <span class="n">b2b</span>
-</span><span id="read_sfcf-230"><a href="#read_sfcf-230"><span class="linenos">230</span></a>                        <span class="n">end_match</span> <span class="o">=</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\n\s*\n&#39;</span><span class="p">,</span> <span class="n">content</span><span class="p">[</span><span class="n">match</span><span class="o">.</span><span class="n">start</span><span class="p">():])</span>
-</span><span id="read_sfcf-231"><a href="#read_sfcf-231"><span class="linenos">231</span></a>                        <span class="n">T</span> <span class="o">=</span> <span class="n">content</span><span class="p">[</span><span class="n">match</span><span class="o">.</span><span class="n">start</span><span class="p">():]</span><span class="o">.</span><span class="n">count</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">end_match</span><span class="o">.</span><span class="n">start</span><span class="p">())</span> <span class="o">-</span> <span class="mi">4</span> <span class="o">-</span> <span class="n">b2b</span>
-</span><span id="read_sfcf-232"><a href="#read_sfcf-232"><span class="linenos">232</span></a>                        <span class="k">assert</span> <span class="n">T</span> <span class="o">&gt;</span> <span class="mi">0</span>
-</span><span id="read_sfcf-233"><a href="#read_sfcf-233"><span class="linenos">233</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="n">T</span><span class="p">,</span> <span class="s1">&#39;entries, starting to read in line&#39;</span><span class="p">,</span> <span class="n">start_read</span><span class="p">)</span>
-</span><span id="read_sfcf-234"><a href="#read_sfcf-234"><span class="linenos">234</span></a>                        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="read_sfcf-235"><a href="#read_sfcf-235"><span class="linenos">235</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-236"><a href="#read_sfcf-236"><span class="linenos">236</span></a>                        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-</span><span id="read_sfcf-237"><a href="#read_sfcf-237"><span class="linenos">237</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Correlator with pattern</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">pattern</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">not found.&#39;</span><span class="p">)</span>
-</span><span id="read_sfcf-238"><a href="#read_sfcf-238"><span class="linenos">238</span></a>
-</span><span id="read_sfcf-239"><a href="#read_sfcf-239"><span class="linenos">239</span></a>                <span class="c1"># we found where the correlator</span>
-</span><span id="read_sfcf-240"><a href="#read_sfcf-240"><span class="linenos">240</span></a>                <span class="c1"># that is to be read is in the files</span>
-</span><span id="read_sfcf-241"><a href="#read_sfcf-241"><span class="linenos">241</span></a>                <span class="c1"># after preparing the datastructure</span>
-</span><span id="read_sfcf-242"><a href="#read_sfcf-242"><span class="linenos">242</span></a>                <span class="c1"># the correlators get parsed into...</span>
-</span><span id="read_sfcf-243"><a href="#read_sfcf-243"><span class="linenos">243</span></a>                <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_sfcf-244"><a href="#read_sfcf-244"><span class="linenos">244</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="read_sfcf-245"><a href="#read_sfcf-245"><span class="linenos">245</span></a>                    <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="read_sfcf-246"><a href="#read_sfcf-246"><span class="linenos">246</span></a>
-</span><span id="read_sfcf-247"><a href="#read_sfcf-247"><span class="linenos">247</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="read_sfcf-248"><a href="#read_sfcf-248"><span class="linenos">248</span></a>                <span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">no_cfg</span><span class="p">))</span>
-</span><span id="read_sfcf-249"><a href="#read_sfcf-249"><span class="linenos">249</span></a>            <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
-</span><span id="read_sfcf-250"><a href="#read_sfcf-250"><span class="linenos">250</span></a>                <span class="k">for</span> <span class="n">cfg</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_cfg</span><span class="p">):</span>
-</span><span id="read_sfcf-251"><a href="#read_sfcf-251"><span class="linenos">251</span></a>                    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="n">cfg</span><span class="p">])</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="read_sfcf-252"><a href="#read_sfcf-252"><span class="linenos">252</span></a>                        <span class="n">lines</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">readlines</span><span class="p">()</span>
-</span><span id="read_sfcf-253"><a href="#read_sfcf-253"><span class="linenos">253</span></a>                        <span class="c1"># check, if the correlator is in fact</span>
-</span><span id="read_sfcf-254"><a href="#read_sfcf-254"><span class="linenos">254</span></a>                        <span class="c1"># printed completely</span>
-</span><span id="read_sfcf-255"><a href="#read_sfcf-255"><span class="linenos">255</span></a>                        <span class="k">if</span><span class="p">(</span><span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span> <span class="o">&gt;</span> <span class="nb">len</span><span class="p">(</span><span class="n">lines</span><span class="p">)):</span>
-</span><span id="read_sfcf-256"><a href="#read_sfcf-256"><span class="linenos">256</span></a>                            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;EOF before end of correlator data! Maybe &quot;</span> <span class="o">+</span> <span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="n">cfg</span><span class="p">]</span> <span class="o">+</span> <span class="s2">&quot; is corrupted?&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-257"><a href="#read_sfcf-257"><span class="linenos">257</span></a>                        <span class="c1"># and start to read the correlator.</span>
-</span><span id="read_sfcf-258"><a href="#read_sfcf-258"><span class="linenos">258</span></a>                        <span class="c1"># the range here is chosen like this,</span>
-</span><span id="read_sfcf-259"><a href="#read_sfcf-259"><span class="linenos">259</span></a>                        <span class="c1"># since this allows for implementing</span>
-</span><span id="read_sfcf-260"><a href="#read_sfcf-260"><span class="linenos">260</span></a>                        <span class="c1"># a security check for every read correlator later...</span>
-</span><span id="read_sfcf-261"><a href="#read_sfcf-261"><span class="linenos">261</span></a>                        <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">start_read</span> <span class="o">-</span> <span class="mi">6</span><span class="p">,</span> <span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">):</span>
-</span><span id="read_sfcf-262"><a href="#read_sfcf-262"><span class="linenos">262</span></a>                            <span class="k">if</span> <span class="n">k</span> <span class="o">==</span> <span class="n">start_read</span> <span class="o">-</span> <span class="mi">5</span> <span class="o">-</span> <span class="n">b2b</span><span class="p">:</span>
-</span><span id="read_sfcf-263"><a href="#read_sfcf-263"><span class="linenos">263</span></a>                                <span class="k">if</span> <span class="n">lines</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span> <span class="o">!=</span> <span class="s1">&#39;name      &#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">:</span>
-</span><span id="read_sfcf-264"><a href="#read_sfcf-264"><span class="linenos">264</span></a>                                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Wrong format&#39;</span><span class="p">,</span> <span class="n">sub_ls</span><span class="p">[</span><span class="n">cfg</span><span class="p">])</span>
-</span><span id="read_sfcf-265"><a href="#read_sfcf-265"><span class="linenos">265</span></a>                            <span class="k">if</span><span class="p">(</span><span class="n">k</span> <span class="o">&gt;=</span> <span class="n">start_read</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&lt;</span> <span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">):</span>
-</span><span id="read_sfcf-266"><a href="#read_sfcf-266"><span class="linenos">266</span></a>                                <span class="n">floats</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="n">lines</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">split</span><span class="p">()))</span>
-</span><span id="read_sfcf-267"><a href="#read_sfcf-267"><span class="linenos">267</span></a>                                <span class="n">deltas</span><span class="p">[</span><span class="n">k</span> <span class="o">-</span> <span class="n">start_read</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">cfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">:][</span><span class="n">im</span><span class="p">]</span>
-</span><span id="read_sfcf-268"><a href="#read_sfcf-268"><span class="linenos">268</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-269"><a href="#read_sfcf-269"><span class="linenos">269</span></a>                <span class="k">for</span> <span class="n">cnfg</span><span class="p">,</span> <span class="n">subitem</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">):</span>
-</span><span id="read_sfcf-270"><a href="#read_sfcf-270"><span class="linenos">270</span></a>                    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">subitem</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="read_sfcf-271"><a href="#read_sfcf-271"><span class="linenos">271</span></a>                        <span class="c1"># since the non-compatified files</span>
-</span><span id="read_sfcf-272"><a href="#read_sfcf-272"><span class="linenos">272</span></a>                        <span class="c1"># are typically not so long,</span>
-</span><span id="read_sfcf-273"><a href="#read_sfcf-273"><span class="linenos">273</span></a>                        <span class="c1"># we can iterate over the whole file.</span>
-</span><span id="read_sfcf-274"><a href="#read_sfcf-274"><span class="linenos">274</span></a>                        <span class="c1"># here one can also implement the chekc from above.</span>
-</span><span id="read_sfcf-275"><a href="#read_sfcf-275"><span class="linenos">275</span></a>                        <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">fp</span><span class="p">):</span>
-</span><span id="read_sfcf-276"><a href="#read_sfcf-276"><span class="linenos">276</span></a>                            <span class="k">if</span><span class="p">(</span><span class="n">k</span> <span class="o">&gt;=</span> <span class="n">start_read</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&lt;</span> <span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">):</span>
-</span><span id="read_sfcf-277"><a href="#read_sfcf-277"><span class="linenos">277</span></a>                                <span class="n">floats</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">()))</span>
-</span><span id="read_sfcf-278"><a href="#read_sfcf-278"><span class="linenos">278</span></a>                                <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;0.0&quot;</span><span class="p">:</span>
-</span><span id="read_sfcf-279"><a href="#read_sfcf-279"><span class="linenos">279</span></a>                                    <span class="n">deltas</span><span class="p">[</span><span class="n">k</span> <span class="o">-</span> <span class="n">start</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">cnfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="n">im</span> <span class="o">-</span> <span class="n">single</span><span class="p">]</span>
-</span><span id="read_sfcf-280"><a href="#read_sfcf-280"><span class="linenos">280</span></a>                                <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-281"><a href="#read_sfcf-281"><span class="linenos">281</span></a>                                    <span class="n">deltas</span><span class="p">[</span><span class="n">k</span> <span class="o">-</span> <span class="n">start_read</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">cnfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="mi">1</span> <span class="o">+</span> <span class="n">im</span> <span class="o">-</span> <span class="n">single</span><span class="p">]</span>
-</span><span id="read_sfcf-282"><a href="#read_sfcf-282"><span class="linenos">282</span></a>
-</span><span id="read_sfcf-283"><a href="#read_sfcf-283"><span class="linenos">283</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-284"><a href="#read_sfcf-284"><span class="linenos">284</span></a>        <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_sfcf-285"><a href="#read_sfcf-285"><span class="linenos">285</span></a>            <span class="n">ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-286"><a href="#read_sfcf-286"><span class="linenos">286</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="read_sfcf-287"><a href="#read_sfcf-287"><span class="linenos">287</span></a>            <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
-</span><span id="read_sfcf-288"><a href="#read_sfcf-288"><span class="linenos">288</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">):</span>
-</span><span id="read_sfcf-289"><a href="#read_sfcf-289"><span class="linenos">289</span></a>                    <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
-</span><span id="read_sfcf-290"><a href="#read_sfcf-290"><span class="linenos">290</span></a>                <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="read_sfcf-291"><a href="#read_sfcf-291"><span class="linenos">291</span></a>        <span class="n">pattern</span> <span class="o">=</span> <span class="s1">&#39;name      &#39;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">quarks    &#39;</span> <span class="o">+</span> <span class="n">quarks</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">offset    &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noffset</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf        &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf</span><span class="p">)</span>
-</span><span id="read_sfcf-292"><a href="#read_sfcf-292"><span class="linenos">292</span></a>        <span class="k">if</span> <span class="n">b2b</span><span class="p">:</span>
-</span><span id="read_sfcf-293"><a href="#read_sfcf-293"><span class="linenos">293</span></a>            <span class="n">pattern</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf_2      &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf2</span><span class="p">)</span>
-</span><span id="read_sfcf-294"><a href="#read_sfcf-294"><span class="linenos">294</span></a>        <span class="k">for</span> <span class="n">rep</span><span class="p">,</span> <span class="n">file</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">ls</span><span class="p">):</span>
-</span><span id="read_sfcf-295"><a href="#read_sfcf-295"><span class="linenos">295</span></a>            <span class="n">rep_idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_sfcf-296"><a href="#read_sfcf-296"><span class="linenos">296</span></a>            <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
-</span><span id="read_sfcf-297"><a href="#read_sfcf-297"><span class="linenos">297</span></a>                <span class="n">content</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">readlines</span><span class="p">()</span>
-</span><span id="read_sfcf-298"><a href="#read_sfcf-298"><span class="linenos">298</span></a>                <span class="n">data_starts</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_sfcf-299"><a href="#read_sfcf-299"><span class="linenos">299</span></a>                <span class="k">for</span> <span class="n">linenumber</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">content</span><span class="p">):</span>
-</span><span id="read_sfcf-300"><a href="#read_sfcf-300"><span class="linenos">300</span></a>                    <span class="k">if</span> <span class="s2">&quot;[run]&quot;</span> <span class="ow">in</span> <span class="n">line</span><span class="p">:</span>
-</span><span id="read_sfcf-301"><a href="#read_sfcf-301"><span class="linenos">301</span></a>                        <span class="n">data_starts</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">linenumber</span><span class="p">)</span>
-</span><span id="read_sfcf-302"><a href="#read_sfcf-302"><span class="linenos">302</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">data_starts</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">-</span> <span class="n">data_starts</span><span class="p">[</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_starts</span><span class="p">))]))</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="read_sfcf-303"><a href="#read_sfcf-303"><span class="linenos">303</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Irregularities in file structure found, not all runs have the same output length&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-304"><a href="#read_sfcf-304"><span class="linenos">304</span></a>                <span class="n">chunk</span> <span class="o">=</span> <span class="n">content</span><span class="p">[:</span><span class="n">data_starts</span><span class="p">[</span><span class="mi">1</span><span class="p">]]</span>
-</span><span id="read_sfcf-305"><a href="#read_sfcf-305"><span class="linenos">305</span></a>                <span class="k">for</span> <span class="n">linenumber</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">chunk</span><span class="p">):</span>
-</span><span id="read_sfcf-306"><a href="#read_sfcf-306"><span class="linenos">306</span></a>                    <span class="k">if</span> <span class="n">line</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s2">&quot;gauge_name&quot;</span><span class="p">):</span>
-</span><span id="read_sfcf-307"><a href="#read_sfcf-307"><span class="linenos">307</span></a>                        <span class="n">gauge_line</span> <span class="o">=</span> <span class="n">linenumber</span>
-</span><span id="read_sfcf-308"><a href="#read_sfcf-308"><span class="linenos">308</span></a>                    <span class="k">elif</span> <span class="n">line</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s2">&quot;[correlator]&quot;</span><span class="p">):</span>
-</span><span id="read_sfcf-309"><a href="#read_sfcf-309"><span class="linenos">309</span></a>                        <span class="n">corr_line</span> <span class="o">=</span> <span class="n">linenumber</span>
-</span><span id="read_sfcf-310"><a href="#read_sfcf-310"><span class="linenos">310</span></a>                        <span class="n">found_pat</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
-</span><span id="read_sfcf-311"><a href="#read_sfcf-311"><span class="linenos">311</span></a>                        <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">chunk</span><span class="p">[</span><span class="n">corr_line</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span> <span class="n">corr_line</span> <span class="o">+</span> <span class="mi">6</span> <span class="o">+</span> <span class="n">b2b</span><span class="p">]:</span>
-</span><span id="read_sfcf-312"><a href="#read_sfcf-312"><span class="linenos">312</span></a>                            <span class="n">found_pat</span> <span class="o">+=</span> <span class="n">li</span>
-</span><span id="read_sfcf-313"><a href="#read_sfcf-313"><span class="linenos">313</span></a>                        <span class="k">if</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="n">pattern</span><span class="p">,</span> <span class="n">found_pat</span><span class="p">):</span>
-</span><span id="read_sfcf-314"><a href="#read_sfcf-314"><span class="linenos">314</span></a>                            <span class="n">start_read</span> <span class="o">=</span> <span class="n">corr_line</span> <span class="o">+</span> <span class="mi">7</span> <span class="o">+</span> <span class="n">b2b</span>
-</span><span id="read_sfcf-315"><a href="#read_sfcf-315"><span class="linenos">315</span></a>                            <span class="k">break</span>
-</span><span id="read_sfcf-316"><a href="#read_sfcf-316"><span class="linenos">316</span></a>                <span class="n">endline</span> <span class="o">=</span> <span class="n">corr_line</span> <span class="o">+</span> <span class="mi">6</span> <span class="o">+</span> <span class="n">b2b</span>
-</span><span id="read_sfcf-317"><a href="#read_sfcf-317"><span class="linenos">317</span></a>                <span class="k">while</span> <span class="ow">not</span> <span class="n">chunk</span><span class="p">[</span><span class="n">endline</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;</span><span class="se">\n</span><span class="s2">&quot;</span><span class="p">:</span>
-</span><span id="read_sfcf-318"><a href="#read_sfcf-318"><span class="linenos">318</span></a>                    <span class="n">endline</span> <span class="o">+=</span> <span class="mi">1</span>
-</span><span id="read_sfcf-319"><a href="#read_sfcf-319"><span class="linenos">319</span></a>                <span class="n">T</span> <span class="o">=</span> <span class="n">endline</span> <span class="o">-</span> <span class="n">start_read</span>
-</span><span id="read_sfcf-320"><a href="#read_sfcf-320"><span class="linenos">320</span></a>                <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="read_sfcf-321"><a href="#read_sfcf-321"><span class="linenos">321</span></a>                    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_sfcf-322"><a href="#read_sfcf-322"><span class="linenos">322</span></a>                    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="read_sfcf-323"><a href="#read_sfcf-323"><span class="linenos">323</span></a>                        <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
-</span><span id="read_sfcf-324"><a href="#read_sfcf-324"><span class="linenos">324</span></a>                <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="read_sfcf-325"><a href="#read_sfcf-325"><span class="linenos">325</span></a>                    <span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">data_starts</span><span class="p">)))</span>
-</span><span id="read_sfcf-326"><a href="#read_sfcf-326"><span class="linenos">326</span></a>                <span class="c1"># all other chunks should follow the same structure</span>
-</span><span id="read_sfcf-327"><a href="#read_sfcf-327"><span class="linenos">327</span></a>                <span class="k">for</span> <span class="n">cnfg</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">data_starts</span><span class="p">)):</span>
-</span><span id="read_sfcf-328"><a href="#read_sfcf-328"><span class="linenos">328</span></a>                    <span class="n">start</span> <span class="o">=</span> <span class="n">data_starts</span><span class="p">[</span><span class="n">cnfg</span><span class="p">]</span>
-</span><span id="read_sfcf-329"><a href="#read_sfcf-329"><span class="linenos">329</span></a>                    <span class="n">stop</span> <span class="o">=</span> <span class="n">start</span> <span class="o">+</span> <span class="n">data_starts</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="read_sfcf-330"><a href="#read_sfcf-330"><span class="linenos">330</span></a>                    <span class="n">chunk</span> <span class="o">=</span> <span class="n">content</span><span class="p">[</span><span class="n">start</span><span class="p">:</span><span class="n">stop</span><span class="p">]</span>
-</span><span id="read_sfcf-331"><a href="#read_sfcf-331"><span class="linenos">331</span></a>                    <span class="k">try</span><span class="p">:</span>
-</span><span id="read_sfcf-332"><a href="#read_sfcf-332"><span class="linenos">332</span></a>                        <span class="n">rep_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">chunk</span><span class="p">[</span><span class="n">gauge_line</span><span class="p">]</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">cfg_separator</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="read_sfcf-333"><a href="#read_sfcf-333"><span class="linenos">333</span></a>                    <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="read_sfcf-334"><a href="#read_sfcf-334"><span class="linenos">334</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Couldn&#39;t parse idl from directory, problem with chunk around line &quot;</span><span class="p">,</span> <span class="n">gauge_line</span><span class="p">)</span>
-</span><span id="read_sfcf-335"><a href="#read_sfcf-335"><span class="linenos">335</span></a>
-</span><span id="read_sfcf-336"><a href="#read_sfcf-336"><span class="linenos">336</span></a>                    <span class="n">found_pat</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
-</span><span id="read_sfcf-337"><a href="#read_sfcf-337"><span class="linenos">337</span></a>                    <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">chunk</span><span class="p">[</span><span class="n">corr_line</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span><span class="n">corr_line</span> <span class="o">+</span> <span class="mi">6</span> <span class="o">+</span> <span class="n">b2b</span><span class="p">]:</span>
-</span><span id="read_sfcf-338"><a href="#read_sfcf-338"><span class="linenos">338</span></a>                        <span class="n">found_pat</span> <span class="o">+=</span> <span class="n">li</span>
-</span><span id="read_sfcf-339"><a href="#read_sfcf-339"><span class="linenos">339</span></a>                    <span class="k">if</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="n">pattern</span><span class="p">,</span> <span class="n">found_pat</span><span class="p">):</span>
-</span><span id="read_sfcf-340"><a href="#read_sfcf-340"><span class="linenos">340</span></a>                        <span class="k">for</span> <span class="n">t</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">chunk</span><span class="p">[</span><span class="n">start_read</span><span class="p">:</span><span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">]):</span>
-</span><span id="read_sfcf-341"><a href="#read_sfcf-341"><span class="linenos">341</span></a>                            <span class="n">floats</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">()))</span>
-</span><span id="read_sfcf-342"><a href="#read_sfcf-342"><span class="linenos">342</span></a>                            <span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">rep</span><span class="p">][</span><span class="n">cnfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="n">im</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">-</span> <span class="n">single</span><span class="p">]</span>
-</span><span id="read_sfcf-343"><a href="#read_sfcf-343"><span class="linenos">343</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rep_idl</span><span class="p">)</span>
-</span><span id="read_sfcf-344"><a href="#read_sfcf-344"><span class="linenos">344</span></a>
-</span><span id="read_sfcf-345"><a href="#read_sfcf-345"><span class="linenos">345</span></a>    <span class="k">if</span> <span class="s2">&quot;check_configs&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="read_sfcf-346"><a href="#read_sfcf-346"><span class="linenos">346</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Checking for missing configs...&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-347"><a href="#read_sfcf-347"><span class="linenos">347</span></a>        <span class="n">che</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;check_configs&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-348"><a href="#read_sfcf-348"><span class="linenos">348</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">che</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)):</span>
-</span><span id="read_sfcf-349"><a href="#read_sfcf-349"><span class="linenos">349</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;check_configs has to be the same length as replica!&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-350"><a href="#read_sfcf-350"><span class="linenos">350</span></a>        <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)):</span>
-</span><span id="read_sfcf-351"><a href="#read_sfcf-351"><span class="linenos">351</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;checking &quot;</span> <span class="o">+</span> <span class="n">new_names</span><span class="p">[</span><span class="n">r</span><span class="p">])</span>
-</span><span id="read_sfcf-352"><a href="#read_sfcf-352"><span class="linenos">352</span></a>            <span class="n">utils</span><span class="o">.</span><span class="n">check_idl</span><span class="p">(</span><span class="n">idl</span><span class="p">[</span><span class="n">r</span><span class="p">],</span> <span class="n">che</span><span class="p">[</span><span class="n">r</span><span class="p">])</span>
-</span><span id="read_sfcf-353"><a href="#read_sfcf-353"><span class="linenos">353</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Done&quot;</span><span class="p">)</span>
-</span><span id="read_sfcf-354"><a href="#read_sfcf-354"><span class="linenos">354</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="read_sfcf-355"><a href="#read_sfcf-355"><span class="linenos">355</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
-</span><span id="read_sfcf-356"><a href="#read_sfcf-356"><span class="linenos">356</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">new_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
-</span><span id="read_sfcf-357"><a href="#read_sfcf-357"><span class="linenos">357</span></a>    <span class="k">return</span> <span class="n">result</span>
+    <a class="headerlink" href="#read_sfcf"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="read_sfcf-10"><a href="#read_sfcf-10"><span class="linenos"> 10</span></a><span class="k">def</span> <span class="nf">read_sfcf</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">quarks</span><span class="o">=</span><span class="s1">&#39;.*&#39;</span><span class="p">,</span> <span class="n">corr_type</span><span class="o">=</span><span class="s1">&#39;bi&#39;</span><span class="p">,</span> <span class="n">noffset</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">wf</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">wf2</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;1.0c&quot;</span><span class="p">,</span> <span class="n">cfg_separator</span><span class="o">=</span><span class="s2">&quot;n&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="read_sfcf-11"><a href="#read_sfcf-11"><span class="linenos"> 11</span></a>    <span class="sd">&quot;&quot;&quot;Read sfcf c format from given folder structure.</span>
+</span><span id="read_sfcf-12"><a href="#read_sfcf-12"><span class="linenos"> 12</span></a>
+</span><span id="read_sfcf-13"><a href="#read_sfcf-13"><span class="linenos"> 13</span></a><span class="sd">    Parameters</span>
+</span><span id="read_sfcf-14"><a href="#read_sfcf-14"><span class="linenos"> 14</span></a><span class="sd">    ----------</span>
+</span><span id="read_sfcf-15"><a href="#read_sfcf-15"><span class="linenos"> 15</span></a><span class="sd">    quarks: str</span>
+</span><span id="read_sfcf-16"><a href="#read_sfcf-16"><span class="linenos"> 16</span></a><span class="sd">        Label of the quarks used in the sfcf input file. e.g. &quot;quark quark&quot;</span>
+</span><span id="read_sfcf-17"><a href="#read_sfcf-17"><span class="linenos"> 17</span></a><span class="sd">        for version 0.0 this does NOT need to be given with the typical &quot; - &quot;</span>
+</span><span id="read_sfcf-18"><a href="#read_sfcf-18"><span class="linenos"> 18</span></a><span class="sd">        that is present in the output file,</span>
+</span><span id="read_sfcf-19"><a href="#read_sfcf-19"><span class="linenos"> 19</span></a><span class="sd">        this is done automatically for this version</span>
+</span><span id="read_sfcf-20"><a href="#read_sfcf-20"><span class="linenos"> 20</span></a><span class="sd">    noffset: int</span>
+</span><span id="read_sfcf-21"><a href="#read_sfcf-21"><span class="linenos"> 21</span></a><span class="sd">        Offset of the source (only relevant when wavefunctions are used)</span>
+</span><span id="read_sfcf-22"><a href="#read_sfcf-22"><span class="linenos"> 22</span></a><span class="sd">    wf: int</span>
+</span><span id="read_sfcf-23"><a href="#read_sfcf-23"><span class="linenos"> 23</span></a><span class="sd">        ID of wave function</span>
+</span><span id="read_sfcf-24"><a href="#read_sfcf-24"><span class="linenos"> 24</span></a><span class="sd">    wf2: int</span>
+</span><span id="read_sfcf-25"><a href="#read_sfcf-25"><span class="linenos"> 25</span></a><span class="sd">        ID of the second wavefunction</span>
+</span><span id="read_sfcf-26"><a href="#read_sfcf-26"><span class="linenos"> 26</span></a><span class="sd">        (only relevant for boundary-to-boundary correlation functions)</span>
+</span><span id="read_sfcf-27"><a href="#read_sfcf-27"><span class="linenos"> 27</span></a><span class="sd">    im: bool</span>
+</span><span id="read_sfcf-28"><a href="#read_sfcf-28"><span class="linenos"> 28</span></a><span class="sd">        if True, read imaginary instead of real part</span>
+</span><span id="read_sfcf-29"><a href="#read_sfcf-29"><span class="linenos"> 29</span></a><span class="sd">        of the correlation function.</span>
+</span><span id="read_sfcf-30"><a href="#read_sfcf-30"><span class="linenos"> 30</span></a><span class="sd">    corr_type : str</span>
+</span><span id="read_sfcf-31"><a href="#read_sfcf-31"><span class="linenos"> 31</span></a><span class="sd">        change between bi (boundary - inner) (default) bib (boundary - inner - boundary) and bb (boundary - boundary)</span>
+</span><span id="read_sfcf-32"><a href="#read_sfcf-32"><span class="linenos"> 32</span></a><span class="sd">        correlator types</span>
+</span><span id="read_sfcf-33"><a href="#read_sfcf-33"><span class="linenos"> 33</span></a><span class="sd">    names : list</span>
+</span><span id="read_sfcf-34"><a href="#read_sfcf-34"><span class="linenos"> 34</span></a><span class="sd">        Alternative labeling for replicas/ensembles.</span>
+</span><span id="read_sfcf-35"><a href="#read_sfcf-35"><span class="linenos"> 35</span></a><span class="sd">        Has to have the appropriate length</span>
+</span><span id="read_sfcf-36"><a href="#read_sfcf-36"><span class="linenos"> 36</span></a><span class="sd">    ens_name : str</span>
+</span><span id="read_sfcf-37"><a href="#read_sfcf-37"><span class="linenos"> 37</span></a><span class="sd">        replaces the name of the ensemble</span>
+</span><span id="read_sfcf-38"><a href="#read_sfcf-38"><span class="linenos"> 38</span></a><span class="sd">    version: str</span>
+</span><span id="read_sfcf-39"><a href="#read_sfcf-39"><span class="linenos"> 39</span></a><span class="sd">        version of SFCF, with which the measurement was done.</span>
+</span><span id="read_sfcf-40"><a href="#read_sfcf-40"><span class="linenos"> 40</span></a><span class="sd">        if the compact output option (-c) was specified,</span>
+</span><span id="read_sfcf-41"><a href="#read_sfcf-41"><span class="linenos"> 41</span></a><span class="sd">        append a &quot;c&quot; to the version (e.g. &quot;1.0c&quot;)</span>
+</span><span id="read_sfcf-42"><a href="#read_sfcf-42"><span class="linenos"> 42</span></a><span class="sd">        if the append output option (-a) was specified,</span>
+</span><span id="read_sfcf-43"><a href="#read_sfcf-43"><span class="linenos"> 43</span></a><span class="sd">        append an &quot;a&quot; to the version</span>
+</span><span id="read_sfcf-44"><a href="#read_sfcf-44"><span class="linenos"> 44</span></a><span class="sd">    cfg_separator : str</span>
+</span><span id="read_sfcf-45"><a href="#read_sfcf-45"><span class="linenos"> 45</span></a><span class="sd">        String that separates the ensemble identifier from the configuration number (default &#39;n&#39;).</span>
+</span><span id="read_sfcf-46"><a href="#read_sfcf-46"><span class="linenos"> 46</span></a><span class="sd">    replica: list</span>
+</span><span id="read_sfcf-47"><a href="#read_sfcf-47"><span class="linenos"> 47</span></a><span class="sd">        list of replica to be read, default is all</span>
+</span><span id="read_sfcf-48"><a href="#read_sfcf-48"><span class="linenos"> 48</span></a><span class="sd">    files: list</span>
+</span><span id="read_sfcf-49"><a href="#read_sfcf-49"><span class="linenos"> 49</span></a><span class="sd">        list of files to be read per replica, default is all.</span>
+</span><span id="read_sfcf-50"><a href="#read_sfcf-50"><span class="linenos"> 50</span></a><span class="sd">        for non-compact output format, hand the folders to be read here.</span>
+</span><span id="read_sfcf-51"><a href="#read_sfcf-51"><span class="linenos"> 51</span></a><span class="sd">    check_configs:</span>
+</span><span id="read_sfcf-52"><a href="#read_sfcf-52"><span class="linenos"> 52</span></a><span class="sd">        list of list of supposed configs, eg. [range(1,1000)]</span>
+</span><span id="read_sfcf-53"><a href="#read_sfcf-53"><span class="linenos"> 53</span></a><span class="sd">        for one replicum with 1000 configs</span>
+</span><span id="read_sfcf-54"><a href="#read_sfcf-54"><span class="linenos"> 54</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="read_sfcf-55"><a href="#read_sfcf-55"><span class="linenos"> 55</span></a>    <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;im&#39;</span><span class="p">):</span>
+</span><span id="read_sfcf-56"><a href="#read_sfcf-56"><span class="linenos"> 56</span></a>        <span class="n">im</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="read_sfcf-57"><a href="#read_sfcf-57"><span class="linenos"> 57</span></a>        <span class="n">part</span> <span class="o">=</span> <span class="s1">&#39;imaginary&#39;</span>
+</span><span id="read_sfcf-58"><a href="#read_sfcf-58"><span class="linenos"> 58</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-59"><a href="#read_sfcf-59"><span class="linenos"> 59</span></a>        <span class="n">im</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="read_sfcf-60"><a href="#read_sfcf-60"><span class="linenos"> 60</span></a>        <span class="n">part</span> <span class="o">=</span> <span class="s1">&#39;real&#39;</span>
+</span><span id="read_sfcf-61"><a href="#read_sfcf-61"><span class="linenos"> 61</span></a>    <span class="k">if</span> <span class="s2">&quot;replica&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_sfcf-62"><a href="#read_sfcf-62"><span class="linenos"> 62</span></a>        <span class="n">reps</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;replica&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-63"><a href="#read_sfcf-63"><span class="linenos"> 63</span></a>    <span class="k">if</span> <span class="n">corr_type</span> <span class="o">==</span> <span class="s1">&#39;bb&#39;</span><span class="p">:</span>
+</span><span id="read_sfcf-64"><a href="#read_sfcf-64"><span class="linenos"> 64</span></a>        <span class="n">b2b</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="read_sfcf-65"><a href="#read_sfcf-65"><span class="linenos"> 65</span></a>        <span class="n">single</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="read_sfcf-66"><a href="#read_sfcf-66"><span class="linenos"> 66</span></a>    <span class="k">elif</span> <span class="n">corr_type</span> <span class="o">==</span> <span class="s1">&#39;bib&#39;</span><span class="p">:</span>
+</span><span id="read_sfcf-67"><a href="#read_sfcf-67"><span class="linenos"> 67</span></a>        <span class="n">b2b</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="read_sfcf-68"><a href="#read_sfcf-68"><span class="linenos"> 68</span></a>        <span class="n">single</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="read_sfcf-69"><a href="#read_sfcf-69"><span class="linenos"> 69</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-70"><a href="#read_sfcf-70"><span class="linenos"> 70</span></a>        <span class="n">b2b</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="read_sfcf-71"><a href="#read_sfcf-71"><span class="linenos"> 71</span></a>        <span class="n">single</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="read_sfcf-72"><a href="#read_sfcf-72"><span class="linenos"> 72</span></a>    <span class="n">compact</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="read_sfcf-73"><a href="#read_sfcf-73"><span class="linenos"> 73</span></a>    <span class="n">appended</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="read_sfcf-74"><a href="#read_sfcf-74"><span class="linenos"> 74</span></a>    <span class="n">known_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;0.0&quot;</span><span class="p">,</span> <span class="s2">&quot;1.0&quot;</span><span class="p">,</span> <span class="s2">&quot;2.0&quot;</span><span class="p">,</span> <span class="s2">&quot;1.0c&quot;</span><span class="p">,</span> <span class="s2">&quot;2.0c&quot;</span><span class="p">,</span> <span class="s2">&quot;1.0a&quot;</span><span class="p">,</span> <span class="s2">&quot;2.0a&quot;</span><span class="p">]</span>
+</span><span id="read_sfcf-75"><a href="#read_sfcf-75"><span class="linenos"> 75</span></a>
+</span><span id="read_sfcf-76"><a href="#read_sfcf-76"><span class="linenos"> 76</span></a>    <span class="k">if</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">known_versions</span><span class="p">:</span>
+</span><span id="read_sfcf-77"><a href="#read_sfcf-77"><span class="linenos"> 77</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;This version is not known!&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-78"><a href="#read_sfcf-78"><span class="linenos"> 78</span></a>    <span class="k">if</span><span class="p">(</span><span class="n">version</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;c&quot;</span><span class="p">):</span>
+</span><span id="read_sfcf-79"><a href="#read_sfcf-79"><span class="linenos"> 79</span></a>        <span class="n">appended</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="read_sfcf-80"><a href="#read_sfcf-80"><span class="linenos"> 80</span></a>        <span class="n">compact</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="read_sfcf-81"><a href="#read_sfcf-81"><span class="linenos"> 81</span></a>        <span class="n">version</span> <span class="o">=</span> <span class="n">version</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="read_sfcf-82"><a href="#read_sfcf-82"><span class="linenos"> 82</span></a>    <span class="k">elif</span><span class="p">(</span><span class="n">version</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;a&quot;</span><span class="p">):</span>
+</span><span id="read_sfcf-83"><a href="#read_sfcf-83"><span class="linenos"> 83</span></a>        <span class="n">appended</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="read_sfcf-84"><a href="#read_sfcf-84"><span class="linenos"> 84</span></a>        <span class="n">compact</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="read_sfcf-85"><a href="#read_sfcf-85"><span class="linenos"> 85</span></a>        <span class="n">version</span> <span class="o">=</span> <span class="n">version</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="read_sfcf-86"><a href="#read_sfcf-86"><span class="linenos"> 86</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-87"><a href="#read_sfcf-87"><span class="linenos"> 87</span></a>        <span class="n">compact</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="read_sfcf-88"><a href="#read_sfcf-88"><span class="linenos"> 88</span></a>        <span class="n">appended</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="read_sfcf-89"><a href="#read_sfcf-89"><span class="linenos"> 89</span></a>    <span class="n">read</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="read_sfcf-90"><a href="#read_sfcf-90"><span class="linenos"> 90</span></a>    <span class="n">T</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="read_sfcf-91"><a href="#read_sfcf-91"><span class="linenos"> 91</span></a>    <span class="n">start</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="read_sfcf-92"><a href="#read_sfcf-92"><span class="linenos"> 92</span></a>    <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_sfcf-93"><a href="#read_sfcf-93"><span class="linenos"> 93</span></a>    <span class="k">if</span> <span class="s2">&quot;replica&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_sfcf-94"><a href="#read_sfcf-94"><span class="linenos"> 94</span></a>        <span class="n">ls</span> <span class="o">=</span> <span class="n">reps</span>
+</span><span id="read_sfcf-95"><a href="#read_sfcf-95"><span class="linenos"> 95</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-96"><a href="#read_sfcf-96"><span class="linenos"> 96</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
+</span><span id="read_sfcf-97"><a href="#read_sfcf-97"><span class="linenos"> 97</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
+</span><span id="read_sfcf-98"><a href="#read_sfcf-98"><span class="linenos"> 98</span></a>                <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">dirnames</span><span class="p">)</span>
+</span><span id="read_sfcf-99"><a href="#read_sfcf-99"><span class="linenos"> 99</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-100"><a href="#read_sfcf-100"><span class="linenos">100</span></a>                <span class="n">ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
+</span><span id="read_sfcf-101"><a href="#read_sfcf-101"><span class="linenos">101</span></a>            <span class="k">break</span>
+</span><span id="read_sfcf-102"><a href="#read_sfcf-102"><span class="linenos">102</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="read_sfcf-103"><a href="#read_sfcf-103"><span class="linenos">103</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
+</span><span id="read_sfcf-104"><a href="#read_sfcf-104"><span class="linenos">104</span></a>        <span class="c1"># Exclude folders with different names</span>
+</span><span id="read_sfcf-105"><a href="#read_sfcf-105"><span class="linenos">105</span></a>        <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="read_sfcf-106"><a href="#read_sfcf-106"><span class="linenos">106</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*&#39;</span><span class="p">):</span>
+</span><span id="read_sfcf-107"><a href="#read_sfcf-107"><span class="linenos">107</span></a>                <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="read_sfcf-108"><a href="#read_sfcf-108"><span class="linenos">108</span></a>
+</span><span id="read_sfcf-109"><a href="#read_sfcf-109"><span class="linenos">109</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
+</span><span id="read_sfcf-110"><a href="#read_sfcf-110"><span class="linenos">110</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_sfcf-111"><a href="#read_sfcf-111"><span class="linenos">111</span></a>            <span class="c1"># New version, to cope with ids, etc.</span>
+</span><span id="read_sfcf-112"><a href="#read_sfcf-112"><span class="linenos">112</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
+</span><span id="read_sfcf-113"><a href="#read_sfcf-113"><span class="linenos">113</span></a>        <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
+</span><span id="read_sfcf-114"><a href="#read_sfcf-114"><span class="linenos">114</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-115"><a href="#read_sfcf-115"><span class="linenos">115</span></a>        <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">([</span><span class="n">file</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">file</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">])</span> <span class="o">//</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">file</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">file</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">]))</span>
+</span><span id="read_sfcf-116"><a href="#read_sfcf-116"><span class="linenos">116</span></a>    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Read&#39;</span><span class="p">,</span> <span class="n">part</span><span class="p">,</span> <span class="s1">&#39;part of&#39;</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span>
+</span><span id="read_sfcf-117"><a href="#read_sfcf-117"><span class="linenos">117</span></a>          <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">)</span>
+</span><span id="read_sfcf-118"><a href="#read_sfcf-118"><span class="linenos">118</span></a>    <span class="k">if</span> <span class="s1">&#39;names&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_sfcf-119"><a href="#read_sfcf-119"><span class="linenos">119</span></a>        <span class="n">new_names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;names&#39;</span><span class="p">)</span>
+</span><span id="read_sfcf-120"><a href="#read_sfcf-120"><span class="linenos">120</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">new_names</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">new_names</span><span class="p">)):</span>
+</span><span id="read_sfcf-121"><a href="#read_sfcf-121"><span class="linenos">121</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;names are not unique!&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-122"><a href="#read_sfcf-122"><span class="linenos">122</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">new_names</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
+</span><span id="read_sfcf-123"><a href="#read_sfcf-123"><span class="linenos">123</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Names does not have the required length&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">)</span>
+</span><span id="read_sfcf-124"><a href="#read_sfcf-124"><span class="linenos">124</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-125"><a href="#read_sfcf-125"><span class="linenos">125</span></a>        <span class="n">new_names</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_sfcf-126"><a href="#read_sfcf-126"><span class="linenos">126</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
+</span><span id="read_sfcf-127"><a href="#read_sfcf-127"><span class="linenos">127</span></a>            <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="read_sfcf-128"><a href="#read_sfcf-128"><span class="linenos">128</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="read_sfcf-129"><a href="#read_sfcf-129"><span class="linenos">129</span></a>                    <span class="n">idx</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
+</span><span id="read_sfcf-130"><a href="#read_sfcf-130"><span class="linenos">130</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="read_sfcf-131"><a href="#read_sfcf-131"><span class="linenos">131</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-132"><a href="#read_sfcf-132"><span class="linenos">132</span></a>
+</span><span id="read_sfcf-133"><a href="#read_sfcf-133"><span class="linenos">133</span></a>                <span class="k">if</span> <span class="s1">&#39;ens_name&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_sfcf-134"><a href="#read_sfcf-134"><span class="linenos">134</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;ens_name&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="read_sfcf-135"><a href="#read_sfcf-135"><span class="linenos">135</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-136"><a href="#read_sfcf-136"><span class="linenos">136</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="read_sfcf-137"><a href="#read_sfcf-137"><span class="linenos">137</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-138"><a href="#read_sfcf-138"><span class="linenos">138</span></a>
+</span><span id="read_sfcf-139"><a href="#read_sfcf-139"><span class="linenos">139</span></a>            <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="read_sfcf-140"><a href="#read_sfcf-140"><span class="linenos">140</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">):</span>
+</span><span id="read_sfcf-141"><a href="#read_sfcf-141"><span class="linenos">141</span></a>                    <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="read_sfcf-142"><a href="#read_sfcf-142"><span class="linenos">142</span></a>            <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="read_sfcf-143"><a href="#read_sfcf-143"><span class="linenos">143</span></a>            <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="read_sfcf-144"><a href="#read_sfcf-144"><span class="linenos">144</span></a>                <span class="n">myentry</span> <span class="o">=</span> <span class="n">entry</span><span class="p">[:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">name</span><span class="p">)</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span>
+</span><span id="read_sfcf-145"><a href="#read_sfcf-145"><span class="linenos">145</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="read_sfcf-146"><a href="#read_sfcf-146"><span class="linenos">146</span></a>                    <span class="n">idx</span> <span class="o">=</span> <span class="n">myentry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
+</span><span id="read_sfcf-147"><a href="#read_sfcf-147"><span class="linenos">147</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="read_sfcf-148"><a href="#read_sfcf-148"><span class="linenos">148</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-149"><a href="#read_sfcf-149"><span class="linenos">149</span></a>
+</span><span id="read_sfcf-150"><a href="#read_sfcf-150"><span class="linenos">150</span></a>                <span class="k">if</span> <span class="s1">&#39;ens_name&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_sfcf-151"><a href="#read_sfcf-151"><span class="linenos">151</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;ens_name&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">myentry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="read_sfcf-152"><a href="#read_sfcf-152"><span class="linenos">152</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-153"><a href="#read_sfcf-153"><span class="linenos">153</span></a>                    <span class="n">new_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">myentry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">myentry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
+</span><span id="read_sfcf-154"><a href="#read_sfcf-154"><span class="linenos">154</span></a>    <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_sfcf-155"><a href="#read_sfcf-155"><span class="linenos">155</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">appended</span><span class="p">:</span>
+</span><span id="read_sfcf-156"><a href="#read_sfcf-156"><span class="linenos">156</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">ls</span><span class="p">):</span>
+</span><span id="read_sfcf-157"><a href="#read_sfcf-157"><span class="linenos">157</span></a>            <span class="n">sub_ls</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_sfcf-158"><a href="#read_sfcf-158"><span class="linenos">158</span></a>            <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_sfcf-159"><a href="#read_sfcf-159"><span class="linenos">159</span></a>                <span class="n">sub_ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-160"><a href="#read_sfcf-160"><span class="linenos">160</span></a>                <span class="n">sub_ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="read_sfcf-161"><a href="#read_sfcf-161"><span class="linenos">161</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-162"><a href="#read_sfcf-162"><span class="linenos">162</span></a>                <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span><span class="p">):</span>
+</span><span id="read_sfcf-163"><a href="#read_sfcf-163"><span class="linenos">163</span></a>                    <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
+</span><span id="read_sfcf-164"><a href="#read_sfcf-164"><span class="linenos">164</span></a>                        <span class="n">sub_ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
+</span><span id="read_sfcf-165"><a href="#read_sfcf-165"><span class="linenos">165</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-166"><a href="#read_sfcf-166"><span class="linenos">166</span></a>                        <span class="n">sub_ls</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">dirnames</span><span class="p">)</span>
+</span><span id="read_sfcf-167"><a href="#read_sfcf-167"><span class="linenos">167</span></a>                    <span class="k">break</span>
+</span><span id="read_sfcf-168"><a href="#read_sfcf-168"><span class="linenos">168</span></a>                <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
+</span><span id="read_sfcf-169"><a href="#read_sfcf-169"><span class="linenos">169</span></a>                    <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">sub_ls</span><span class="p">:</span>
+</span><span id="read_sfcf-170"><a href="#read_sfcf-170"><span class="linenos">170</span></a>                        <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*&#39;</span><span class="p">):</span>
+</span><span id="read_sfcf-171"><a href="#read_sfcf-171"><span class="linenos">171</span></a>                            <span class="n">sub_ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="read_sfcf-172"><a href="#read_sfcf-172"><span class="linenos">172</span></a>                    <span class="n">sub_ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="read_sfcf-173"><a href="#read_sfcf-173"><span class="linenos">173</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-174"><a href="#read_sfcf-174"><span class="linenos">174</span></a>                    <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">sub_ls</span><span class="p">:</span>
+</span><span id="read_sfcf-175"><a href="#read_sfcf-175"><span class="linenos">175</span></a>                        <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="s1">&#39;cfg*&#39;</span><span class="p">):</span>
+</span><span id="read_sfcf-176"><a href="#read_sfcf-176"><span class="linenos">176</span></a>                            <span class="n">sub_ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="read_sfcf-177"><a href="#read_sfcf-177"><span class="linenos">177</span></a>                    <span class="n">sub_ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">:]))</span>
+</span><span id="read_sfcf-178"><a href="#read_sfcf-178"><span class="linenos">178</span></a>            <span class="n">rep_idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_sfcf-179"><a href="#read_sfcf-179"><span class="linenos">179</span></a>            <span class="n">no_cfg</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">)</span>
+</span><span id="read_sfcf-180"><a href="#read_sfcf-180"><span class="linenos">180</span></a>            <span class="k">for</span> <span class="n">cfg</span> <span class="ow">in</span> <span class="n">sub_ls</span><span class="p">:</span>
+</span><span id="read_sfcf-181"><a href="#read_sfcf-181"><span class="linenos">181</span></a>                <span class="k">try</span><span class="p">:</span>
+</span><span id="read_sfcf-182"><a href="#read_sfcf-182"><span class="linenos">182</span></a>                    <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
+</span><span id="read_sfcf-183"><a href="#read_sfcf-183"><span class="linenos">183</span></a>                        <span class="n">rep_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">cfg</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">cfg_separator</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="read_sfcf-184"><a href="#read_sfcf-184"><span class="linenos">184</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-185"><a href="#read_sfcf-185"><span class="linenos">185</span></a>                        <span class="n">rep_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">cfg</span><span class="p">[</span><span class="mi">3</span><span class="p">:]))</span>
+</span><span id="read_sfcf-186"><a href="#read_sfcf-186"><span class="linenos">186</span></a>                <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="read_sfcf-187"><a href="#read_sfcf-187"><span class="linenos">187</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Couldn&#39;t parse idl from directroy, problem with file &quot;</span> <span class="o">+</span> <span class="n">cfg</span><span class="p">)</span>
+</span><span id="read_sfcf-188"><a href="#read_sfcf-188"><span class="linenos">188</span></a>            <span class="n">rep_idl</span><span class="o">.</span><span class="n">sort</span><span class="p">()</span>
+</span><span id="read_sfcf-189"><a href="#read_sfcf-189"><span class="linenos">189</span></a>            <span class="c1"># maybe there is a better way to print the idls</span>
+</span><span id="read_sfcf-190"><a href="#read_sfcf-190"><span class="linenos">190</span></a>            <span class="nb">print</span><span class="p">(</span><span class="n">item</span><span class="p">,</span> <span class="s1">&#39;:&#39;</span><span class="p">,</span> <span class="n">no_cfg</span><span class="p">,</span> <span class="s1">&#39; configurations&#39;</span><span class="p">)</span>
+</span><span id="read_sfcf-191"><a href="#read_sfcf-191"><span class="linenos">191</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rep_idl</span><span class="p">)</span>
+</span><span id="read_sfcf-192"><a href="#read_sfcf-192"><span class="linenos">192</span></a>            <span class="c1"># here we have found all the files we need to look into.</span>
+</span><span id="read_sfcf-193"><a href="#read_sfcf-193"><span class="linenos">193</span></a>            <span class="k">if</span> <span class="n">i</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_sfcf-194"><a href="#read_sfcf-194"><span class="linenos">194</span></a>                <span class="c1"># here, we want to find the place within the file,</span>
+</span><span id="read_sfcf-195"><a href="#read_sfcf-195"><span class="linenos">195</span></a>                <span class="c1"># where the correlator we need is stored.</span>
+</span><span id="read_sfcf-196"><a href="#read_sfcf-196"><span class="linenos">196</span></a>                <span class="c1"># to do so, the pattern needed is put together</span>
+</span><span id="read_sfcf-197"><a href="#read_sfcf-197"><span class="linenos">197</span></a>                <span class="c1"># from the input values</span>
+</span><span id="read_sfcf-198"><a href="#read_sfcf-198"><span class="linenos">198</span></a>                <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;0.0&quot;</span><span class="p">:</span>
+</span><span id="read_sfcf-199"><a href="#read_sfcf-199"><span class="linenos">199</span></a>                    <span class="n">pattern</span> <span class="o">=</span> <span class="s2">&quot;# &quot;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s2">&quot; : offset &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noffset</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;, wf &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf</span><span class="p">)</span>
+</span><span id="read_sfcf-200"><a href="#read_sfcf-200"><span class="linenos">200</span></a>                    <span class="c1"># if b2b, a second wf is needed</span>
+</span><span id="read_sfcf-201"><a href="#read_sfcf-201"><span class="linenos">201</span></a>                    <span class="k">if</span> <span class="n">b2b</span><span class="p">:</span>
+</span><span id="read_sfcf-202"><a href="#read_sfcf-202"><span class="linenos">202</span></a>                        <span class="n">pattern</span> <span class="o">+=</span> <span class="s2">&quot;, wf_2 &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf2</span><span class="p">)</span>
+</span><span id="read_sfcf-203"><a href="#read_sfcf-203"><span class="linenos">203</span></a>                    <span class="n">qs</span> <span class="o">=</span> <span class="n">quarks</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot; &quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-204"><a href="#read_sfcf-204"><span class="linenos">204</span></a>                    <span class="n">pattern</span> <span class="o">+=</span> <span class="s2">&quot; : &quot;</span> <span class="o">+</span> <span class="n">qs</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s2">&quot; - &quot;</span> <span class="o">+</span> <span class="n">qs</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="read_sfcf-205"><a href="#read_sfcf-205"><span class="linenos">205</span></a>                    <span class="n">file</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-206"><a href="#read_sfcf-206"><span class="linenos">206</span></a>                    <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">file</span><span class="p">):</span>
+</span><span id="read_sfcf-207"><a href="#read_sfcf-207"><span class="linenos">207</span></a>                        <span class="k">if</span> <span class="n">read</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="ow">not</span> <span class="n">line</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&gt;</span> <span class="n">start</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_sfcf-208"><a href="#read_sfcf-208"><span class="linenos">208</span></a>                            <span class="k">break</span>
+</span><span id="read_sfcf-209"><a href="#read_sfcf-209"><span class="linenos">209</span></a>                        <span class="k">if</span> <span class="n">read</span> <span class="o">==</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&gt;=</span> <span class="n">start</span><span class="p">:</span>
+</span><span id="read_sfcf-210"><a href="#read_sfcf-210"><span class="linenos">210</span></a>                            <span class="n">T</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="read_sfcf-211"><a href="#read_sfcf-211"><span class="linenos">211</span></a>                        <span class="k">if</span> <span class="n">pattern</span> <span class="ow">in</span> <span class="n">line</span><span class="p">:</span>
+</span><span id="read_sfcf-212"><a href="#read_sfcf-212"><span class="linenos">212</span></a>                            <span class="n">read</span> <span class="o">=</span> <span class="mi">1</span>
+</span><span id="read_sfcf-213"><a href="#read_sfcf-213"><span class="linenos">213</span></a>                            <span class="n">start</span> <span class="o">=</span> <span class="n">k</span> <span class="o">+</span> <span class="mi">1</span>
+</span><span id="read_sfcf-214"><a href="#read_sfcf-214"><span class="linenos">214</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">T</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot; entries found.&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-215"><a href="#read_sfcf-215"><span class="linenos">215</span></a>                    <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="read_sfcf-216"><a href="#read_sfcf-216"><span class="linenos">216</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-217"><a href="#read_sfcf-217"><span class="linenos">217</span></a>                    <span class="n">pattern</span> <span class="o">=</span> <span class="s1">&#39;name      &#39;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">quarks    &#39;</span> <span class="o">+</span> <span class="n">quarks</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">offset    &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noffset</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf        &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf</span><span class="p">)</span>
+</span><span id="read_sfcf-218"><a href="#read_sfcf-218"><span class="linenos">218</span></a>                    <span class="k">if</span> <span class="n">b2b</span><span class="p">:</span>
+</span><span id="read_sfcf-219"><a href="#read_sfcf-219"><span class="linenos">219</span></a>                        <span class="n">pattern</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf_2      &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf2</span><span class="p">)</span>
+</span><span id="read_sfcf-220"><a href="#read_sfcf-220"><span class="linenos">220</span></a>                    <span class="c1"># and the file is parsed through to find the pattern</span>
+</span><span id="read_sfcf-221"><a href="#read_sfcf-221"><span class="linenos">221</span></a>                    <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
+</span><span id="read_sfcf-222"><a href="#read_sfcf-222"><span class="linenos">222</span></a>                        <span class="n">file</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-223"><a href="#read_sfcf-223"><span class="linenos">223</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-224"><a href="#read_sfcf-224"><span class="linenos">224</span></a>                        <span class="c1"># for non-compactified versions of the files</span>
+</span><span id="read_sfcf-225"><a href="#read_sfcf-225"><span class="linenos">225</span></a>                        <span class="n">file</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">,</span> <span class="s2">&quot;r&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-226"><a href="#read_sfcf-226"><span class="linenos">226</span></a>
+</span><span id="read_sfcf-227"><a href="#read_sfcf-227"><span class="linenos">227</span></a>                    <span class="n">content</span> <span class="o">=</span> <span class="n">file</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
+</span><span id="read_sfcf-228"><a href="#read_sfcf-228"><span class="linenos">228</span></a>                    <span class="n">match</span> <span class="o">=</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="n">pattern</span><span class="p">,</span> <span class="n">content</span><span class="p">)</span>
+</span><span id="read_sfcf-229"><a href="#read_sfcf-229"><span class="linenos">229</span></a>                    <span class="k">if</span> <span class="n">match</span><span class="p">:</span>
+</span><span id="read_sfcf-230"><a href="#read_sfcf-230"><span class="linenos">230</span></a>                        <span class="n">start_read</span> <span class="o">=</span> <span class="n">content</span><span class="o">.</span><span class="n">count</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">match</span><span class="o">.</span><span class="n">start</span><span class="p">())</span> <span class="o">+</span> <span class="mi">5</span> <span class="o">+</span> <span class="n">b2b</span>
+</span><span id="read_sfcf-231"><a href="#read_sfcf-231"><span class="linenos">231</span></a>                        <span class="n">end_match</span> <span class="o">=</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\n\s*\n&#39;</span><span class="p">,</span> <span class="n">content</span><span class="p">[</span><span class="n">match</span><span class="o">.</span><span class="n">start</span><span class="p">():])</span>
+</span><span id="read_sfcf-232"><a href="#read_sfcf-232"><span class="linenos">232</span></a>                        <span class="n">T</span> <span class="o">=</span> <span class="n">content</span><span class="p">[</span><span class="n">match</span><span class="o">.</span><span class="n">start</span><span class="p">():]</span><span class="o">.</span><span class="n">count</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">end_match</span><span class="o">.</span><span class="n">start</span><span class="p">())</span> <span class="o">-</span> <span class="mi">4</span> <span class="o">-</span> <span class="n">b2b</span>
+</span><span id="read_sfcf-233"><a href="#read_sfcf-233"><span class="linenos">233</span></a>                        <span class="k">assert</span> <span class="n">T</span> <span class="o">&gt;</span> <span class="mi">0</span>
+</span><span id="read_sfcf-234"><a href="#read_sfcf-234"><span class="linenos">234</span></a>                        <span class="nb">print</span><span class="p">(</span><span class="n">T</span><span class="p">,</span> <span class="s1">&#39;entries, starting to read in line&#39;</span><span class="p">,</span> <span class="n">start_read</span><span class="p">)</span>
+</span><span id="read_sfcf-235"><a href="#read_sfcf-235"><span class="linenos">235</span></a>                        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="read_sfcf-236"><a href="#read_sfcf-236"><span class="linenos">236</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-237"><a href="#read_sfcf-237"><span class="linenos">237</span></a>                        <span class="n">file</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+</span><span id="read_sfcf-238"><a href="#read_sfcf-238"><span class="linenos">238</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Correlator with pattern</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="n">pattern</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">not found.&#39;</span><span class="p">)</span>
+</span><span id="read_sfcf-239"><a href="#read_sfcf-239"><span class="linenos">239</span></a>
+</span><span id="read_sfcf-240"><a href="#read_sfcf-240"><span class="linenos">240</span></a>                <span class="c1"># we found where the correlator</span>
+</span><span id="read_sfcf-241"><a href="#read_sfcf-241"><span class="linenos">241</span></a>                <span class="c1"># that is to be read is in the files</span>
+</span><span id="read_sfcf-242"><a href="#read_sfcf-242"><span class="linenos">242</span></a>                <span class="c1"># after preparing the datastructure</span>
+</span><span id="read_sfcf-243"><a href="#read_sfcf-243"><span class="linenos">243</span></a>                <span class="c1"># the correlators get parsed into...</span>
+</span><span id="read_sfcf-244"><a href="#read_sfcf-244"><span class="linenos">244</span></a>                <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_sfcf-245"><a href="#read_sfcf-245"><span class="linenos">245</span></a>                <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="read_sfcf-246"><a href="#read_sfcf-246"><span class="linenos">246</span></a>                    <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="read_sfcf-247"><a href="#read_sfcf-247"><span class="linenos">247</span></a>
+</span><span id="read_sfcf-248"><a href="#read_sfcf-248"><span class="linenos">248</span></a>            <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="read_sfcf-249"><a href="#read_sfcf-249"><span class="linenos">249</span></a>                <span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">no_cfg</span><span class="p">))</span>
+</span><span id="read_sfcf-250"><a href="#read_sfcf-250"><span class="linenos">250</span></a>            <span class="k">if</span> <span class="n">compact</span><span class="p">:</span>
+</span><span id="read_sfcf-251"><a href="#read_sfcf-251"><span class="linenos">251</span></a>                <span class="k">for</span> <span class="n">cfg</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">no_cfg</span><span class="p">):</span>
+</span><span id="read_sfcf-252"><a href="#read_sfcf-252"><span class="linenos">252</span></a>                    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="n">cfg</span><span class="p">])</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="read_sfcf-253"><a href="#read_sfcf-253"><span class="linenos">253</span></a>                        <span class="n">lines</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">readlines</span><span class="p">()</span>
+</span><span id="read_sfcf-254"><a href="#read_sfcf-254"><span class="linenos">254</span></a>                        <span class="c1"># check, if the correlator is in fact</span>
+</span><span id="read_sfcf-255"><a href="#read_sfcf-255"><span class="linenos">255</span></a>                        <span class="c1"># printed completely</span>
+</span><span id="read_sfcf-256"><a href="#read_sfcf-256"><span class="linenos">256</span></a>                        <span class="k">if</span><span class="p">(</span><span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span> <span class="o">&gt;</span> <span class="nb">len</span><span class="p">(</span><span class="n">lines</span><span class="p">)):</span>
+</span><span id="read_sfcf-257"><a href="#read_sfcf-257"><span class="linenos">257</span></a>                            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;EOF before end of correlator data! Maybe &quot;</span> <span class="o">+</span> <span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">sub_ls</span><span class="p">[</span><span class="n">cfg</span><span class="p">]</span> <span class="o">+</span> <span class="s2">&quot; is corrupted?&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-258"><a href="#read_sfcf-258"><span class="linenos">258</span></a>                        <span class="c1"># and start to read the correlator.</span>
+</span><span id="read_sfcf-259"><a href="#read_sfcf-259"><span class="linenos">259</span></a>                        <span class="c1"># the range here is chosen like this,</span>
+</span><span id="read_sfcf-260"><a href="#read_sfcf-260"><span class="linenos">260</span></a>                        <span class="c1"># since this allows for implementing</span>
+</span><span id="read_sfcf-261"><a href="#read_sfcf-261"><span class="linenos">261</span></a>                        <span class="c1"># a security check for every read correlator later...</span>
+</span><span id="read_sfcf-262"><a href="#read_sfcf-262"><span class="linenos">262</span></a>                        <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">start_read</span> <span class="o">-</span> <span class="mi">6</span><span class="p">,</span> <span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">):</span>
+</span><span id="read_sfcf-263"><a href="#read_sfcf-263"><span class="linenos">263</span></a>                            <span class="k">if</span> <span class="n">k</span> <span class="o">==</span> <span class="n">start_read</span> <span class="o">-</span> <span class="mi">5</span> <span class="o">-</span> <span class="n">b2b</span><span class="p">:</span>
+</span><span id="read_sfcf-264"><a href="#read_sfcf-264"><span class="linenos">264</span></a>                                <span class="k">if</span> <span class="n">lines</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span> <span class="o">!=</span> <span class="s1">&#39;name      &#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">:</span>
+</span><span id="read_sfcf-265"><a href="#read_sfcf-265"><span class="linenos">265</span></a>                                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Wrong format&#39;</span><span class="p">,</span> <span class="n">sub_ls</span><span class="p">[</span><span class="n">cfg</span><span class="p">])</span>
+</span><span id="read_sfcf-266"><a href="#read_sfcf-266"><span class="linenos">266</span></a>                            <span class="k">if</span><span class="p">(</span><span class="n">k</span> <span class="o">&gt;=</span> <span class="n">start_read</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&lt;</span> <span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">):</span>
+</span><span id="read_sfcf-267"><a href="#read_sfcf-267"><span class="linenos">267</span></a>                                <span class="n">floats</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="n">lines</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">split</span><span class="p">()))</span>
+</span><span id="read_sfcf-268"><a href="#read_sfcf-268"><span class="linenos">268</span></a>                                <span class="n">deltas</span><span class="p">[</span><span class="n">k</span> <span class="o">-</span> <span class="n">start_read</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">cfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">:][</span><span class="n">im</span><span class="p">]</span>
+</span><span id="read_sfcf-269"><a href="#read_sfcf-269"><span class="linenos">269</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-270"><a href="#read_sfcf-270"><span class="linenos">270</span></a>                <span class="k">for</span> <span class="n">cnfg</span><span class="p">,</span> <span class="n">subitem</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">sub_ls</span><span class="p">):</span>
+</span><span id="read_sfcf-271"><a href="#read_sfcf-271"><span class="linenos">271</span></a>                    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">item</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">subitem</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="read_sfcf-272"><a href="#read_sfcf-272"><span class="linenos">272</span></a>                        <span class="c1"># since the non-compatified files</span>
+</span><span id="read_sfcf-273"><a href="#read_sfcf-273"><span class="linenos">273</span></a>                        <span class="c1"># are typically not so long,</span>
+</span><span id="read_sfcf-274"><a href="#read_sfcf-274"><span class="linenos">274</span></a>                        <span class="c1"># we can iterate over the whole file.</span>
+</span><span id="read_sfcf-275"><a href="#read_sfcf-275"><span class="linenos">275</span></a>                        <span class="c1"># here one can also implement the chekc from above.</span>
+</span><span id="read_sfcf-276"><a href="#read_sfcf-276"><span class="linenos">276</span></a>                        <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">fp</span><span class="p">):</span>
+</span><span id="read_sfcf-277"><a href="#read_sfcf-277"><span class="linenos">277</span></a>                            <span class="k">if</span><span class="p">(</span><span class="n">k</span> <span class="o">&gt;=</span> <span class="n">start_read</span> <span class="ow">and</span> <span class="n">k</span> <span class="o">&lt;</span> <span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">):</span>
+</span><span id="read_sfcf-278"><a href="#read_sfcf-278"><span class="linenos">278</span></a>                                <span class="n">floats</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">()))</span>
+</span><span id="read_sfcf-279"><a href="#read_sfcf-279"><span class="linenos">279</span></a>                                <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;0.0&quot;</span><span class="p">:</span>
+</span><span id="read_sfcf-280"><a href="#read_sfcf-280"><span class="linenos">280</span></a>                                    <span class="n">deltas</span><span class="p">[</span><span class="n">k</span> <span class="o">-</span> <span class="n">start</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">cnfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="n">im</span> <span class="o">-</span> <span class="n">single</span><span class="p">]</span>
+</span><span id="read_sfcf-281"><a href="#read_sfcf-281"><span class="linenos">281</span></a>                                <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-282"><a href="#read_sfcf-282"><span class="linenos">282</span></a>                                    <span class="n">deltas</span><span class="p">[</span><span class="n">k</span> <span class="o">-</span> <span class="n">start_read</span><span class="p">][</span><span class="n">i</span><span class="p">][</span><span class="n">cnfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="mi">1</span> <span class="o">+</span> <span class="n">im</span> <span class="o">-</span> <span class="n">single</span><span class="p">]</span>
+</span><span id="read_sfcf-283"><a href="#read_sfcf-283"><span class="linenos">283</span></a>
+</span><span id="read_sfcf-284"><a href="#read_sfcf-284"><span class="linenos">284</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-285"><a href="#read_sfcf-285"><span class="linenos">285</span></a>        <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_sfcf-286"><a href="#read_sfcf-286"><span class="linenos">286</span></a>            <span class="n">ls</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-287"><a href="#read_sfcf-287"><span class="linenos">287</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="read_sfcf-288"><a href="#read_sfcf-288"><span class="linenos">288</span></a>            <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
+</span><span id="read_sfcf-289"><a href="#read_sfcf-289"><span class="linenos">289</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.&#39;</span> <span class="o">+</span> <span class="n">name</span><span class="p">):</span>
+</span><span id="read_sfcf-290"><a href="#read_sfcf-290"><span class="linenos">290</span></a>                    <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
+</span><span id="read_sfcf-291"><a href="#read_sfcf-291"><span class="linenos">291</span></a>                <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="read_sfcf-292"><a href="#read_sfcf-292"><span class="linenos">292</span></a>        <span class="n">pattern</span> <span class="o">=</span> <span class="s1">&#39;name      &#39;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">quarks    &#39;</span> <span class="o">+</span> <span class="n">quarks</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">offset    &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">noffset</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf        &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf</span><span class="p">)</span>
+</span><span id="read_sfcf-293"><a href="#read_sfcf-293"><span class="linenos">293</span></a>        <span class="k">if</span> <span class="n">b2b</span><span class="p">:</span>
+</span><span id="read_sfcf-294"><a href="#read_sfcf-294"><span class="linenos">294</span></a>            <span class="n">pattern</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">wf_2      &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">wf2</span><span class="p">)</span>
+</span><span id="read_sfcf-295"><a href="#read_sfcf-295"><span class="linenos">295</span></a>        <span class="k">for</span> <span class="n">rep</span><span class="p">,</span> <span class="n">file</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">ls</span><span class="p">):</span>
+</span><span id="read_sfcf-296"><a href="#read_sfcf-296"><span class="linenos">296</span></a>            <span class="n">rep_idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_sfcf-297"><a href="#read_sfcf-297"><span class="linenos">297</span></a>            <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
+</span><span id="read_sfcf-298"><a href="#read_sfcf-298"><span class="linenos">298</span></a>                <span class="n">content</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">readlines</span><span class="p">()</span>
+</span><span id="read_sfcf-299"><a href="#read_sfcf-299"><span class="linenos">299</span></a>                <span class="n">data_starts</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_sfcf-300"><a href="#read_sfcf-300"><span class="linenos">300</span></a>                <span class="k">for</span> <span class="n">linenumber</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">content</span><span class="p">):</span>
+</span><span id="read_sfcf-301"><a href="#read_sfcf-301"><span class="linenos">301</span></a>                    <span class="k">if</span> <span class="s2">&quot;[run]&quot;</span> <span class="ow">in</span> <span class="n">line</span><span class="p">:</span>
+</span><span id="read_sfcf-302"><a href="#read_sfcf-302"><span class="linenos">302</span></a>                        <span class="n">data_starts</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">linenumber</span><span class="p">)</span>
+</span><span id="read_sfcf-303"><a href="#read_sfcf-303"><span class="linenos">303</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">data_starts</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">-</span> <span class="n">data_starts</span><span class="p">[</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">data_starts</span><span class="p">))]))</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="read_sfcf-304"><a href="#read_sfcf-304"><span class="linenos">304</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Irregularities in file structure found, not all runs have the same output length&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-305"><a href="#read_sfcf-305"><span class="linenos">305</span></a>                <span class="n">chunk</span> <span class="o">=</span> <span class="n">content</span><span class="p">[:</span><span class="n">data_starts</span><span class="p">[</span><span class="mi">1</span><span class="p">]]</span>
+</span><span id="read_sfcf-306"><a href="#read_sfcf-306"><span class="linenos">306</span></a>                <span class="k">for</span> <span class="n">linenumber</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">chunk</span><span class="p">):</span>
+</span><span id="read_sfcf-307"><a href="#read_sfcf-307"><span class="linenos">307</span></a>                    <span class="k">if</span> <span class="n">line</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s2">&quot;gauge_name&quot;</span><span class="p">):</span>
+</span><span id="read_sfcf-308"><a href="#read_sfcf-308"><span class="linenos">308</span></a>                        <span class="n">gauge_line</span> <span class="o">=</span> <span class="n">linenumber</span>
+</span><span id="read_sfcf-309"><a href="#read_sfcf-309"><span class="linenos">309</span></a>                    <span class="k">elif</span> <span class="n">line</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="s2">&quot;[correlator]&quot;</span><span class="p">):</span>
+</span><span id="read_sfcf-310"><a href="#read_sfcf-310"><span class="linenos">310</span></a>                        <span class="n">corr_line</span> <span class="o">=</span> <span class="n">linenumber</span>
+</span><span id="read_sfcf-311"><a href="#read_sfcf-311"><span class="linenos">311</span></a>                        <span class="n">found_pat</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
+</span><span id="read_sfcf-312"><a href="#read_sfcf-312"><span class="linenos">312</span></a>                        <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">chunk</span><span class="p">[</span><span class="n">corr_line</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span> <span class="n">corr_line</span> <span class="o">+</span> <span class="mi">6</span> <span class="o">+</span> <span class="n">b2b</span><span class="p">]:</span>
+</span><span id="read_sfcf-313"><a href="#read_sfcf-313"><span class="linenos">313</span></a>                            <span class="n">found_pat</span> <span class="o">+=</span> <span class="n">li</span>
+</span><span id="read_sfcf-314"><a href="#read_sfcf-314"><span class="linenos">314</span></a>                        <span class="k">if</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="n">pattern</span><span class="p">,</span> <span class="n">found_pat</span><span class="p">):</span>
+</span><span id="read_sfcf-315"><a href="#read_sfcf-315"><span class="linenos">315</span></a>                            <span class="n">start_read</span> <span class="o">=</span> <span class="n">corr_line</span> <span class="o">+</span> <span class="mi">7</span> <span class="o">+</span> <span class="n">b2b</span>
+</span><span id="read_sfcf-316"><a href="#read_sfcf-316"><span class="linenos">316</span></a>                            <span class="k">break</span>
+</span><span id="read_sfcf-317"><a href="#read_sfcf-317"><span class="linenos">317</span></a>                <span class="n">endline</span> <span class="o">=</span> <span class="n">corr_line</span> <span class="o">+</span> <span class="mi">6</span> <span class="o">+</span> <span class="n">b2b</span>
+</span><span id="read_sfcf-318"><a href="#read_sfcf-318"><span class="linenos">318</span></a>                <span class="k">while</span> <span class="ow">not</span> <span class="n">chunk</span><span class="p">[</span><span class="n">endline</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;</span><span class="se">\n</span><span class="s2">&quot;</span><span class="p">:</span>
+</span><span id="read_sfcf-319"><a href="#read_sfcf-319"><span class="linenos">319</span></a>                    <span class="n">endline</span> <span class="o">+=</span> <span class="mi">1</span>
+</span><span id="read_sfcf-320"><a href="#read_sfcf-320"><span class="linenos">320</span></a>                <span class="n">T</span> <span class="o">=</span> <span class="n">endline</span> <span class="o">-</span> <span class="n">start_read</span>
+</span><span id="read_sfcf-321"><a href="#read_sfcf-321"><span class="linenos">321</span></a>                <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="read_sfcf-322"><a href="#read_sfcf-322"><span class="linenos">322</span></a>                    <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_sfcf-323"><a href="#read_sfcf-323"><span class="linenos">323</span></a>                    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="read_sfcf-324"><a href="#read_sfcf-324"><span class="linenos">324</span></a>                        <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
+</span><span id="read_sfcf-325"><a href="#read_sfcf-325"><span class="linenos">325</span></a>                <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="read_sfcf-326"><a href="#read_sfcf-326"><span class="linenos">326</span></a>                    <span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">data_starts</span><span class="p">)))</span>
+</span><span id="read_sfcf-327"><a href="#read_sfcf-327"><span class="linenos">327</span></a>                <span class="c1"># all other chunks should follow the same structure</span>
+</span><span id="read_sfcf-328"><a href="#read_sfcf-328"><span class="linenos">328</span></a>                <span class="k">for</span> <span class="n">cnfg</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">data_starts</span><span class="p">)):</span>
+</span><span id="read_sfcf-329"><a href="#read_sfcf-329"><span class="linenos">329</span></a>                    <span class="n">start</span> <span class="o">=</span> <span class="n">data_starts</span><span class="p">[</span><span class="n">cnfg</span><span class="p">]</span>
+</span><span id="read_sfcf-330"><a href="#read_sfcf-330"><span class="linenos">330</span></a>                    <span class="n">stop</span> <span class="o">=</span> <span class="n">start</span> <span class="o">+</span> <span class="n">data_starts</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="read_sfcf-331"><a href="#read_sfcf-331"><span class="linenos">331</span></a>                    <span class="n">chunk</span> <span class="o">=</span> <span class="n">content</span><span class="p">[</span><span class="n">start</span><span class="p">:</span><span class="n">stop</span><span class="p">]</span>
+</span><span id="read_sfcf-332"><a href="#read_sfcf-332"><span class="linenos">332</span></a>                    <span class="k">try</span><span class="p">:</span>
+</span><span id="read_sfcf-333"><a href="#read_sfcf-333"><span class="linenos">333</span></a>                        <span class="n">rep_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">chunk</span><span class="p">[</span><span class="n">gauge_line</span><span class="p">]</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">cfg_separator</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="read_sfcf-334"><a href="#read_sfcf-334"><span class="linenos">334</span></a>                    <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="read_sfcf-335"><a href="#read_sfcf-335"><span class="linenos">335</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Couldn&#39;t parse idl from directory, problem with chunk around line &quot;</span><span class="p">,</span> <span class="n">gauge_line</span><span class="p">)</span>
+</span><span id="read_sfcf-336"><a href="#read_sfcf-336"><span class="linenos">336</span></a>
+</span><span id="read_sfcf-337"><a href="#read_sfcf-337"><span class="linenos">337</span></a>                    <span class="n">found_pat</span> <span class="o">=</span> <span class="s2">&quot;&quot;</span>
+</span><span id="read_sfcf-338"><a href="#read_sfcf-338"><span class="linenos">338</span></a>                    <span class="k">for</span> <span class="n">li</span> <span class="ow">in</span> <span class="n">chunk</span><span class="p">[</span><span class="n">corr_line</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span><span class="n">corr_line</span> <span class="o">+</span> <span class="mi">6</span> <span class="o">+</span> <span class="n">b2b</span><span class="p">]:</span>
+</span><span id="read_sfcf-339"><a href="#read_sfcf-339"><span class="linenos">339</span></a>                        <span class="n">found_pat</span> <span class="o">+=</span> <span class="n">li</span>
+</span><span id="read_sfcf-340"><a href="#read_sfcf-340"><span class="linenos">340</span></a>                    <span class="k">if</span> <span class="n">re</span><span class="o">.</span><span class="n">search</span><span class="p">(</span><span class="n">pattern</span><span class="p">,</span> <span class="n">found_pat</span><span class="p">):</span>
+</span><span id="read_sfcf-341"><a href="#read_sfcf-341"><span class="linenos">341</span></a>                        <span class="k">for</span> <span class="n">t</span><span class="p">,</span> <span class="n">line</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">chunk</span><span class="p">[</span><span class="n">start_read</span><span class="p">:</span><span class="n">start_read</span> <span class="o">+</span> <span class="n">T</span><span class="p">]):</span>
+</span><span id="read_sfcf-342"><a href="#read_sfcf-342"><span class="linenos">342</span></a>                            <span class="n">floats</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">map</span><span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">()))</span>
+</span><span id="read_sfcf-343"><a href="#read_sfcf-343"><span class="linenos">343</span></a>                            <span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">][</span><span class="n">rep</span><span class="p">][</span><span class="n">cnfg</span><span class="p">]</span> <span class="o">=</span> <span class="n">floats</span><span class="p">[</span><span class="n">im</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">-</span> <span class="n">single</span><span class="p">]</span>
+</span><span id="read_sfcf-344"><a href="#read_sfcf-344"><span class="linenos">344</span></a>            <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">rep_idl</span><span class="p">)</span>
+</span><span id="read_sfcf-345"><a href="#read_sfcf-345"><span class="linenos">345</span></a>
+</span><span id="read_sfcf-346"><a href="#read_sfcf-346"><span class="linenos">346</span></a>    <span class="k">if</span> <span class="s2">&quot;check_configs&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="read_sfcf-347"><a href="#read_sfcf-347"><span class="linenos">347</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Checking for missing configs...&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-348"><a href="#read_sfcf-348"><span class="linenos">348</span></a>        <span class="n">che</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;check_configs&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-349"><a href="#read_sfcf-349"><span class="linenos">349</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">che</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)):</span>
+</span><span id="read_sfcf-350"><a href="#read_sfcf-350"><span class="linenos">350</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;check_configs has to be the same length as replica!&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-351"><a href="#read_sfcf-351"><span class="linenos">351</span></a>        <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)):</span>
+</span><span id="read_sfcf-352"><a href="#read_sfcf-352"><span class="linenos">352</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;checking &quot;</span> <span class="o">+</span> <span class="n">new_names</span><span class="p">[</span><span class="n">r</span><span class="p">])</span>
+</span><span id="read_sfcf-353"><a href="#read_sfcf-353"><span class="linenos">353</span></a>            <span class="n">utils</span><span class="o">.</span><span class="n">check_idl</span><span class="p">(</span><span class="n">idl</span><span class="p">[</span><span class="n">r</span><span class="p">],</span> <span class="n">che</span><span class="p">[</span><span class="n">r</span><span class="p">])</span>
+</span><span id="read_sfcf-354"><a href="#read_sfcf-354"><span class="linenos">354</span></a>        <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Done&quot;</span><span class="p">)</span>
+</span><span id="read_sfcf-355"><a href="#read_sfcf-355"><span class="linenos">355</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="read_sfcf-356"><a href="#read_sfcf-356"><span class="linenos">356</span></a>    <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">T</span><span class="p">):</span>
+</span><span id="read_sfcf-357"><a href="#read_sfcf-357"><span class="linenos">357</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">new_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
+</span><span id="read_sfcf-358"><a href="#read_sfcf-358"><span class="linenos">358</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Read sfcf c format from given folder structure.</p>
 
diff --git a/docs/pyerrors/input/utils.html b/docs/pyerrors/input/utils.html
index 94fb12df..16d7e6b5 100644
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+++ b/docs/pyerrors/input/utils.html
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     <title>pyerrors.input.utils API documentation</title>
 
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@@ -69,71 +69,72 @@
                         <div class="docstring"><p>Utilities for the input</p>
 </div>
 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos"> 0</span></a><span class="sd">&quot;&quot;&quot;Utilities for the input&quot;&quot;&quot;</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a>
+                        <input id="utils-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="utils-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a><span class="sd">&quot;&quot;&quot;Utilities for the input&quot;&quot;&quot;</span>
 </span><span id="L-2"><a href="#L-2"><span class="linenos"> 2</span></a>
-</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a><span class="k">def</span> <span class="nf">check_idl</span><span class="p">(</span><span class="n">idl</span><span class="p">,</span> <span class="n">che</span><span class="p">):</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a>    <span class="sd">&quot;&quot;&quot;Checks if list of configurations is contained in an idl</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos"> 5</span></a>
-</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a><span class="sd">    Parameters</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a><span class="sd">    ----------</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a><span class="sd">    idl : range or list</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a><span class="sd">        idl of the current replicum</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos">10</span></a><span class="sd">    che : list</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos">11</span></a><span class="sd">        list of configurations to be checked against</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos">12</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos">13</span></a>    <span class="n">missing</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos">14</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="n">che</span><span class="p">:</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos">15</span></a>        <span class="k">if</span> <span class="n">c</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">:</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos">16</span></a>            <span class="n">missing</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">c</span><span class="p">)</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos">17</span></a>    <span class="c1"># print missing configurations such that it can directly be parsed to slurm terminal</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos">18</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">missing</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span><span class="p">):</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos">19</span></a>        <span class="nb">print</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">missing</span><span class="p">),</span> <span class="s2">&quot;configs missing&quot;</span><span class="p">)</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos">20</span></a>        <span class="n">miss_str</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">missing</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos">21</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">missing</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos">22</span></a>            <span class="n">miss_str</span> <span class="o">+=</span> <span class="s2">&quot;,&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos">23</span></a>        <span class="nb">print</span><span class="p">(</span><span class="n">miss_str</span><span class="p">)</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a>
+</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a><span class="k">def</span> <span class="nf">check_idl</span><span class="p">(</span><span class="n">idl</span><span class="p">,</span> <span class="n">che</span><span class="p">):</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos"> 5</span></a>    <span class="sd">&quot;&quot;&quot;Checks if list of configurations is contained in an idl</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a>
+</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a><span class="sd">    Parameters</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a><span class="sd">    ----------</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a><span class="sd">    idl : range or list</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos">10</span></a><span class="sd">        idl of the current replicum</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos">11</span></a><span class="sd">    che : list</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos">12</span></a><span class="sd">        list of configurations to be checked against</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos">13</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos">14</span></a>    <span class="n">missing</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos">15</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="n">che</span><span class="p">:</span>
+</span><span id="L-16"><a href="#L-16"><span class="linenos">16</span></a>        <span class="k">if</span> <span class="n">c</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">:</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos">17</span></a>            <span class="n">missing</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">c</span><span class="p">)</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos">18</span></a>    <span class="c1"># print missing configurations such that it can directly be parsed to slurm terminal</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos">19</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">missing</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span><span class="p">):</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos">20</span></a>        <span class="nb">print</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">missing</span><span class="p">),</span> <span class="s2">&quot;configs missing&quot;</span><span class="p">)</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos">21</span></a>        <span class="n">miss_str</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">missing</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos">22</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">missing</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos">23</span></a>            <span class="n">miss_str</span> <span class="o">+=</span> <span class="s2">&quot;,&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+</span><span id="L-24"><a href="#L-24"><span class="linenos">24</span></a>        <span class="nb">print</span><span class="p">(</span><span class="n">miss_str</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="check_idl">
-                            <div class="attr function"><a class="headerlink" href="#check_idl">#&nbsp;&nbsp</a>
+                            <input id="check_idl-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">check_idl</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">idl</span>, </span><span class="param"><span class="n">che</span></span>)</span>
+
+                <label class="view-source-button" for="check_idl-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">check_idl</span><span class="signature">(idl, che)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="check_idl-4"><a href="#check_idl-4"><span class="linenos"> 4</span></a><span class="k">def</span> <span class="nf">check_idl</span><span class="p">(</span><span class="n">idl</span><span class="p">,</span> <span class="n">che</span><span class="p">):</span>
-</span><span id="check_idl-5"><a href="#check_idl-5"><span class="linenos"> 5</span></a>    <span class="sd">&quot;&quot;&quot;Checks if list of configurations is contained in an idl</span>
-</span><span id="check_idl-6"><a href="#check_idl-6"><span class="linenos"> 6</span></a>
-</span><span id="check_idl-7"><a href="#check_idl-7"><span class="linenos"> 7</span></a><span class="sd">    Parameters</span>
-</span><span id="check_idl-8"><a href="#check_idl-8"><span class="linenos"> 8</span></a><span class="sd">    ----------</span>
-</span><span id="check_idl-9"><a href="#check_idl-9"><span class="linenos"> 9</span></a><span class="sd">    idl : range or list</span>
-</span><span id="check_idl-10"><a href="#check_idl-10"><span class="linenos">10</span></a><span class="sd">        idl of the current replicum</span>
-</span><span id="check_idl-11"><a href="#check_idl-11"><span class="linenos">11</span></a><span class="sd">    che : list</span>
-</span><span id="check_idl-12"><a href="#check_idl-12"><span class="linenos">12</span></a><span class="sd">        list of configurations to be checked against</span>
-</span><span id="check_idl-13"><a href="#check_idl-13"><span class="linenos">13</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="check_idl-14"><a href="#check_idl-14"><span class="linenos">14</span></a>    <span class="n">missing</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="check_idl-15"><a href="#check_idl-15"><span class="linenos">15</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="n">che</span><span class="p">:</span>
-</span><span id="check_idl-16"><a href="#check_idl-16"><span class="linenos">16</span></a>        <span class="k">if</span> <span class="n">c</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">:</span>
-</span><span id="check_idl-17"><a href="#check_idl-17"><span class="linenos">17</span></a>            <span class="n">missing</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">c</span><span class="p">)</span>
-</span><span id="check_idl-18"><a href="#check_idl-18"><span class="linenos">18</span></a>    <span class="c1"># print missing configurations such that it can directly be parsed to slurm terminal</span>
-</span><span id="check_idl-19"><a href="#check_idl-19"><span class="linenos">19</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">missing</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span><span class="p">):</span>
-</span><span id="check_idl-20"><a href="#check_idl-20"><span class="linenos">20</span></a>        <span class="nb">print</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">missing</span><span class="p">),</span> <span class="s2">&quot;configs missing&quot;</span><span class="p">)</span>
-</span><span id="check_idl-21"><a href="#check_idl-21"><span class="linenos">21</span></a>        <span class="n">miss_str</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">missing</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="check_idl-22"><a href="#check_idl-22"><span class="linenos">22</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">missing</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
-</span><span id="check_idl-23"><a href="#check_idl-23"><span class="linenos">23</span></a>            <span class="n">miss_str</span> <span class="o">+=</span> <span class="s2">&quot;,&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
-</span><span id="check_idl-24"><a href="#check_idl-24"><span class="linenos">24</span></a>        <span class="nb">print</span><span class="p">(</span><span class="n">miss_str</span><span class="p">)</span>
+    <a class="headerlink" href="#check_idl"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="check_idl-5"><a href="#check_idl-5"><span class="linenos"> 5</span></a><span class="k">def</span> <span class="nf">check_idl</span><span class="p">(</span><span class="n">idl</span><span class="p">,</span> <span class="n">che</span><span class="p">):</span>
+</span><span id="check_idl-6"><a href="#check_idl-6"><span class="linenos"> 6</span></a>    <span class="sd">&quot;&quot;&quot;Checks if list of configurations is contained in an idl</span>
+</span><span id="check_idl-7"><a href="#check_idl-7"><span class="linenos"> 7</span></a>
+</span><span id="check_idl-8"><a href="#check_idl-8"><span class="linenos"> 8</span></a><span class="sd">    Parameters</span>
+</span><span id="check_idl-9"><a href="#check_idl-9"><span class="linenos"> 9</span></a><span class="sd">    ----------</span>
+</span><span id="check_idl-10"><a href="#check_idl-10"><span class="linenos">10</span></a><span class="sd">    idl : range or list</span>
+</span><span id="check_idl-11"><a href="#check_idl-11"><span class="linenos">11</span></a><span class="sd">        idl of the current replicum</span>
+</span><span id="check_idl-12"><a href="#check_idl-12"><span class="linenos">12</span></a><span class="sd">    che : list</span>
+</span><span id="check_idl-13"><a href="#check_idl-13"><span class="linenos">13</span></a><span class="sd">        list of configurations to be checked against</span>
+</span><span id="check_idl-14"><a href="#check_idl-14"><span class="linenos">14</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="check_idl-15"><a href="#check_idl-15"><span class="linenos">15</span></a>    <span class="n">missing</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="check_idl-16"><a href="#check_idl-16"><span class="linenos">16</span></a>    <span class="k">for</span> <span class="n">c</span> <span class="ow">in</span> <span class="n">che</span><span class="p">:</span>
+</span><span id="check_idl-17"><a href="#check_idl-17"><span class="linenos">17</span></a>        <span class="k">if</span> <span class="n">c</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">:</span>
+</span><span id="check_idl-18"><a href="#check_idl-18"><span class="linenos">18</span></a>            <span class="n">missing</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">c</span><span class="p">)</span>
+</span><span id="check_idl-19"><a href="#check_idl-19"><span class="linenos">19</span></a>    <span class="c1"># print missing configurations such that it can directly be parsed to slurm terminal</span>
+</span><span id="check_idl-20"><a href="#check_idl-20"><span class="linenos">20</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">missing</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span><span class="p">):</span>
+</span><span id="check_idl-21"><a href="#check_idl-21"><span class="linenos">21</span></a>        <span class="nb">print</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">missing</span><span class="p">),</span> <span class="s2">&quot;configs missing&quot;</span><span class="p">)</span>
+</span><span id="check_idl-22"><a href="#check_idl-22"><span class="linenos">22</span></a>        <span class="n">miss_str</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span><span class="n">missing</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="check_idl-23"><a href="#check_idl-23"><span class="linenos">23</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">missing</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
+</span><span id="check_idl-24"><a href="#check_idl-24"><span class="linenos">24</span></a>            <span class="n">miss_str</span> <span class="o">+=</span> <span class="s2">&quot;,&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
+</span><span id="check_idl-25"><a href="#check_idl-25"><span class="linenos">25</span></a>        <span class="nb">print</span><span class="p">(</span><span class="n">miss_str</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Checks if list of configurations is contained in an idl</p>
 
diff --git a/docs/pyerrors/linalg.html b/docs/pyerrors/linalg.html
index e266dfe2..3119fd22 100644
--- a/docs/pyerrors/linalg.html
+++ b/docs/pyerrors/linalg.html
@@ -3,14 +3,14 @@
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@@ -94,364 +94,365 @@
 <a href="./../pyerrors.html">pyerrors</a><wbr>.linalg    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">  0</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">autograd.numpy</span> <span class="k">as</span> <span class="nn">anp</span>  <span class="c1"># Thinly-wrapped numpy</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="n">derived_observable</span><span class="p">,</span> <span class="n">CObs</span><span class="p">,</span> <span class="n">Obs</span><span class="p">,</span> <span class="n">import_jackknife</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a>
+                        <input id="linalg-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="linalg-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">autograd.numpy</span> <span class="k">as</span> <span class="nn">anp</span>  <span class="c1"># Thinly-wrapped numpy</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="n">derived_observable</span><span class="p">,</span> <span class="n">CObs</span><span class="p">,</span> <span class="n">Obs</span><span class="p">,</span> <span class="n">import_jackknife</span>
 </span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="k">def</span> <span class="nf">matmul</span><span class="p">(</span><span class="o">*</span><span class="n">operands</span><span class="p">):</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a>    <span class="sd">&quot;&quot;&quot;Matrix multiply all operands.</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="sd">    Parameters</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="sd">    ----------</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="sd">    operands : numpy.ndarray</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="sd">        Arbitrary number of 2d-numpy arrays which can be real or complex</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd">        Obs valued.</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a>
-</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">    This implementation is faster compared to standard multiplication via the @ operator.</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">):</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a>        <span class="n">extended_operands</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a>        <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">:</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>            <span class="n">tmp</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">real</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">imag</span><span class="p">(</span><span class="n">x</span><span class="p">)))(</span><span class="n">op</span><span class="p">)</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a>            <span class="n">extended_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a>            <span class="n">extended_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>
-</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>        <span class="k">def</span> <span class="nf">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">,</span> <span class="n">part</span><span class="p">):</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>            <span class="n">stack_r</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>            <span class="n">stack_i</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>            <span class="k">for</span> <span class="n">op_r</span><span class="p">,</span> <span class="n">op_i</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">operands</span><span class="p">[</span><span class="mi">2</span><span class="p">::</span><span class="mi">2</span><span class="p">],</span> <span class="n">operands</span><span class="p">[</span><span class="mi">3</span><span class="p">::</span><span class="mi">2</span><span class="p">]):</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>                <span class="n">tmp_r</span> <span class="o">=</span> <span class="n">stack_r</span> <span class="o">@</span> <span class="n">op_r</span> <span class="o">-</span> <span class="n">stack_i</span> <span class="o">@</span> <span class="n">op_i</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>                <span class="n">tmp_i</span> <span class="o">=</span> <span class="n">stack_r</span> <span class="o">@</span> <span class="n">op_i</span> <span class="o">+</span> <span class="n">stack_i</span> <span class="o">@</span> <span class="n">op_r</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>
-</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>                <span class="n">stack_r</span> <span class="o">=</span> <span class="n">tmp_r</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>                <span class="n">stack_i</span> <span class="o">=</span> <span class="n">tmp_i</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>
-</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>            <span class="k">if</span> <span class="n">part</span> <span class="o">==</span> <span class="s1">&#39;Real&#39;</span><span class="p">:</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>                <span class="k">return</span> <span class="n">stack_r</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>                <span class="k">return</span> <span class="n">stack_i</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>
-</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>        <span class="k">def</span> <span class="nf">multi_dot_r</span><span class="p">(</span><span class="n">operands</span><span class="p">):</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>            <span class="k">return</span> <span class="n">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">,</span> <span class="s1">&#39;Real&#39;</span><span class="p">)</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>
-</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>        <span class="k">def</span> <span class="nf">multi_dot_i</span><span class="p">(</span><span class="n">operands</span><span class="p">):</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>            <span class="k">return</span> <span class="n">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">,</span> <span class="s1">&#39;Imag&#39;</span><span class="p">)</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>
-</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>        <span class="n">Nr</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">multi_dot_r</span><span class="p">,</span> <span class="n">extended_operands</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>        <span class="n">Ni</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">multi_dot_i</span><span class="p">,</span> <span class="n">extended_operands</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>
-</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>        <span class="n">res</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">Nr</span><span class="p">)</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">),</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">Nr</span><span class="p">):</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">Nr</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">],</span> <span class="n">Ni</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">])</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>
-</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>        <span class="k">return</span> <span class="n">res</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>        <span class="k">def</span> <span class="nf">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">):</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>            <span class="n">stack</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>            <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>                <span class="n">stack</span> <span class="o">=</span> <span class="n">stack</span> <span class="o">@</span> <span class="n">op</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>            <span class="k">return</span> <span class="n">stack</span>
-</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">multi_dot</span><span class="p">,</span> <span class="n">operands</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="k">def</span> <span class="nf">matmul</span><span class="p">(</span><span class="o">*</span><span class="n">operands</span><span class="p">):</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a>    <span class="sd">&quot;&quot;&quot;Matrix multiply all operands.</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="sd">    Parameters</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="sd">    ----------</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="sd">    operands : numpy.ndarray</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd">        Arbitrary number of 2d-numpy arrays which can be real or complex</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd">        Obs valued.</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a>
+</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">    This implementation is faster compared to standard multiplication via the @ operator.</span>
+</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">):</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a>        <span class="n">extended_operands</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>        <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">:</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a>            <span class="n">tmp</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">real</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">imag</span><span class="p">(</span><span class="n">x</span><span class="p">)))(</span><span class="n">op</span><span class="p">)</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a>            <span class="n">extended_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>            <span class="n">extended_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>
+</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>        <span class="k">def</span> <span class="nf">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">,</span> <span class="n">part</span><span class="p">):</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>            <span class="n">stack_r</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>            <span class="n">stack_i</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>            <span class="k">for</span> <span class="n">op_r</span><span class="p">,</span> <span class="n">op_i</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">operands</span><span class="p">[</span><span class="mi">2</span><span class="p">::</span><span class="mi">2</span><span class="p">],</span> <span class="n">operands</span><span class="p">[</span><span class="mi">3</span><span class="p">::</span><span class="mi">2</span><span class="p">]):</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>                <span class="n">tmp_r</span> <span class="o">=</span> <span class="n">stack_r</span> <span class="o">@</span> <span class="n">op_r</span> <span class="o">-</span> <span class="n">stack_i</span> <span class="o">@</span> <span class="n">op_i</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a>                <span class="n">tmp_i</span> <span class="o">=</span> <span class="n">stack_r</span> <span class="o">@</span> <span class="n">op_i</span> <span class="o">+</span> <span class="n">stack_i</span> <span class="o">@</span> <span class="n">op_r</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a>
+</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a>                <span class="n">stack_r</span> <span class="o">=</span> <span class="n">tmp_r</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a>                <span class="n">stack_i</span> <span class="o">=</span> <span class="n">tmp_i</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>
+</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>            <span class="k">if</span> <span class="n">part</span> <span class="o">==</span> <span class="s1">&#39;Real&#39;</span><span class="p">:</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>                <span class="k">return</span> <span class="n">stack_r</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>                <span class="k">return</span> <span class="n">stack_i</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>
+</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>        <span class="k">def</span> <span class="nf">multi_dot_r</span><span class="p">(</span><span class="n">operands</span><span class="p">):</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>            <span class="k">return</span> <span class="n">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">,</span> <span class="s1">&#39;Real&#39;</span><span class="p">)</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a>
+</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a>        <span class="k">def</span> <span class="nf">multi_dot_i</span><span class="p">(</span><span class="n">operands</span><span class="p">):</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>            <span class="k">return</span> <span class="n">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">,</span> <span class="s1">&#39;Imag&#39;</span><span class="p">)</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a>
+</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a>        <span class="n">Nr</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">multi_dot_r</span><span class="p">,</span> <span class="n">extended_operands</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a>        <span class="n">Ni</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">multi_dot_i</span><span class="p">,</span> <span class="n">extended_operands</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a>
+</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a>        <span class="n">res</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">Nr</span><span class="p">)</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">),</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">Nr</span><span class="p">):</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">Nr</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">],</span> <span class="n">Ni</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">])</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>
+</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>        <span class="k">return</span> <span class="n">res</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>        <span class="k">def</span> <span class="nf">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">):</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>            <span class="n">stack</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>            <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>                <span class="n">stack</span> <span class="o">=</span> <span class="n">stack</span> <span class="o">@</span> <span class="n">op</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>            <span class="k">return</span> <span class="n">stack</span>
+</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">multi_dot</span><span class="p">,</span> <span class="n">operands</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
 </span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>
-</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a><span class="k">def</span> <span class="nf">jack_matmul</span><span class="p">(</span><span class="o">*</span><span class="n">operands</span><span class="p">):</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>    <span class="sd">&quot;&quot;&quot;Matrix multiply both operands making use of the jackknife approximation.</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>
-</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a><span class="sd">    Parameters</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a><span class="sd">    ----------</span>
-</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a><span class="sd">    operands : numpy.ndarray</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a><span class="sd">        Arbitrary number of 2d-numpy arrays which can be real or complex</span>
-</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a><span class="sd">        Obs valued.</span>
-</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>
-</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a><span class="sd">    For large matrices this is considerably faster compared to matmul.</span>
-</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>
-</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>
-</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
-</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">import_jackknife</span><span class="p">(</span><span class="n">entry</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">])</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>
-</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
-</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">entry</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>
-</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
-</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
-</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">import_jackknife</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]),</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>                                      <span class="n">import_jackknife</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]))</span>
-</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>
-</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">):</span>
-</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>
-</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>        <span class="n">r</span> <span class="o">=</span> <span class="n">_exp_to_jack_c</span><span class="p">(</span><span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>        <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
-</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">):</span>
-</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">_exp_to_jack_c</span><span class="p">(</span><span class="n">op</span><span class="p">)</span>
-</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">op</span>
-</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>        <span class="k">return</span> <span class="n">_imp_from_jack_c</span><span class="p">(</span><span class="n">r</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>
-</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>        <span class="n">r</span> <span class="o">=</span> <span class="n">_exp_to_jack</span><span class="p">(</span><span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>        <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
-</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">_exp_to_jack</span><span class="p">(</span><span class="n">op</span><span class="p">)</span>
-</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">op</span>
-</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>        <span class="k">return</span> <span class="n">_imp_from_jack</span><span class="p">(</span><span class="n">r</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>
+</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>
+</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a><span class="k">def</span> <span class="nf">jack_matmul</span><span class="p">(</span><span class="o">*</span><span class="n">operands</span><span class="p">):</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>    <span class="sd">&quot;&quot;&quot;Matrix multiply both operands making use of the jackknife approximation.</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>
+</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a><span class="sd">    Parameters</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a><span class="sd">    ----------</span>
+</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a><span class="sd">    operands : numpy.ndarray</span>
+</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a><span class="sd">        Arbitrary number of 2d-numpy arrays which can be real or complex</span>
+</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a><span class="sd">        Obs valued.</span>
+</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>
+</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a><span class="sd">    For large matrices this is considerably faster compared to matmul.</span>
+</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a>
+</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a>
+</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
+</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">import_jackknife</span><span class="p">(</span><span class="n">entry</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">])</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a>
+</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
+</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">entry</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>
+</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
+</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
+</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">import_jackknife</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]),</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>                                      <span class="n">import_jackknife</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]))</span>
+</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>
+</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">):</span>
+</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>
+</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>        <span class="n">r</span> <span class="o">=</span> <span class="n">_exp_to_jack_c</span><span class="p">(</span><span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>        <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
+</span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">):</span>
+</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">_exp_to_jack_c</span><span class="p">(</span><span class="n">op</span><span class="p">)</span>
+</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">op</span>
+</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>        <span class="k">return</span> <span class="n">_imp_from_jack_c</span><span class="p">(</span><span class="n">r</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>
+</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>        <span class="n">r</span> <span class="o">=</span> <span class="n">_exp_to_jack</span><span class="p">(</span><span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>        <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
+</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">_exp_to_jack</span><span class="p">(</span><span class="n">op</span><span class="p">)</span>
+</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">op</span>
+</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>        <span class="k">return</span> <span class="n">_imp_from_jack</span><span class="p">(</span><span class="n">r</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
 </span><span id="L-121"><a href="#L-121"><span class="linenos">121</span></a>
-</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a><span class="k">def</span> <span class="nf">einsum</span><span class="p">(</span><span class="n">subscripts</span><span class="p">,</span> <span class="o">*</span><span class="n">operands</span><span class="p">):</span>
-</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a>    <span class="sd">&quot;&quot;&quot;Wrapper for numpy.einsum</span>
-</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>
-</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a><span class="sd">    Parameters</span>
-</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a><span class="sd">    ----------</span>
-</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a><span class="sd">    subscripts : str</span>
-</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a><span class="sd">        Subscripts for summation (see numpy documentation for details)</span>
-</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a><span class="sd">    operands : numpy.ndarray</span>
-</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a><span class="sd">        Arbitrary number of 2d-numpy arrays which can be real or complex</span>
-</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a><span class="sd">        Obs valued.</span>
-</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a>
-</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>            <span class="n">base_matrix</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">())</span>
-</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">base_matrix</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="n">base_matrix</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
-</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>
-</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>            <span class="n">base_matrix</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">entry</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">())</span>
-</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">base_matrix</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="n">base_matrix</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
-</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a>
-</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
-</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">(</span><span class="n">shape</span><span class="o">=</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">import_jackknife</span><span class="p">(</span><span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">],</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">])</span>
-</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
-</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>
-</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
-</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">(</span><span class="n">shape</span><span class="o">=</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">import_jackknife</span><span class="p">(</span><span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]),</span>
-</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>                                      <span class="n">import_jackknife</span><span class="p">(</span><span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]))</span>
-</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
-</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>
-</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>    <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">:</span>
-</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">):</span>
-</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>            <span class="n">idl</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>            <span class="k">break</span>
-</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>            <span class="n">idl</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>            <span class="k">break</span>
-</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>
-</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>    <span class="n">conv_operands</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>    <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">:</span>
-</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">):</span>
-</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>            <span class="n">conv_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_exp_to_jack_c</span><span class="p">(</span><span class="n">op</span><span class="p">))</span>
-</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>            <span class="n">conv_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_exp_to_jack</span><span class="p">(</span><span class="n">op</span><span class="p">))</span>
-</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>            <span class="n">conv_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">op</span><span class="p">)</span>
-</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>
-</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>    <span class="n">tmp_subscripts</span> <span class="o">=</span> <span class="s1">&#39;,&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="n">o</span> <span class="o">+</span> <span class="s1">&#39;...&#39;</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">subscripts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)])</span>
-</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>    <span class="n">extended_subscripts</span> <span class="o">=</span> <span class="s1">&#39;-&gt;&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="n">o</span> <span class="o">+</span> <span class="s1">&#39;...&#39;</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">tmp_subscripts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;-&gt;&#39;</span><span class="p">)[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span> <span class="o">+</span> <span class="p">[</span><span class="n">tmp_subscripts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;-&gt;&#39;</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]])</span>
-</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>    <span class="n">einsum_path</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">einsum_path</span><span class="p">(</span><span class="n">extended_subscripts</span><span class="p">,</span> <span class="o">*</span><span class="n">conv_operands</span><span class="p">,</span> <span class="n">optimize</span><span class="o">=</span><span class="s1">&#39;optimal&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>    <span class="n">jack_einsum</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">einsum</span><span class="p">(</span><span class="n">extended_subscripts</span><span class="p">,</span> <span class="o">*</span><span class="n">conv_operands</span><span class="p">,</span> <span class="n">optimize</span><span class="o">=</span><span class="n">einsum_path</span><span class="p">)</span>
-</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>
-</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>    <span class="k">if</span> <span class="n">jack_einsum</span><span class="o">.</span><span class="n">dtype</span> <span class="o">==</span> <span class="nb">complex</span><span class="p">:</span>
-</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">_imp_from_jack_c</span><span class="p">(</span><span class="n">jack_einsum</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a>    <span class="k">elif</span> <span class="n">jack_einsum</span><span class="o">.</span><span class="n">dtype</span> <span class="o">==</span> <span class="nb">float</span><span class="p">:</span>
-</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">_imp_from_jack</span><span class="p">(</span><span class="n">jack_einsum</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Result has unexpected datatype&quot;</span><span class="p">)</span>
-</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>
-</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>    <span class="k">if</span> <span class="n">result</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">():</span>
-</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a>        <span class="k">return</span> <span class="n">result</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a>        <span class="k">return</span> <span class="n">result</span>
-</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>
+</span><span id="L-122"><a href="#L-122"><span class="linenos">122</span></a>
+</span><span id="L-123"><a href="#L-123"><span class="linenos">123</span></a><span class="k">def</span> <span class="nf">einsum</span><span class="p">(</span><span class="n">subscripts</span><span class="p">,</span> <span class="o">*</span><span class="n">operands</span><span class="p">):</span>
+</span><span id="L-124"><a href="#L-124"><span class="linenos">124</span></a>    <span class="sd">&quot;&quot;&quot;Wrapper for numpy.einsum</span>
+</span><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a>
+</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a><span class="sd">    Parameters</span>
+</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a><span class="sd">    ----------</span>
+</span><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a><span class="sd">    subscripts : str</span>
+</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a><span class="sd">        Subscripts for summation (see numpy documentation for details)</span>
+</span><span id="L-130"><a href="#L-130"><span class="linenos">130</span></a><span class="sd">    operands : numpy.ndarray</span>
+</span><span id="L-131"><a href="#L-131"><span class="linenos">131</span></a><span class="sd">        Arbitrary number of 2d-numpy arrays which can be real or complex</span>
+</span><span id="L-132"><a href="#L-132"><span class="linenos">132</span></a><span class="sd">        Obs valued.</span>
+</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a>
+</span><span id="L-135"><a href="#L-135"><span class="linenos">135</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="L-136"><a href="#L-136"><span class="linenos">136</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-137"><a href="#L-137"><span class="linenos">137</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="L-138"><a href="#L-138"><span class="linenos">138</span></a>            <span class="n">base_matrix</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">())</span>
+</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">base_matrix</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="n">base_matrix</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
+</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a>
+</span><span id="L-141"><a href="#L-141"><span class="linenos">141</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="L-142"><a href="#L-142"><span class="linenos">142</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-143"><a href="#L-143"><span class="linenos">143</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="L-144"><a href="#L-144"><span class="linenos">144</span></a>            <span class="n">base_matrix</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">entry</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">())</span>
+</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">base_matrix</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="n">base_matrix</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
+</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a>
+</span><span id="L-147"><a href="#L-147"><span class="linenos">147</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
+</span><span id="L-148"><a href="#L-148"><span class="linenos">148</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">(</span><span class="n">shape</span><span class="o">=</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="L-149"><a href="#L-149"><span class="linenos">149</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">import_jackknife</span><span class="p">(</span><span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">],</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">])</span>
+</span><span id="L-151"><a href="#L-151"><span class="linenos">151</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
+</span><span id="L-152"><a href="#L-152"><span class="linenos">152</span></a>
+</span><span id="L-153"><a href="#L-153"><span class="linenos">153</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
+</span><span id="L-154"><a href="#L-154"><span class="linenos">154</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">(</span><span class="n">shape</span><span class="o">=</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="L-155"><a href="#L-155"><span class="linenos">155</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="L-156"><a href="#L-156"><span class="linenos">156</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">import_jackknife</span><span class="p">(</span><span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]),</span>
+</span><span id="L-157"><a href="#L-157"><span class="linenos">157</span></a>                                      <span class="n">import_jackknife</span><span class="p">(</span><span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]))</span>
+</span><span id="L-158"><a href="#L-158"><span class="linenos">158</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
+</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a>
+</span><span id="L-160"><a href="#L-160"><span class="linenos">160</span></a>    <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">:</span>
+</span><span id="L-161"><a href="#L-161"><span class="linenos">161</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">):</span>
+</span><span id="L-162"><a href="#L-162"><span class="linenos">162</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-163"><a href="#L-163"><span class="linenos">163</span></a>            <span class="n">idl</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-164"><a href="#L-164"><span class="linenos">164</span></a>            <span class="k">break</span>
+</span><span id="L-165"><a href="#L-165"><span class="linenos">165</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-166"><a href="#L-166"><span class="linenos">166</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-167"><a href="#L-167"><span class="linenos">167</span></a>            <span class="n">idl</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a>            <span class="k">break</span>
+</span><span id="L-169"><a href="#L-169"><span class="linenos">169</span></a>
+</span><span id="L-170"><a href="#L-170"><span class="linenos">170</span></a>    <span class="n">conv_operands</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-171"><a href="#L-171"><span class="linenos">171</span></a>    <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">:</span>
+</span><span id="L-172"><a href="#L-172"><span class="linenos">172</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">):</span>
+</span><span id="L-173"><a href="#L-173"><span class="linenos">173</span></a>            <span class="n">conv_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_exp_to_jack_c</span><span class="p">(</span><span class="n">op</span><span class="p">))</span>
+</span><span id="L-174"><a href="#L-174"><span class="linenos">174</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-175"><a href="#L-175"><span class="linenos">175</span></a>            <span class="n">conv_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_exp_to_jack</span><span class="p">(</span><span class="n">op</span><span class="p">))</span>
+</span><span id="L-176"><a href="#L-176"><span class="linenos">176</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>            <span class="n">conv_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">op</span><span class="p">)</span>
+</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a>
+</span><span id="L-179"><a href="#L-179"><span class="linenos">179</span></a>    <span class="n">tmp_subscripts</span> <span class="o">=</span> <span class="s1">&#39;,&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="n">o</span> <span class="o">+</span> <span class="s1">&#39;...&#39;</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">subscripts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)])</span>
+</span><span id="L-180"><a href="#L-180"><span class="linenos">180</span></a>    <span class="n">extended_subscripts</span> <span class="o">=</span> <span class="s1">&#39;-&gt;&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="n">o</span> <span class="o">+</span> <span class="s1">&#39;...&#39;</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">tmp_subscripts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;-&gt;&#39;</span><span class="p">)[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span> <span class="o">+</span> <span class="p">[</span><span class="n">tmp_subscripts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;-&gt;&#39;</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]])</span>
+</span><span id="L-181"><a href="#L-181"><span class="linenos">181</span></a>    <span class="n">einsum_path</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">einsum_path</span><span class="p">(</span><span class="n">extended_subscripts</span><span class="p">,</span> <span class="o">*</span><span class="n">conv_operands</span><span class="p">,</span> <span class="n">optimize</span><span class="o">=</span><span class="s1">&#39;optimal&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-182"><a href="#L-182"><span class="linenos">182</span></a>    <span class="n">jack_einsum</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">einsum</span><span class="p">(</span><span class="n">extended_subscripts</span><span class="p">,</span> <span class="o">*</span><span class="n">conv_operands</span><span class="p">,</span> <span class="n">optimize</span><span class="o">=</span><span class="n">einsum_path</span><span class="p">)</span>
+</span><span id="L-183"><a href="#L-183"><span class="linenos">183</span></a>
+</span><span id="L-184"><a href="#L-184"><span class="linenos">184</span></a>    <span class="k">if</span> <span class="n">jack_einsum</span><span class="o">.</span><span class="n">dtype</span> <span class="o">==</span> <span class="nb">complex</span><span class="p">:</span>
+</span><span id="L-185"><a href="#L-185"><span class="linenos">185</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">_imp_from_jack_c</span><span class="p">(</span><span class="n">jack_einsum</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="L-186"><a href="#L-186"><span class="linenos">186</span></a>    <span class="k">elif</span> <span class="n">jack_einsum</span><span class="o">.</span><span class="n">dtype</span> <span class="o">==</span> <span class="nb">float</span><span class="p">:</span>
+</span><span id="L-187"><a href="#L-187"><span class="linenos">187</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">_imp_from_jack</span><span class="p">(</span><span class="n">jack_einsum</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="L-188"><a href="#L-188"><span class="linenos">188</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-189"><a href="#L-189"><span class="linenos">189</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Result has unexpected datatype&quot;</span><span class="p">)</span>
+</span><span id="L-190"><a href="#L-190"><span class="linenos">190</span></a>
+</span><span id="L-191"><a href="#L-191"><span class="linenos">191</span></a>    <span class="k">if</span> <span class="n">result</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">():</span>
+</span><span id="L-192"><a href="#L-192"><span class="linenos">192</span></a>        <span class="k">return</span> <span class="n">result</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-193"><a href="#L-193"><span class="linenos">193</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-194"><a href="#L-194"><span class="linenos">194</span></a>        <span class="k">return</span> <span class="n">result</span>
 </span><span id="L-195"><a href="#L-195"><span class="linenos">195</span></a>
-</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a><span class="k">def</span> <span class="nf">inv</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
-</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a>    <span class="sd">&quot;&quot;&quot;Inverse of Obs or CObs valued matrices.&quot;&quot;&quot;</span>
-</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a>    <span class="k">return</span> <span class="n">_mat_mat_op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">inv</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
-</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>
+</span><span id="L-196"><a href="#L-196"><span class="linenos">196</span></a>
+</span><span id="L-197"><a href="#L-197"><span class="linenos">197</span></a><span class="k">def</span> <span class="nf">inv</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
+</span><span id="L-198"><a href="#L-198"><span class="linenos">198</span></a>    <span class="sd">&quot;&quot;&quot;Inverse of Obs or CObs valued matrices.&quot;&quot;&quot;</span>
+</span><span id="L-199"><a href="#L-199"><span class="linenos">199</span></a>    <span class="k">return</span> <span class="n">_mat_mat_op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">inv</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
 </span><span id="L-200"><a href="#L-200"><span class="linenos">200</span></a>
-</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a><span class="k">def</span> <span class="nf">cholesky</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
-</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a>    <span class="sd">&quot;&quot;&quot;Cholesky decomposition of Obs valued matrices.&quot;&quot;&quot;</span>
-</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">()):</span>
-</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Cholesky decomposition is not implemented for CObs.&quot;</span><span class="p">)</span>
-</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>    <span class="k">return</span> <span class="n">_mat_mat_op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">cholesky</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
-</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>
+</span><span id="L-201"><a href="#L-201"><span class="linenos">201</span></a>
+</span><span id="L-202"><a href="#L-202"><span class="linenos">202</span></a><span class="k">def</span> <span class="nf">cholesky</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
+</span><span id="L-203"><a href="#L-203"><span class="linenos">203</span></a>    <span class="sd">&quot;&quot;&quot;Cholesky decomposition of Obs valued matrices.&quot;&quot;&quot;</span>
+</span><span id="L-204"><a href="#L-204"><span class="linenos">204</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">()):</span>
+</span><span id="L-205"><a href="#L-205"><span class="linenos">205</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Cholesky decomposition is not implemented for CObs.&quot;</span><span class="p">)</span>
+</span><span id="L-206"><a href="#L-206"><span class="linenos">206</span></a>    <span class="k">return</span> <span class="n">_mat_mat_op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">cholesky</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
 </span><span id="L-207"><a href="#L-207"><span class="linenos">207</span></a>
-</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a><span class="k">def</span> <span class="nf">det</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
-</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a>    <span class="sd">&quot;&quot;&quot;Determinant of Obs valued matrices.&quot;&quot;&quot;</span>
-</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>    <span class="k">return</span> <span class="n">_scalar_mat_op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">det</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
-</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>
+</span><span id="L-208"><a href="#L-208"><span class="linenos">208</span></a>
+</span><span id="L-209"><a href="#L-209"><span class="linenos">209</span></a><span class="k">def</span> <span class="nf">det</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
+</span><span id="L-210"><a href="#L-210"><span class="linenos">210</span></a>    <span class="sd">&quot;&quot;&quot;Determinant of Obs valued matrices.&quot;&quot;&quot;</span>
+</span><span id="L-211"><a href="#L-211"><span class="linenos">211</span></a>    <span class="k">return</span> <span class="n">_scalar_mat_op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">det</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
 </span><span id="L-212"><a href="#L-212"><span class="linenos">212</span></a>
-</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a><span class="k">def</span> <span class="nf">_scalar_mat_op</span><span class="p">(</span><span class="n">op</span><span class="p">,</span> <span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a>    <span class="sd">&quot;&quot;&quot;Computes the matrix to scalar operation op to a given matrix of Obs.&quot;&quot;&quot;</span>
-</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>    <span class="k">def</span> <span class="nf">_mat</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>        <span class="n">dim</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)))</span>
-</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>
-</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>        <span class="n">mat</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">dim</span><span class="p">):</span>
-</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>            <span class="n">row</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>            <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">dim</span><span class="p">):</span>
-</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>                <span class="n">row</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="n">j</span> <span class="o">+</span> <span class="n">dim</span> <span class="o">*</span> <span class="n">i</span><span class="p">])</span>
-</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>            <span class="n">mat</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">row</span><span class="p">)</span>
-</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>
-</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>        <span class="k">return</span> <span class="n">op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">mat</span><span class="p">))</span>
-</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>
-</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>        <span class="n">raveled_obs</span> <span class="o">=</span> <span class="p">(</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">ravel</span><span class="p">()))</span><span class="o">.</span><span class="n">tolist</span><span class="p">()</span>
-</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>        <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;Unproper type of input.&#39;</span><span class="p">)</span>
-</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>    <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">_mat</span><span class="p">,</span> <span class="n">raveled_obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>
+</span><span id="L-213"><a href="#L-213"><span class="linenos">213</span></a>
+</span><span id="L-214"><a href="#L-214"><span class="linenos">214</span></a><span class="k">def</span> <span class="nf">_scalar_mat_op</span><span class="p">(</span><span class="n">op</span><span class="p">,</span> <span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-215"><a href="#L-215"><span class="linenos">215</span></a>    <span class="sd">&quot;&quot;&quot;Computes the matrix to scalar operation op to a given matrix of Obs.&quot;&quot;&quot;</span>
+</span><span id="L-216"><a href="#L-216"><span class="linenos">216</span></a>    <span class="k">def</span> <span class="nf">_mat</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-217"><a href="#L-217"><span class="linenos">217</span></a>        <span class="n">dim</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)))</span>
+</span><span id="L-218"><a href="#L-218"><span class="linenos">218</span></a>
+</span><span id="L-219"><a href="#L-219"><span class="linenos">219</span></a>        <span class="n">mat</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-220"><a href="#L-220"><span class="linenos">220</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">dim</span><span class="p">):</span>
+</span><span id="L-221"><a href="#L-221"><span class="linenos">221</span></a>            <span class="n">row</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-222"><a href="#L-222"><span class="linenos">222</span></a>            <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">dim</span><span class="p">):</span>
+</span><span id="L-223"><a href="#L-223"><span class="linenos">223</span></a>                <span class="n">row</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="n">j</span> <span class="o">+</span> <span class="n">dim</span> <span class="o">*</span> <span class="n">i</span><span class="p">])</span>
+</span><span id="L-224"><a href="#L-224"><span class="linenos">224</span></a>            <span class="n">mat</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">row</span><span class="p">)</span>
+</span><span id="L-225"><a href="#L-225"><span class="linenos">225</span></a>
+</span><span id="L-226"><a href="#L-226"><span class="linenos">226</span></a>        <span class="k">return</span> <span class="n">op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">mat</span><span class="p">))</span>
+</span><span id="L-227"><a href="#L-227"><span class="linenos">227</span></a>
+</span><span id="L-228"><a href="#L-228"><span class="linenos">228</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-229"><a href="#L-229"><span class="linenos">229</span></a>        <span class="n">raveled_obs</span> <span class="o">=</span> <span class="p">(</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">ravel</span><span class="p">()))</span><span class="o">.</span><span class="n">tolist</span><span class="p">()</span>
+</span><span id="L-230"><a href="#L-230"><span class="linenos">230</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-231"><a href="#L-231"><span class="linenos">231</span></a>        <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;Unproper type of input.&#39;</span><span class="p">)</span>
+</span><span id="L-232"><a href="#L-232"><span class="linenos">232</span></a>    <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">_mat</span><span class="p">,</span> <span class="n">raveled_obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
 </span><span id="L-233"><a href="#L-233"><span class="linenos">233</span></a>
-</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a><span class="k">def</span> <span class="nf">_mat_mat_op</span><span class="p">(</span><span class="n">op</span><span class="p">,</span> <span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a>    <span class="sd">&quot;&quot;&quot;Computes the matrix to matrix operation op to a given matrix of Obs.&quot;&quot;&quot;</span>
-</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a>    <span class="c1"># Use real representation to calculate matrix operations for complex matrices</span>
-</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">ravel</span><span class="p">()):</span>
-</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a>        <span class="n">A</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">obs</span><span class="p">)</span>
-</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a>        <span class="n">B</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">obs</span><span class="p">)</span>
-</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">),</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">obs</span><span class="p">):</span>
-</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a>            <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">entry</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">entry</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
-</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a>                <span class="n">A</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">real</span>
-</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a>                <span class="n">B</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">imag</span>
-</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a>                <span class="n">A</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span>
-</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a>                <span class="n">B</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>        <span class="n">big_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">block</span><span class="p">([[</span><span class="n">A</span><span class="p">,</span> <span class="o">-</span><span class="n">B</span><span class="p">],</span> <span class="p">[</span><span class="n">B</span><span class="p">,</span> <span class="n">A</span><span class="p">]])</span>
-</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>        <span class="n">op_big_matrix</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">op</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="p">[</span><span class="n">big_matrix</span><span class="p">],</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>        <span class="n">dim</span> <span class="o">=</span> <span class="n">op_big_matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>        <span class="n">op_A</span> <span class="o">=</span> <span class="n">op_big_matrix</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span> <span class="n">dim</span> <span class="o">//</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">0</span><span class="p">:</span> <span class="n">dim</span> <span class="o">//</span> <span class="mi">2</span><span class="p">]</span>
-</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>        <span class="n">op_B</span> <span class="o">=</span> <span class="n">op_big_matrix</span><span class="p">[</span><span class="n">dim</span> <span class="o">//</span> <span class="mi">2</span><span class="p">:,</span> <span class="mi">0</span><span class="p">:</span> <span class="n">dim</span> <span class="o">//</span> <span class="mi">2</span><span class="p">]</span>
-</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>        <span class="n">res</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">op_A</span><span class="p">)</span>
-</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">),</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">op_A</span><span class="p">):</span>
-</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">op_A</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">],</span> <span class="n">op_B</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">])</span>
-</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>        <span class="k">return</span> <span class="n">res</span>
-</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">op</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="p">[</span><span class="n">obs</span><span class="p">],</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>
+</span><span id="L-234"><a href="#L-234"><span class="linenos">234</span></a>
+</span><span id="L-235"><a href="#L-235"><span class="linenos">235</span></a><span class="k">def</span> <span class="nf">_mat_mat_op</span><span class="p">(</span><span class="n">op</span><span class="p">,</span> <span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-236"><a href="#L-236"><span class="linenos">236</span></a>    <span class="sd">&quot;&quot;&quot;Computes the matrix to matrix operation op to a given matrix of Obs.&quot;&quot;&quot;</span>
+</span><span id="L-237"><a href="#L-237"><span class="linenos">237</span></a>    <span class="c1"># Use real representation to calculate matrix operations for complex matrices</span>
+</span><span id="L-238"><a href="#L-238"><span class="linenos">238</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">ravel</span><span class="p">()):</span>
+</span><span id="L-239"><a href="#L-239"><span class="linenos">239</span></a>        <span class="n">A</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">obs</span><span class="p">)</span>
+</span><span id="L-240"><a href="#L-240"><span class="linenos">240</span></a>        <span class="n">B</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">obs</span><span class="p">)</span>
+</span><span id="L-241"><a href="#L-241"><span class="linenos">241</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">),</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">obs</span><span class="p">):</span>
+</span><span id="L-242"><a href="#L-242"><span class="linenos">242</span></a>            <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">entry</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">entry</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
+</span><span id="L-243"><a href="#L-243"><span class="linenos">243</span></a>                <span class="n">A</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">real</span>
+</span><span id="L-244"><a href="#L-244"><span class="linenos">244</span></a>                <span class="n">B</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">imag</span>
+</span><span id="L-245"><a href="#L-245"><span class="linenos">245</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-246"><a href="#L-246"><span class="linenos">246</span></a>                <span class="n">A</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span>
+</span><span id="L-247"><a href="#L-247"><span class="linenos">247</span></a>                <span class="n">B</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-248"><a href="#L-248"><span class="linenos">248</span></a>        <span class="n">big_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">block</span><span class="p">([[</span><span class="n">A</span><span class="p">,</span> <span class="o">-</span><span class="n">B</span><span class="p">],</span> <span class="p">[</span><span class="n">B</span><span class="p">,</span> <span class="n">A</span><span class="p">]])</span>
+</span><span id="L-249"><a href="#L-249"><span class="linenos">249</span></a>        <span class="n">op_big_matrix</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">op</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="p">[</span><span class="n">big_matrix</span><span class="p">],</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-250"><a href="#L-250"><span class="linenos">250</span></a>        <span class="n">dim</span> <span class="o">=</span> <span class="n">op_big_matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-251"><a href="#L-251"><span class="linenos">251</span></a>        <span class="n">op_A</span> <span class="o">=</span> <span class="n">op_big_matrix</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span> <span class="n">dim</span> <span class="o">//</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">0</span><span class="p">:</span> <span class="n">dim</span> <span class="o">//</span> <span class="mi">2</span><span class="p">]</span>
+</span><span id="L-252"><a href="#L-252"><span class="linenos">252</span></a>        <span class="n">op_B</span> <span class="o">=</span> <span class="n">op_big_matrix</span><span class="p">[</span><span class="n">dim</span> <span class="o">//</span> <span class="mi">2</span><span class="p">:,</span> <span class="mi">0</span><span class="p">:</span> <span class="n">dim</span> <span class="o">//</span> <span class="mi">2</span><span class="p">]</span>
+</span><span id="L-253"><a href="#L-253"><span class="linenos">253</span></a>        <span class="n">res</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">op_A</span><span class="p">)</span>
+</span><span id="L-254"><a href="#L-254"><span class="linenos">254</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">),</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">op_A</span><span class="p">):</span>
+</span><span id="L-255"><a href="#L-255"><span class="linenos">255</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">op_A</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">],</span> <span class="n">op_B</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">])</span>
+</span><span id="L-256"><a href="#L-256"><span class="linenos">256</span></a>        <span class="k">return</span> <span class="n">res</span>
+</span><span id="L-257"><a href="#L-257"><span class="linenos">257</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-258"><a href="#L-258"><span class="linenos">258</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">op</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="p">[</span><span class="n">obs</span><span class="p">],</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
 </span><span id="L-259"><a href="#L-259"><span class="linenos">259</span></a>
-</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a><span class="k">def</span> <span class="nf">eigh</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a>    <span class="sd">&quot;&quot;&quot;Computes the eigenvalues and eigenvectors of a given hermitian matrix of Obs according to np.linalg.eigh.&quot;&quot;&quot;</span>
-</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>    <span class="n">w</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">x</span><span class="p">)[</span><span class="mi">0</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>    <span class="n">v</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">x</span><span class="p">)[</span><span class="mi">1</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>    <span class="k">return</span> <span class="n">w</span><span class="p">,</span> <span class="n">v</span>
-</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>
+</span><span id="L-260"><a href="#L-260"><span class="linenos">260</span></a>
+</span><span id="L-261"><a href="#L-261"><span class="linenos">261</span></a><span class="k">def</span> <span class="nf">eigh</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-262"><a href="#L-262"><span class="linenos">262</span></a>    <span class="sd">&quot;&quot;&quot;Computes the eigenvalues and eigenvectors of a given hermitian matrix of Obs according to np.linalg.eigh.&quot;&quot;&quot;</span>
+</span><span id="L-263"><a href="#L-263"><span class="linenos">263</span></a>    <span class="n">w</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">x</span><span class="p">)[</span><span class="mi">0</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
+</span><span id="L-264"><a href="#L-264"><span class="linenos">264</span></a>    <span class="n">v</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">x</span><span class="p">)[</span><span class="mi">1</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
+</span><span id="L-265"><a href="#L-265"><span class="linenos">265</span></a>    <span class="k">return</span> <span class="n">w</span><span class="p">,</span> <span class="n">v</span>
 </span><span id="L-266"><a href="#L-266"><span class="linenos">266</span></a>
-</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a><span class="k">def</span> <span class="nf">eig</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a>    <span class="sd">&quot;&quot;&quot;Computes the eigenvalues of a given matrix of Obs according to np.linalg.eig.&quot;&quot;&quot;</span>
-</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>    <span class="n">w</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">real</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eig</span><span class="p">(</span><span class="n">x</span><span class="p">)[</span><span class="mi">0</span><span class="p">]),</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>    <span class="k">return</span> <span class="n">w</span>
-</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>
+</span><span id="L-267"><a href="#L-267"><span class="linenos">267</span></a>
+</span><span id="L-268"><a href="#L-268"><span class="linenos">268</span></a><span class="k">def</span> <span class="nf">eig</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-269"><a href="#L-269"><span class="linenos">269</span></a>    <span class="sd">&quot;&quot;&quot;Computes the eigenvalues of a given matrix of Obs according to np.linalg.eig.&quot;&quot;&quot;</span>
+</span><span id="L-270"><a href="#L-270"><span class="linenos">270</span></a>    <span class="n">w</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">real</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eig</span><span class="p">(</span><span class="n">x</span><span class="p">)[</span><span class="mi">0</span><span class="p">]),</span> <span class="n">obs</span><span class="p">)</span>
+</span><span id="L-271"><a href="#L-271"><span class="linenos">271</span></a>    <span class="k">return</span> <span class="n">w</span>
 </span><span id="L-272"><a href="#L-272"><span class="linenos">272</span></a>
-</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a><span class="k">def</span> <span class="nf">pinv</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a>    <span class="sd">&quot;&quot;&quot;Computes the Moore-Penrose pseudoinverse of a matrix of Obs.&quot;&quot;&quot;</span>
-</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>    <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>
+</span><span id="L-273"><a href="#L-273"><span class="linenos">273</span></a>
+</span><span id="L-274"><a href="#L-274"><span class="linenos">274</span></a><span class="k">def</span> <span class="nf">pinv</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-275"><a href="#L-275"><span class="linenos">275</span></a>    <span class="sd">&quot;&quot;&quot;Computes the Moore-Penrose pseudoinverse of a matrix of Obs.&quot;&quot;&quot;</span>
+</span><span id="L-276"><a href="#L-276"><span class="linenos">276</span></a>    <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">obs</span><span class="p">)</span>
 </span><span id="L-277"><a href="#L-277"><span class="linenos">277</span></a>
-</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a><span class="k">def</span> <span class="nf">svd</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a>    <span class="sd">&quot;&quot;&quot;Computes the singular value decomposition of a matrix of Obs.&quot;&quot;&quot;</span>
-</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>    <span class="n">u</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">svd</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">full_matrices</span><span class="o">=</span><span class="kc">False</span><span class="p">)[</span><span class="mi">0</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>    <span class="n">s</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">svd</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">full_matrices</span><span class="o">=</span><span class="kc">False</span><span class="p">)[</span><span class="mi">1</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>    <span class="n">vh</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">svd</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">full_matrices</span><span class="o">=</span><span class="kc">False</span><span class="p">)[</span><span class="mi">2</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">u</span><span class="p">,</span> <span class="n">s</span><span class="p">,</span> <span class="n">vh</span><span class="p">)</span>
+</span><span id="L-278"><a href="#L-278"><span class="linenos">278</span></a>
+</span><span id="L-279"><a href="#L-279"><span class="linenos">279</span></a><span class="k">def</span> <span class="nf">svd</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-280"><a href="#L-280"><span class="linenos">280</span></a>    <span class="sd">&quot;&quot;&quot;Computes the singular value decomposition of a matrix of Obs.&quot;&quot;&quot;</span>
+</span><span id="L-281"><a href="#L-281"><span class="linenos">281</span></a>    <span class="n">u</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">svd</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">full_matrices</span><span class="o">=</span><span class="kc">False</span><span class="p">)[</span><span class="mi">0</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
+</span><span id="L-282"><a href="#L-282"><span class="linenos">282</span></a>    <span class="n">s</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">svd</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">full_matrices</span><span class="o">=</span><span class="kc">False</span><span class="p">)[</span><span class="mi">1</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
+</span><span id="L-283"><a href="#L-283"><span class="linenos">283</span></a>    <span class="n">vh</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">svd</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">full_matrices</span><span class="o">=</span><span class="kc">False</span><span class="p">)[</span><span class="mi">2</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
+</span><span id="L-284"><a href="#L-284"><span class="linenos">284</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">u</span><span class="p">,</span> <span class="n">s</span><span class="p">,</span> <span class="n">vh</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="matmul">
-                            <div class="attr function"><a class="headerlink" href="#matmul">#&nbsp;&nbsp</a>
+                            <input id="matmul-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">matmul</span><span class="signature pdoc-code condensed">(<span class="param"><span class="o">*</span><span class="n">operands</span></span>)</span>
+
+                <label class="view-source-button" for="matmul-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">matmul</span><span class="signature">(*operands)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="matmul-6"><a href="#matmul-6"><span class="linenos"> 6</span></a><span class="k">def</span> <span class="nf">matmul</span><span class="p">(</span><span class="o">*</span><span class="n">operands</span><span class="p">):</span>
-</span><span id="matmul-7"><a href="#matmul-7"><span class="linenos"> 7</span></a>    <span class="sd">&quot;&quot;&quot;Matrix multiply all operands.</span>
-</span><span id="matmul-8"><a href="#matmul-8"><span class="linenos"> 8</span></a>
-</span><span id="matmul-9"><a href="#matmul-9"><span class="linenos"> 9</span></a><span class="sd">    Parameters</span>
-</span><span id="matmul-10"><a href="#matmul-10"><span class="linenos">10</span></a><span class="sd">    ----------</span>
-</span><span id="matmul-11"><a href="#matmul-11"><span class="linenos">11</span></a><span class="sd">    operands : numpy.ndarray</span>
-</span><span id="matmul-12"><a href="#matmul-12"><span class="linenos">12</span></a><span class="sd">        Arbitrary number of 2d-numpy arrays which can be real or complex</span>
-</span><span id="matmul-13"><a href="#matmul-13"><span class="linenos">13</span></a><span class="sd">        Obs valued.</span>
-</span><span id="matmul-14"><a href="#matmul-14"><span class="linenos">14</span></a>
-</span><span id="matmul-15"><a href="#matmul-15"><span class="linenos">15</span></a><span class="sd">    This implementation is faster compared to standard multiplication via the @ operator.</span>
-</span><span id="matmul-16"><a href="#matmul-16"><span class="linenos">16</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="matmul-17"><a href="#matmul-17"><span class="linenos">17</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">):</span>
-</span><span id="matmul-18"><a href="#matmul-18"><span class="linenos">18</span></a>        <span class="n">extended_operands</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="matmul-19"><a href="#matmul-19"><span class="linenos">19</span></a>        <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">:</span>
-</span><span id="matmul-20"><a href="#matmul-20"><span class="linenos">20</span></a>            <span class="n">tmp</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">real</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">imag</span><span class="p">(</span><span class="n">x</span><span class="p">)))(</span><span class="n">op</span><span class="p">)</span>
-</span><span id="matmul-21"><a href="#matmul-21"><span class="linenos">21</span></a>            <span class="n">extended_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="matmul-22"><a href="#matmul-22"><span class="linenos">22</span></a>            <span class="n">extended_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="matmul-23"><a href="#matmul-23"><span class="linenos">23</span></a>
-</span><span id="matmul-24"><a href="#matmul-24"><span class="linenos">24</span></a>        <span class="k">def</span> <span class="nf">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">,</span> <span class="n">part</span><span class="p">):</span>
-</span><span id="matmul-25"><a href="#matmul-25"><span class="linenos">25</span></a>            <span class="n">stack_r</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="matmul-26"><a href="#matmul-26"><span class="linenos">26</span></a>            <span class="n">stack_i</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="matmul-27"><a href="#matmul-27"><span class="linenos">27</span></a>            <span class="k">for</span> <span class="n">op_r</span><span class="p">,</span> <span class="n">op_i</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">operands</span><span class="p">[</span><span class="mi">2</span><span class="p">::</span><span class="mi">2</span><span class="p">],</span> <span class="n">operands</span><span class="p">[</span><span class="mi">3</span><span class="p">::</span><span class="mi">2</span><span class="p">]):</span>
-</span><span id="matmul-28"><a href="#matmul-28"><span class="linenos">28</span></a>                <span class="n">tmp_r</span> <span class="o">=</span> <span class="n">stack_r</span> <span class="o">@</span> <span class="n">op_r</span> <span class="o">-</span> <span class="n">stack_i</span> <span class="o">@</span> <span class="n">op_i</span>
-</span><span id="matmul-29"><a href="#matmul-29"><span class="linenos">29</span></a>                <span class="n">tmp_i</span> <span class="o">=</span> <span class="n">stack_r</span> <span class="o">@</span> <span class="n">op_i</span> <span class="o">+</span> <span class="n">stack_i</span> <span class="o">@</span> <span class="n">op_r</span>
-</span><span id="matmul-30"><a href="#matmul-30"><span class="linenos">30</span></a>
-</span><span id="matmul-31"><a href="#matmul-31"><span class="linenos">31</span></a>                <span class="n">stack_r</span> <span class="o">=</span> <span class="n">tmp_r</span>
-</span><span id="matmul-32"><a href="#matmul-32"><span class="linenos">32</span></a>                <span class="n">stack_i</span> <span class="o">=</span> <span class="n">tmp_i</span>
-</span><span id="matmul-33"><a href="#matmul-33"><span class="linenos">33</span></a>
-</span><span id="matmul-34"><a href="#matmul-34"><span class="linenos">34</span></a>            <span class="k">if</span> <span class="n">part</span> <span class="o">==</span> <span class="s1">&#39;Real&#39;</span><span class="p">:</span>
-</span><span id="matmul-35"><a href="#matmul-35"><span class="linenos">35</span></a>                <span class="k">return</span> <span class="n">stack_r</span>
-</span><span id="matmul-36"><a href="#matmul-36"><span class="linenos">36</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="matmul-37"><a href="#matmul-37"><span class="linenos">37</span></a>                <span class="k">return</span> <span class="n">stack_i</span>
-</span><span id="matmul-38"><a href="#matmul-38"><span class="linenos">38</span></a>
-</span><span id="matmul-39"><a href="#matmul-39"><span class="linenos">39</span></a>        <span class="k">def</span> <span class="nf">multi_dot_r</span><span class="p">(</span><span class="n">operands</span><span class="p">):</span>
-</span><span id="matmul-40"><a href="#matmul-40"><span class="linenos">40</span></a>            <span class="k">return</span> <span class="n">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">,</span> <span class="s1">&#39;Real&#39;</span><span class="p">)</span>
-</span><span id="matmul-41"><a href="#matmul-41"><span class="linenos">41</span></a>
-</span><span id="matmul-42"><a href="#matmul-42"><span class="linenos">42</span></a>        <span class="k">def</span> <span class="nf">multi_dot_i</span><span class="p">(</span><span class="n">operands</span><span class="p">):</span>
-</span><span id="matmul-43"><a href="#matmul-43"><span class="linenos">43</span></a>            <span class="k">return</span> <span class="n">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">,</span> <span class="s1">&#39;Imag&#39;</span><span class="p">)</span>
-</span><span id="matmul-44"><a href="#matmul-44"><span class="linenos">44</span></a>
-</span><span id="matmul-45"><a href="#matmul-45"><span class="linenos">45</span></a>        <span class="n">Nr</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">multi_dot_r</span><span class="p">,</span> <span class="n">extended_operands</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="matmul-46"><a href="#matmul-46"><span class="linenos">46</span></a>        <span class="n">Ni</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">multi_dot_i</span><span class="p">,</span> <span class="n">extended_operands</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="matmul-47"><a href="#matmul-47"><span class="linenos">47</span></a>
-</span><span id="matmul-48"><a href="#matmul-48"><span class="linenos">48</span></a>        <span class="n">res</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">Nr</span><span class="p">)</span>
-</span><span id="matmul-49"><a href="#matmul-49"><span class="linenos">49</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">),</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">Nr</span><span class="p">):</span>
-</span><span id="matmul-50"><a href="#matmul-50"><span class="linenos">50</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">Nr</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">],</span> <span class="n">Ni</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">])</span>
-</span><span id="matmul-51"><a href="#matmul-51"><span class="linenos">51</span></a>
-</span><span id="matmul-52"><a href="#matmul-52"><span class="linenos">52</span></a>        <span class="k">return</span> <span class="n">res</span>
-</span><span id="matmul-53"><a href="#matmul-53"><span class="linenos">53</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="matmul-54"><a href="#matmul-54"><span class="linenos">54</span></a>        <span class="k">def</span> <span class="nf">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">):</span>
-</span><span id="matmul-55"><a href="#matmul-55"><span class="linenos">55</span></a>            <span class="n">stack</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="matmul-56"><a href="#matmul-56"><span class="linenos">56</span></a>            <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
-</span><span id="matmul-57"><a href="#matmul-57"><span class="linenos">57</span></a>                <span class="n">stack</span> <span class="o">=</span> <span class="n">stack</span> <span class="o">@</span> <span class="n">op</span>
-</span><span id="matmul-58"><a href="#matmul-58"><span class="linenos">58</span></a>            <span class="k">return</span> <span class="n">stack</span>
-</span><span id="matmul-59"><a href="#matmul-59"><span class="linenos">59</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">multi_dot</span><span class="p">,</span> <span class="n">operands</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+    <a class="headerlink" href="#matmul"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="matmul-7"><a href="#matmul-7"><span class="linenos"> 7</span></a><span class="k">def</span> <span class="nf">matmul</span><span class="p">(</span><span class="o">*</span><span class="n">operands</span><span class="p">):</span>
+</span><span id="matmul-8"><a href="#matmul-8"><span class="linenos"> 8</span></a>    <span class="sd">&quot;&quot;&quot;Matrix multiply all operands.</span>
+</span><span id="matmul-9"><a href="#matmul-9"><span class="linenos"> 9</span></a>
+</span><span id="matmul-10"><a href="#matmul-10"><span class="linenos">10</span></a><span class="sd">    Parameters</span>
+</span><span id="matmul-11"><a href="#matmul-11"><span class="linenos">11</span></a><span class="sd">    ----------</span>
+</span><span id="matmul-12"><a href="#matmul-12"><span class="linenos">12</span></a><span class="sd">    operands : numpy.ndarray</span>
+</span><span id="matmul-13"><a href="#matmul-13"><span class="linenos">13</span></a><span class="sd">        Arbitrary number of 2d-numpy arrays which can be real or complex</span>
+</span><span id="matmul-14"><a href="#matmul-14"><span class="linenos">14</span></a><span class="sd">        Obs valued.</span>
+</span><span id="matmul-15"><a href="#matmul-15"><span class="linenos">15</span></a>
+</span><span id="matmul-16"><a href="#matmul-16"><span class="linenos">16</span></a><span class="sd">    This implementation is faster compared to standard multiplication via the @ operator.</span>
+</span><span id="matmul-17"><a href="#matmul-17"><span class="linenos">17</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="matmul-18"><a href="#matmul-18"><span class="linenos">18</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">):</span>
+</span><span id="matmul-19"><a href="#matmul-19"><span class="linenos">19</span></a>        <span class="n">extended_operands</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="matmul-20"><a href="#matmul-20"><span class="linenos">20</span></a>        <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">:</span>
+</span><span id="matmul-21"><a href="#matmul-21"><span class="linenos">21</span></a>            <span class="n">tmp</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">real</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">imag</span><span class="p">(</span><span class="n">x</span><span class="p">)))(</span><span class="n">op</span><span class="p">)</span>
+</span><span id="matmul-22"><a href="#matmul-22"><span class="linenos">22</span></a>            <span class="n">extended_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="matmul-23"><a href="#matmul-23"><span class="linenos">23</span></a>            <span class="n">extended_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="matmul-24"><a href="#matmul-24"><span class="linenos">24</span></a>
+</span><span id="matmul-25"><a href="#matmul-25"><span class="linenos">25</span></a>        <span class="k">def</span> <span class="nf">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">,</span> <span class="n">part</span><span class="p">):</span>
+</span><span id="matmul-26"><a href="#matmul-26"><span class="linenos">26</span></a>            <span class="n">stack_r</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="matmul-27"><a href="#matmul-27"><span class="linenos">27</span></a>            <span class="n">stack_i</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="matmul-28"><a href="#matmul-28"><span class="linenos">28</span></a>            <span class="k">for</span> <span class="n">op_r</span><span class="p">,</span> <span class="n">op_i</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">operands</span><span class="p">[</span><span class="mi">2</span><span class="p">::</span><span class="mi">2</span><span class="p">],</span> <span class="n">operands</span><span class="p">[</span><span class="mi">3</span><span class="p">::</span><span class="mi">2</span><span class="p">]):</span>
+</span><span id="matmul-29"><a href="#matmul-29"><span class="linenos">29</span></a>                <span class="n">tmp_r</span> <span class="o">=</span> <span class="n">stack_r</span> <span class="o">@</span> <span class="n">op_r</span> <span class="o">-</span> <span class="n">stack_i</span> <span class="o">@</span> <span class="n">op_i</span>
+</span><span id="matmul-30"><a href="#matmul-30"><span class="linenos">30</span></a>                <span class="n">tmp_i</span> <span class="o">=</span> <span class="n">stack_r</span> <span class="o">@</span> <span class="n">op_i</span> <span class="o">+</span> <span class="n">stack_i</span> <span class="o">@</span> <span class="n">op_r</span>
+</span><span id="matmul-31"><a href="#matmul-31"><span class="linenos">31</span></a>
+</span><span id="matmul-32"><a href="#matmul-32"><span class="linenos">32</span></a>                <span class="n">stack_r</span> <span class="o">=</span> <span class="n">tmp_r</span>
+</span><span id="matmul-33"><a href="#matmul-33"><span class="linenos">33</span></a>                <span class="n">stack_i</span> <span class="o">=</span> <span class="n">tmp_i</span>
+</span><span id="matmul-34"><a href="#matmul-34"><span class="linenos">34</span></a>
+</span><span id="matmul-35"><a href="#matmul-35"><span class="linenos">35</span></a>            <span class="k">if</span> <span class="n">part</span> <span class="o">==</span> <span class="s1">&#39;Real&#39;</span><span class="p">:</span>
+</span><span id="matmul-36"><a href="#matmul-36"><span class="linenos">36</span></a>                <span class="k">return</span> <span class="n">stack_r</span>
+</span><span id="matmul-37"><a href="#matmul-37"><span class="linenos">37</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="matmul-38"><a href="#matmul-38"><span class="linenos">38</span></a>                <span class="k">return</span> <span class="n">stack_i</span>
+</span><span id="matmul-39"><a href="#matmul-39"><span class="linenos">39</span></a>
+</span><span id="matmul-40"><a href="#matmul-40"><span class="linenos">40</span></a>        <span class="k">def</span> <span class="nf">multi_dot_r</span><span class="p">(</span><span class="n">operands</span><span class="p">):</span>
+</span><span id="matmul-41"><a href="#matmul-41"><span class="linenos">41</span></a>            <span class="k">return</span> <span class="n">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">,</span> <span class="s1">&#39;Real&#39;</span><span class="p">)</span>
+</span><span id="matmul-42"><a href="#matmul-42"><span class="linenos">42</span></a>
+</span><span id="matmul-43"><a href="#matmul-43"><span class="linenos">43</span></a>        <span class="k">def</span> <span class="nf">multi_dot_i</span><span class="p">(</span><span class="n">operands</span><span class="p">):</span>
+</span><span id="matmul-44"><a href="#matmul-44"><span class="linenos">44</span></a>            <span class="k">return</span> <span class="n">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">,</span> <span class="s1">&#39;Imag&#39;</span><span class="p">)</span>
+</span><span id="matmul-45"><a href="#matmul-45"><span class="linenos">45</span></a>
+</span><span id="matmul-46"><a href="#matmul-46"><span class="linenos">46</span></a>        <span class="n">Nr</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">multi_dot_r</span><span class="p">,</span> <span class="n">extended_operands</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="matmul-47"><a href="#matmul-47"><span class="linenos">47</span></a>        <span class="n">Ni</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">multi_dot_i</span><span class="p">,</span> <span class="n">extended_operands</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="matmul-48"><a href="#matmul-48"><span class="linenos">48</span></a>
+</span><span id="matmul-49"><a href="#matmul-49"><span class="linenos">49</span></a>        <span class="n">res</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">Nr</span><span class="p">)</span>
+</span><span id="matmul-50"><a href="#matmul-50"><span class="linenos">50</span></a>        <span class="k">for</span> <span class="p">(</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">),</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">Nr</span><span class="p">):</span>
+</span><span id="matmul-51"><a href="#matmul-51"><span class="linenos">51</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">Nr</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">],</span> <span class="n">Ni</span><span class="p">[</span><span class="n">n</span><span class="p">,</span> <span class="n">m</span><span class="p">])</span>
+</span><span id="matmul-52"><a href="#matmul-52"><span class="linenos">52</span></a>
+</span><span id="matmul-53"><a href="#matmul-53"><span class="linenos">53</span></a>        <span class="k">return</span> <span class="n">res</span>
+</span><span id="matmul-54"><a href="#matmul-54"><span class="linenos">54</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="matmul-55"><a href="#matmul-55"><span class="linenos">55</span></a>        <span class="k">def</span> <span class="nf">multi_dot</span><span class="p">(</span><span class="n">operands</span><span class="p">):</span>
+</span><span id="matmul-56"><a href="#matmul-56"><span class="linenos">56</span></a>            <span class="n">stack</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="matmul-57"><a href="#matmul-57"><span class="linenos">57</span></a>            <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
+</span><span id="matmul-58"><a href="#matmul-58"><span class="linenos">58</span></a>                <span class="n">stack</span> <span class="o">=</span> <span class="n">stack</span> <span class="o">@</span> <span class="n">op</span>
+</span><span id="matmul-59"><a href="#matmul-59"><span class="linenos">59</span></a>            <span class="k">return</span> <span class="n">stack</span>
+</span><span id="matmul-60"><a href="#matmul-60"><span class="linenos">60</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="n">multi_dot</span><span class="p">,</span> <span class="n">operands</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Matrix multiply all operands.</p>
 
@@ -468,77 +469,77 @@ Obs valued.</li>
 
                 </section>
                 <section id="jack_matmul">
-                            <div class="attr function"><a class="headerlink" href="#jack_matmul">#&nbsp;&nbsp</a>
+                            <input id="jack_matmul-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">jack_matmul</span><span class="signature pdoc-code condensed">(<span class="param"><span class="o">*</span><span class="n">operands</span></span>)</span>
+
+                <label class="view-source-button" for="jack_matmul-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">jack_matmul</span><span class="signature">(*operands)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="jack_matmul-62"><a href="#jack_matmul-62"><span class="linenos"> 62</span></a><span class="k">def</span> <span class="nf">jack_matmul</span><span class="p">(</span><span class="o">*</span><span class="n">operands</span><span class="p">):</span>
-</span><span id="jack_matmul-63"><a href="#jack_matmul-63"><span class="linenos"> 63</span></a>    <span class="sd">&quot;&quot;&quot;Matrix multiply both operands making use of the jackknife approximation.</span>
-</span><span id="jack_matmul-64"><a href="#jack_matmul-64"><span class="linenos"> 64</span></a>
-</span><span id="jack_matmul-65"><a href="#jack_matmul-65"><span class="linenos"> 65</span></a><span class="sd">    Parameters</span>
-</span><span id="jack_matmul-66"><a href="#jack_matmul-66"><span class="linenos"> 66</span></a><span class="sd">    ----------</span>
-</span><span id="jack_matmul-67"><a href="#jack_matmul-67"><span class="linenos"> 67</span></a><span class="sd">    operands : numpy.ndarray</span>
-</span><span id="jack_matmul-68"><a href="#jack_matmul-68"><span class="linenos"> 68</span></a><span class="sd">        Arbitrary number of 2d-numpy arrays which can be real or complex</span>
-</span><span id="jack_matmul-69"><a href="#jack_matmul-69"><span class="linenos"> 69</span></a><span class="sd">        Obs valued.</span>
-</span><span id="jack_matmul-70"><a href="#jack_matmul-70"><span class="linenos"> 70</span></a>
-</span><span id="jack_matmul-71"><a href="#jack_matmul-71"><span class="linenos"> 71</span></a><span class="sd">    For large matrices this is considerably faster compared to matmul.</span>
-</span><span id="jack_matmul-72"><a href="#jack_matmul-72"><span class="linenos"> 72</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="jack_matmul-73"><a href="#jack_matmul-73"><span class="linenos"> 73</span></a>
-</span><span id="jack_matmul-74"><a href="#jack_matmul-74"><span class="linenos"> 74</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="jack_matmul-75"><a href="#jack_matmul-75"><span class="linenos"> 75</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
-</span><span id="jack_matmul-76"><a href="#jack_matmul-76"><span class="linenos"> 76</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="jack_matmul-77"><a href="#jack_matmul-77"><span class="linenos"> 77</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span>
-</span><span id="jack_matmul-78"><a href="#jack_matmul-78"><span class="linenos"> 78</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
-</span><span id="jack_matmul-79"><a href="#jack_matmul-79"><span class="linenos"> 79</span></a>
-</span><span id="jack_matmul-80"><a href="#jack_matmul-80"><span class="linenos"> 80</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
-</span><span id="jack_matmul-81"><a href="#jack_matmul-81"><span class="linenos"> 81</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
-</span><span id="jack_matmul-82"><a href="#jack_matmul-82"><span class="linenos"> 82</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="jack_matmul-83"><a href="#jack_matmul-83"><span class="linenos"> 83</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">import_jackknife</span><span class="p">(</span><span class="n">entry</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">])</span>
-</span><span id="jack_matmul-84"><a href="#jack_matmul-84"><span class="linenos"> 84</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
-</span><span id="jack_matmul-85"><a href="#jack_matmul-85"><span class="linenos"> 85</span></a>
-</span><span id="jack_matmul-86"><a href="#jack_matmul-86"><span class="linenos"> 86</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="jack_matmul-87"><a href="#jack_matmul-87"><span class="linenos"> 87</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
-</span><span id="jack_matmul-88"><a href="#jack_matmul-88"><span class="linenos"> 88</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="jack_matmul-89"><a href="#jack_matmul-89"><span class="linenos"> 89</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">entry</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span>
-</span><span id="jack_matmul-90"><a href="#jack_matmul-90"><span class="linenos"> 90</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
-</span><span id="jack_matmul-91"><a href="#jack_matmul-91"><span class="linenos"> 91</span></a>
-</span><span id="jack_matmul-92"><a href="#jack_matmul-92"><span class="linenos"> 92</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
-</span><span id="jack_matmul-93"><a href="#jack_matmul-93"><span class="linenos"> 93</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
-</span><span id="jack_matmul-94"><a href="#jack_matmul-94"><span class="linenos"> 94</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="jack_matmul-95"><a href="#jack_matmul-95"><span class="linenos"> 95</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">import_jackknife</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]),</span>
-</span><span id="jack_matmul-96"><a href="#jack_matmul-96"><span class="linenos"> 96</span></a>                                      <span class="n">import_jackknife</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]))</span>
-</span><span id="jack_matmul-97"><a href="#jack_matmul-97"><span class="linenos"> 97</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
-</span><span id="jack_matmul-98"><a href="#jack_matmul-98"><span class="linenos"> 98</span></a>
-</span><span id="jack_matmul-99"><a href="#jack_matmul-99"><span class="linenos"> 99</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">):</span>
-</span><span id="jack_matmul-100"><a href="#jack_matmul-100"><span class="linenos">100</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="jack_matmul-101"><a href="#jack_matmul-101"><span class="linenos">101</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="jack_matmul-102"><a href="#jack_matmul-102"><span class="linenos">102</span></a>
-</span><span id="jack_matmul-103"><a href="#jack_matmul-103"><span class="linenos">103</span></a>        <span class="n">r</span> <span class="o">=</span> <span class="n">_exp_to_jack_c</span><span class="p">(</span><span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="jack_matmul-104"><a href="#jack_matmul-104"><span class="linenos">104</span></a>        <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
-</span><span id="jack_matmul-105"><a href="#jack_matmul-105"><span class="linenos">105</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">):</span>
-</span><span id="jack_matmul-106"><a href="#jack_matmul-106"><span class="linenos">106</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">_exp_to_jack_c</span><span class="p">(</span><span class="n">op</span><span class="p">)</span>
-</span><span id="jack_matmul-107"><a href="#jack_matmul-107"><span class="linenos">107</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="jack_matmul-108"><a href="#jack_matmul-108"><span class="linenos">108</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">op</span>
-</span><span id="jack_matmul-109"><a href="#jack_matmul-109"><span class="linenos">109</span></a>        <span class="k">return</span> <span class="n">_imp_from_jack_c</span><span class="p">(</span><span class="n">r</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="jack_matmul-110"><a href="#jack_matmul-110"><span class="linenos">110</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="jack_matmul-111"><a href="#jack_matmul-111"><span class="linenos">111</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="jack_matmul-112"><a href="#jack_matmul-112"><span class="linenos">112</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="jack_matmul-113"><a href="#jack_matmul-113"><span class="linenos">113</span></a>
-</span><span id="jack_matmul-114"><a href="#jack_matmul-114"><span class="linenos">114</span></a>        <span class="n">r</span> <span class="o">=</span> <span class="n">_exp_to_jack</span><span class="p">(</span><span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="jack_matmul-115"><a href="#jack_matmul-115"><span class="linenos">115</span></a>        <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
-</span><span id="jack_matmul-116"><a href="#jack_matmul-116"><span class="linenos">116</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="jack_matmul-117"><a href="#jack_matmul-117"><span class="linenos">117</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">_exp_to_jack</span><span class="p">(</span><span class="n">op</span><span class="p">)</span>
-</span><span id="jack_matmul-118"><a href="#jack_matmul-118"><span class="linenos">118</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="jack_matmul-119"><a href="#jack_matmul-119"><span class="linenos">119</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">op</span>
-</span><span id="jack_matmul-120"><a href="#jack_matmul-120"><span class="linenos">120</span></a>        <span class="k">return</span> <span class="n">_imp_from_jack</span><span class="p">(</span><span class="n">r</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+    <a class="headerlink" href="#jack_matmul"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="jack_matmul-63"><a href="#jack_matmul-63"><span class="linenos"> 63</span></a><span class="k">def</span> <span class="nf">jack_matmul</span><span class="p">(</span><span class="o">*</span><span class="n">operands</span><span class="p">):</span>
+</span><span id="jack_matmul-64"><a href="#jack_matmul-64"><span class="linenos"> 64</span></a>    <span class="sd">&quot;&quot;&quot;Matrix multiply both operands making use of the jackknife approximation.</span>
+</span><span id="jack_matmul-65"><a href="#jack_matmul-65"><span class="linenos"> 65</span></a>
+</span><span id="jack_matmul-66"><a href="#jack_matmul-66"><span class="linenos"> 66</span></a><span class="sd">    Parameters</span>
+</span><span id="jack_matmul-67"><a href="#jack_matmul-67"><span class="linenos"> 67</span></a><span class="sd">    ----------</span>
+</span><span id="jack_matmul-68"><a href="#jack_matmul-68"><span class="linenos"> 68</span></a><span class="sd">    operands : numpy.ndarray</span>
+</span><span id="jack_matmul-69"><a href="#jack_matmul-69"><span class="linenos"> 69</span></a><span class="sd">        Arbitrary number of 2d-numpy arrays which can be real or complex</span>
+</span><span id="jack_matmul-70"><a href="#jack_matmul-70"><span class="linenos"> 70</span></a><span class="sd">        Obs valued.</span>
+</span><span id="jack_matmul-71"><a href="#jack_matmul-71"><span class="linenos"> 71</span></a>
+</span><span id="jack_matmul-72"><a href="#jack_matmul-72"><span class="linenos"> 72</span></a><span class="sd">    For large matrices this is considerably faster compared to matmul.</span>
+</span><span id="jack_matmul-73"><a href="#jack_matmul-73"><span class="linenos"> 73</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="jack_matmul-74"><a href="#jack_matmul-74"><span class="linenos"> 74</span></a>
+</span><span id="jack_matmul-75"><a href="#jack_matmul-75"><span class="linenos"> 75</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="jack_matmul-76"><a href="#jack_matmul-76"><span class="linenos"> 76</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
+</span><span id="jack_matmul-77"><a href="#jack_matmul-77"><span class="linenos"> 77</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="jack_matmul-78"><a href="#jack_matmul-78"><span class="linenos"> 78</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span>
+</span><span id="jack_matmul-79"><a href="#jack_matmul-79"><span class="linenos"> 79</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
+</span><span id="jack_matmul-80"><a href="#jack_matmul-80"><span class="linenos"> 80</span></a>
+</span><span id="jack_matmul-81"><a href="#jack_matmul-81"><span class="linenos"> 81</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
+</span><span id="jack_matmul-82"><a href="#jack_matmul-82"><span class="linenos"> 82</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
+</span><span id="jack_matmul-83"><a href="#jack_matmul-83"><span class="linenos"> 83</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="jack_matmul-84"><a href="#jack_matmul-84"><span class="linenos"> 84</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">import_jackknife</span><span class="p">(</span><span class="n">entry</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">])</span>
+</span><span id="jack_matmul-85"><a href="#jack_matmul-85"><span class="linenos"> 85</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
+</span><span id="jack_matmul-86"><a href="#jack_matmul-86"><span class="linenos"> 86</span></a>
+</span><span id="jack_matmul-87"><a href="#jack_matmul-87"><span class="linenos"> 87</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="jack_matmul-88"><a href="#jack_matmul-88"><span class="linenos"> 88</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
+</span><span id="jack_matmul-89"><a href="#jack_matmul-89"><span class="linenos"> 89</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="jack_matmul-90"><a href="#jack_matmul-90"><span class="linenos"> 90</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">entry</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span>
+</span><span id="jack_matmul-91"><a href="#jack_matmul-91"><span class="linenos"> 91</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
+</span><span id="jack_matmul-92"><a href="#jack_matmul-92"><span class="linenos"> 92</span></a>
+</span><span id="jack_matmul-93"><a href="#jack_matmul-93"><span class="linenos"> 93</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
+</span><span id="jack_matmul-94"><a href="#jack_matmul-94"><span class="linenos"> 94</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty_like</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
+</span><span id="jack_matmul-95"><a href="#jack_matmul-95"><span class="linenos"> 95</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="jack_matmul-96"><a href="#jack_matmul-96"><span class="linenos"> 96</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">import_jackknife</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]),</span>
+</span><span id="jack_matmul-97"><a href="#jack_matmul-97"><span class="linenos"> 97</span></a>                                      <span class="n">import_jackknife</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]))</span>
+</span><span id="jack_matmul-98"><a href="#jack_matmul-98"><span class="linenos"> 98</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
+</span><span id="jack_matmul-99"><a href="#jack_matmul-99"><span class="linenos"> 99</span></a>
+</span><span id="jack_matmul-100"><a href="#jack_matmul-100"><span class="linenos">100</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">):</span>
+</span><span id="jack_matmul-101"><a href="#jack_matmul-101"><span class="linenos">101</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="jack_matmul-102"><a href="#jack_matmul-102"><span class="linenos">102</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="jack_matmul-103"><a href="#jack_matmul-103"><span class="linenos">103</span></a>
+</span><span id="jack_matmul-104"><a href="#jack_matmul-104"><span class="linenos">104</span></a>        <span class="n">r</span> <span class="o">=</span> <span class="n">_exp_to_jack_c</span><span class="p">(</span><span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="jack_matmul-105"><a href="#jack_matmul-105"><span class="linenos">105</span></a>        <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
+</span><span id="jack_matmul-106"><a href="#jack_matmul-106"><span class="linenos">106</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">):</span>
+</span><span id="jack_matmul-107"><a href="#jack_matmul-107"><span class="linenos">107</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">_exp_to_jack_c</span><span class="p">(</span><span class="n">op</span><span class="p">)</span>
+</span><span id="jack_matmul-108"><a href="#jack_matmul-108"><span class="linenos">108</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="jack_matmul-109"><a href="#jack_matmul-109"><span class="linenos">109</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">op</span>
+</span><span id="jack_matmul-110"><a href="#jack_matmul-110"><span class="linenos">110</span></a>        <span class="k">return</span> <span class="n">_imp_from_jack_c</span><span class="p">(</span><span class="n">r</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="jack_matmul-111"><a href="#jack_matmul-111"><span class="linenos">111</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="jack_matmul-112"><a href="#jack_matmul-112"><span class="linenos">112</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="jack_matmul-113"><a href="#jack_matmul-113"><span class="linenos">113</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="jack_matmul-114"><a href="#jack_matmul-114"><span class="linenos">114</span></a>
+</span><span id="jack_matmul-115"><a href="#jack_matmul-115"><span class="linenos">115</span></a>        <span class="n">r</span> <span class="o">=</span> <span class="n">_exp_to_jack</span><span class="p">(</span><span class="n">operands</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="jack_matmul-116"><a href="#jack_matmul-116"><span class="linenos">116</span></a>        <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
+</span><span id="jack_matmul-117"><a href="#jack_matmul-117"><span class="linenos">117</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="jack_matmul-118"><a href="#jack_matmul-118"><span class="linenos">118</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">_exp_to_jack</span><span class="p">(</span><span class="n">op</span><span class="p">)</span>
+</span><span id="jack_matmul-119"><a href="#jack_matmul-119"><span class="linenos">119</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="jack_matmul-120"><a href="#jack_matmul-120"><span class="linenos">120</span></a>                <span class="n">r</span> <span class="o">=</span> <span class="n">r</span> <span class="o">@</span> <span class="n">op</span>
+</span><span id="jack_matmul-121"><a href="#jack_matmul-121"><span class="linenos">121</span></a>        <span class="k">return</span> <span class="n">_imp_from_jack</span><span class="p">(</span><span class="n">r</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Matrix multiply both operands making use of the jackknife approximation.</p>
 
@@ -555,90 +556,90 @@ Obs valued.</li>
 
                 </section>
                 <section id="einsum">
-                            <div class="attr function"><a class="headerlink" href="#einsum">#&nbsp;&nbsp</a>
+                            <input id="einsum-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">einsum</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">subscripts</span>, </span><span class="param"><span class="o">*</span><span class="n">operands</span></span>)</span>
+
+                <label class="view-source-button" for="einsum-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">einsum</span><span class="signature">(subscripts, *operands)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="einsum-123"><a href="#einsum-123"><span class="linenos">123</span></a><span class="k">def</span> <span class="nf">einsum</span><span class="p">(</span><span class="n">subscripts</span><span class="p">,</span> <span class="o">*</span><span class="n">operands</span><span class="p">):</span>
-</span><span id="einsum-124"><a href="#einsum-124"><span class="linenos">124</span></a>    <span class="sd">&quot;&quot;&quot;Wrapper for numpy.einsum</span>
-</span><span id="einsum-125"><a href="#einsum-125"><span class="linenos">125</span></a>
-</span><span id="einsum-126"><a href="#einsum-126"><span class="linenos">126</span></a><span class="sd">    Parameters</span>
-</span><span id="einsum-127"><a href="#einsum-127"><span class="linenos">127</span></a><span class="sd">    ----------</span>
-</span><span id="einsum-128"><a href="#einsum-128"><span class="linenos">128</span></a><span class="sd">    subscripts : str</span>
-</span><span id="einsum-129"><a href="#einsum-129"><span class="linenos">129</span></a><span class="sd">        Subscripts for summation (see numpy documentation for details)</span>
-</span><span id="einsum-130"><a href="#einsum-130"><span class="linenos">130</span></a><span class="sd">    operands : numpy.ndarray</span>
-</span><span id="einsum-131"><a href="#einsum-131"><span class="linenos">131</span></a><span class="sd">        Arbitrary number of 2d-numpy arrays which can be real or complex</span>
-</span><span id="einsum-132"><a href="#einsum-132"><span class="linenos">132</span></a><span class="sd">        Obs valued.</span>
-</span><span id="einsum-133"><a href="#einsum-133"><span class="linenos">133</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="einsum-134"><a href="#einsum-134"><span class="linenos">134</span></a>
-</span><span id="einsum-135"><a href="#einsum-135"><span class="linenos">135</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="einsum-136"><a href="#einsum-136"><span class="linenos">136</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="einsum-137"><a href="#einsum-137"><span class="linenos">137</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="einsum-138"><a href="#einsum-138"><span class="linenos">138</span></a>            <span class="n">base_matrix</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">())</span>
-</span><span id="einsum-139"><a href="#einsum-139"><span class="linenos">139</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">base_matrix</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="n">base_matrix</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
-</span><span id="einsum-140"><a href="#einsum-140"><span class="linenos">140</span></a>
-</span><span id="einsum-141"><a href="#einsum-141"><span class="linenos">141</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="einsum-142"><a href="#einsum-142"><span class="linenos">142</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="einsum-143"><a href="#einsum-143"><span class="linenos">143</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
-</span><span id="einsum-144"><a href="#einsum-144"><span class="linenos">144</span></a>            <span class="n">base_matrix</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">entry</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">())</span>
-</span><span id="einsum-145"><a href="#einsum-145"><span class="linenos">145</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">base_matrix</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="n">base_matrix</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
-</span><span id="einsum-146"><a href="#einsum-146"><span class="linenos">146</span></a>
-</span><span id="einsum-147"><a href="#einsum-147"><span class="linenos">147</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
-</span><span id="einsum-148"><a href="#einsum-148"><span class="linenos">148</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">(</span><span class="n">shape</span><span class="o">=</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="einsum-149"><a href="#einsum-149"><span class="linenos">149</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="einsum-150"><a href="#einsum-150"><span class="linenos">150</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">import_jackknife</span><span class="p">(</span><span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">],</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">])</span>
-</span><span id="einsum-151"><a href="#einsum-151"><span class="linenos">151</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
-</span><span id="einsum-152"><a href="#einsum-152"><span class="linenos">152</span></a>
-</span><span id="einsum-153"><a href="#einsum-153"><span class="linenos">153</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
-</span><span id="einsum-154"><a href="#einsum-154"><span class="linenos">154</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">(</span><span class="n">shape</span><span class="o">=</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="einsum-155"><a href="#einsum-155"><span class="linenos">155</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
-</span><span id="einsum-156"><a href="#einsum-156"><span class="linenos">156</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">import_jackknife</span><span class="p">(</span><span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]),</span>
-</span><span id="einsum-157"><a href="#einsum-157"><span class="linenos">157</span></a>                                      <span class="n">import_jackknife</span><span class="p">(</span><span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]))</span>
-</span><span id="einsum-158"><a href="#einsum-158"><span class="linenos">158</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
-</span><span id="einsum-159"><a href="#einsum-159"><span class="linenos">159</span></a>
-</span><span id="einsum-160"><a href="#einsum-160"><span class="linenos">160</span></a>    <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">:</span>
-</span><span id="einsum-161"><a href="#einsum-161"><span class="linenos">161</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">):</span>
-</span><span id="einsum-162"><a href="#einsum-162"><span class="linenos">162</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="einsum-163"><a href="#einsum-163"><span class="linenos">163</span></a>            <span class="n">idl</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="einsum-164"><a href="#einsum-164"><span class="linenos">164</span></a>            <span class="k">break</span>
-</span><span id="einsum-165"><a href="#einsum-165"><span class="linenos">165</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="einsum-166"><a href="#einsum-166"><span class="linenos">166</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="einsum-167"><a href="#einsum-167"><span class="linenos">167</span></a>            <span class="n">idl</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="einsum-168"><a href="#einsum-168"><span class="linenos">168</span></a>            <span class="k">break</span>
-</span><span id="einsum-169"><a href="#einsum-169"><span class="linenos">169</span></a>
-</span><span id="einsum-170"><a href="#einsum-170"><span class="linenos">170</span></a>    <span class="n">conv_operands</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="einsum-171"><a href="#einsum-171"><span class="linenos">171</span></a>    <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">:</span>
-</span><span id="einsum-172"><a href="#einsum-172"><span class="linenos">172</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">):</span>
-</span><span id="einsum-173"><a href="#einsum-173"><span class="linenos">173</span></a>            <span class="n">conv_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_exp_to_jack_c</span><span class="p">(</span><span class="n">op</span><span class="p">))</span>
-</span><span id="einsum-174"><a href="#einsum-174"><span class="linenos">174</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="einsum-175"><a href="#einsum-175"><span class="linenos">175</span></a>            <span class="n">conv_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_exp_to_jack</span><span class="p">(</span><span class="n">op</span><span class="p">))</span>
-</span><span id="einsum-176"><a href="#einsum-176"><span class="linenos">176</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="einsum-177"><a href="#einsum-177"><span class="linenos">177</span></a>            <span class="n">conv_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">op</span><span class="p">)</span>
-</span><span id="einsum-178"><a href="#einsum-178"><span class="linenos">178</span></a>
-</span><span id="einsum-179"><a href="#einsum-179"><span class="linenos">179</span></a>    <span class="n">tmp_subscripts</span> <span class="o">=</span> <span class="s1">&#39;,&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="n">o</span> <span class="o">+</span> <span class="s1">&#39;...&#39;</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">subscripts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)])</span>
-</span><span id="einsum-180"><a href="#einsum-180"><span class="linenos">180</span></a>    <span class="n">extended_subscripts</span> <span class="o">=</span> <span class="s1">&#39;-&gt;&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="n">o</span> <span class="o">+</span> <span class="s1">&#39;...&#39;</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">tmp_subscripts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;-&gt;&#39;</span><span class="p">)[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span> <span class="o">+</span> <span class="p">[</span><span class="n">tmp_subscripts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;-&gt;&#39;</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]])</span>
-</span><span id="einsum-181"><a href="#einsum-181"><span class="linenos">181</span></a>    <span class="n">einsum_path</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">einsum_path</span><span class="p">(</span><span class="n">extended_subscripts</span><span class="p">,</span> <span class="o">*</span><span class="n">conv_operands</span><span class="p">,</span> <span class="n">optimize</span><span class="o">=</span><span class="s1">&#39;optimal&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="einsum-182"><a href="#einsum-182"><span class="linenos">182</span></a>    <span class="n">jack_einsum</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">einsum</span><span class="p">(</span><span class="n">extended_subscripts</span><span class="p">,</span> <span class="o">*</span><span class="n">conv_operands</span><span class="p">,</span> <span class="n">optimize</span><span class="o">=</span><span class="n">einsum_path</span><span class="p">)</span>
-</span><span id="einsum-183"><a href="#einsum-183"><span class="linenos">183</span></a>
-</span><span id="einsum-184"><a href="#einsum-184"><span class="linenos">184</span></a>    <span class="k">if</span> <span class="n">jack_einsum</span><span class="o">.</span><span class="n">dtype</span> <span class="o">==</span> <span class="nb">complex</span><span class="p">:</span>
-</span><span id="einsum-185"><a href="#einsum-185"><span class="linenos">185</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">_imp_from_jack_c</span><span class="p">(</span><span class="n">jack_einsum</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="einsum-186"><a href="#einsum-186"><span class="linenos">186</span></a>    <span class="k">elif</span> <span class="n">jack_einsum</span><span class="o">.</span><span class="n">dtype</span> <span class="o">==</span> <span class="nb">float</span><span class="p">:</span>
-</span><span id="einsum-187"><a href="#einsum-187"><span class="linenos">187</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">_imp_from_jack</span><span class="p">(</span><span class="n">jack_einsum</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
-</span><span id="einsum-188"><a href="#einsum-188"><span class="linenos">188</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="einsum-189"><a href="#einsum-189"><span class="linenos">189</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Result has unexpected datatype&quot;</span><span class="p">)</span>
-</span><span id="einsum-190"><a href="#einsum-190"><span class="linenos">190</span></a>
-</span><span id="einsum-191"><a href="#einsum-191"><span class="linenos">191</span></a>    <span class="k">if</span> <span class="n">result</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">():</span>
-</span><span id="einsum-192"><a href="#einsum-192"><span class="linenos">192</span></a>        <span class="k">return</span> <span class="n">result</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="einsum-193"><a href="#einsum-193"><span class="linenos">193</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="einsum-194"><a href="#einsum-194"><span class="linenos">194</span></a>        <span class="k">return</span> <span class="n">result</span>
+    <a class="headerlink" href="#einsum"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="einsum-124"><a href="#einsum-124"><span class="linenos">124</span></a><span class="k">def</span> <span class="nf">einsum</span><span class="p">(</span><span class="n">subscripts</span><span class="p">,</span> <span class="o">*</span><span class="n">operands</span><span class="p">):</span>
+</span><span id="einsum-125"><a href="#einsum-125"><span class="linenos">125</span></a>    <span class="sd">&quot;&quot;&quot;Wrapper for numpy.einsum</span>
+</span><span id="einsum-126"><a href="#einsum-126"><span class="linenos">126</span></a>
+</span><span id="einsum-127"><a href="#einsum-127"><span class="linenos">127</span></a><span class="sd">    Parameters</span>
+</span><span id="einsum-128"><a href="#einsum-128"><span class="linenos">128</span></a><span class="sd">    ----------</span>
+</span><span id="einsum-129"><a href="#einsum-129"><span class="linenos">129</span></a><span class="sd">    subscripts : str</span>
+</span><span id="einsum-130"><a href="#einsum-130"><span class="linenos">130</span></a><span class="sd">        Subscripts for summation (see numpy documentation for details)</span>
+</span><span id="einsum-131"><a href="#einsum-131"><span class="linenos">131</span></a><span class="sd">    operands : numpy.ndarray</span>
+</span><span id="einsum-132"><a href="#einsum-132"><span class="linenos">132</span></a><span class="sd">        Arbitrary number of 2d-numpy arrays which can be real or complex</span>
+</span><span id="einsum-133"><a href="#einsum-133"><span class="linenos">133</span></a><span class="sd">        Obs valued.</span>
+</span><span id="einsum-134"><a href="#einsum-134"><span class="linenos">134</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="einsum-135"><a href="#einsum-135"><span class="linenos">135</span></a>
+</span><span id="einsum-136"><a href="#einsum-136"><span class="linenos">136</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="einsum-137"><a href="#einsum-137"><span class="linenos">137</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="einsum-138"><a href="#einsum-138"><span class="linenos">138</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="einsum-139"><a href="#einsum-139"><span class="linenos">139</span></a>            <span class="n">base_matrix</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">())</span>
+</span><span id="einsum-140"><a href="#einsum-140"><span class="linenos">140</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">base_matrix</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="n">base_matrix</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
+</span><span id="einsum-141"><a href="#einsum-141"><span class="linenos">141</span></a>
+</span><span id="einsum-142"><a href="#einsum-142"><span class="linenos">142</span></a>    <span class="k">def</span> <span class="nf">_exp_to_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="einsum-143"><a href="#einsum-143"><span class="linenos">143</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="einsum-144"><a href="#einsum-144"><span class="linenos">144</span></a>        <span class="k">for</span> <span class="n">index</span><span class="p">,</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">matrix</span><span class="p">):</span>
+</span><span id="einsum-145"><a href="#einsum-145"><span class="linenos">145</span></a>            <span class="n">base_matrix</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">entry</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">()</span> <span class="o">+</span> <span class="mi">1</span><span class="n">j</span> <span class="o">*</span> <span class="n">entry</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">export_jackknife</span><span class="p">())</span>
+</span><span id="einsum-146"><a href="#einsum-146"><span class="linenos">146</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">base_matrix</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="n">base_matrix</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
+</span><span id="einsum-147"><a href="#einsum-147"><span class="linenos">147</span></a>
+</span><span id="einsum-148"><a href="#einsum-148"><span class="linenos">148</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
+</span><span id="einsum-149"><a href="#einsum-149"><span class="linenos">149</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">(</span><span class="n">shape</span><span class="o">=</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="einsum-150"><a href="#einsum-150"><span class="linenos">150</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="einsum-151"><a href="#einsum-151"><span class="linenos">151</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">import_jackknife</span><span class="p">(</span><span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">],</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">])</span>
+</span><span id="einsum-152"><a href="#einsum-152"><span class="linenos">152</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
+</span><span id="einsum-153"><a href="#einsum-153"><span class="linenos">153</span></a>
+</span><span id="einsum-154"><a href="#einsum-154"><span class="linenos">154</span></a>    <span class="k">def</span> <span class="nf">_imp_from_jack_c</span><span class="p">(</span><span class="n">matrix</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">):</span>
+</span><span id="einsum-155"><a href="#einsum-155"><span class="linenos">155</span></a>        <span class="n">base_matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">empty</span><span class="p">(</span><span class="n">shape</span><span class="o">=</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="einsum-156"><a href="#einsum-156"><span class="linenos">156</span></a>        <span class="k">for</span> <span class="n">index</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndindex</span><span class="p">(</span><span class="n">matrix</span><span class="o">.</span><span class="n">shape</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]):</span>
+</span><span id="einsum-157"><a href="#einsum-157"><span class="linenos">157</span></a>            <span class="n">base_matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span> <span class="o">=</span> <span class="n">CObs</span><span class="p">(</span><span class="n">import_jackknife</span><span class="p">(</span><span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]),</span>
+</span><span id="einsum-158"><a href="#einsum-158"><span class="linenos">158</span></a>                                      <span class="n">import_jackknife</span><span class="p">(</span><span class="n">matrix</span><span class="p">[</span><span class="n">index</span><span class="p">]</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="p">[</span><span class="n">idl</span><span class="p">]))</span>
+</span><span id="einsum-159"><a href="#einsum-159"><span class="linenos">159</span></a>        <span class="k">return</span> <span class="n">base_matrix</span>
+</span><span id="einsum-160"><a href="#einsum-160"><span class="linenos">160</span></a>
+</span><span id="einsum-161"><a href="#einsum-161"><span class="linenos">161</span></a>    <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">:</span>
+</span><span id="einsum-162"><a href="#einsum-162"><span class="linenos">162</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">):</span>
+</span><span id="einsum-163"><a href="#einsum-163"><span class="linenos">163</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="einsum-164"><a href="#einsum-164"><span class="linenos">164</span></a>            <span class="n">idl</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="einsum-165"><a href="#einsum-165"><span class="linenos">165</span></a>            <span class="k">break</span>
+</span><span id="einsum-166"><a href="#einsum-166"><span class="linenos">166</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="einsum-167"><a href="#einsum-167"><span class="linenos">167</span></a>            <span class="n">name</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="einsum-168"><a href="#einsum-168"><span class="linenos">168</span></a>            <span class="n">idl</span> <span class="o">=</span> <span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="einsum-169"><a href="#einsum-169"><span class="linenos">169</span></a>            <span class="k">break</span>
+</span><span id="einsum-170"><a href="#einsum-170"><span class="linenos">170</span></a>
+</span><span id="einsum-171"><a href="#einsum-171"><span class="linenos">171</span></a>    <span class="n">conv_operands</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="einsum-172"><a href="#einsum-172"><span class="linenos">172</span></a>    <span class="k">for</span> <span class="n">op</span> <span class="ow">in</span> <span class="n">operands</span><span class="p">:</span>
+</span><span id="einsum-173"><a href="#einsum-173"><span class="linenos">173</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">CObs</span><span class="p">):</span>
+</span><span id="einsum-174"><a href="#einsum-174"><span class="linenos">174</span></a>            <span class="n">conv_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_exp_to_jack_c</span><span class="p">(</span><span class="n">op</span><span class="p">))</span>
+</span><span id="einsum-175"><a href="#einsum-175"><span class="linenos">175</span></a>        <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">op</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="einsum-176"><a href="#einsum-176"><span class="linenos">176</span></a>            <span class="n">conv_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_exp_to_jack</span><span class="p">(</span><span class="n">op</span><span class="p">))</span>
+</span><span id="einsum-177"><a href="#einsum-177"><span class="linenos">177</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="einsum-178"><a href="#einsum-178"><span class="linenos">178</span></a>            <span class="n">conv_operands</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">op</span><span class="p">)</span>
+</span><span id="einsum-179"><a href="#einsum-179"><span class="linenos">179</span></a>
+</span><span id="einsum-180"><a href="#einsum-180"><span class="linenos">180</span></a>    <span class="n">tmp_subscripts</span> <span class="o">=</span> <span class="s1">&#39;,&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="n">o</span> <span class="o">+</span> <span class="s1">&#39;...&#39;</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">subscripts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)])</span>
+</span><span id="einsum-181"><a href="#einsum-181"><span class="linenos">181</span></a>    <span class="n">extended_subscripts</span> <span class="o">=</span> <span class="s1">&#39;-&gt;&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="n">o</span> <span class="o">+</span> <span class="s1">&#39;...&#39;</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">tmp_subscripts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;-&gt;&#39;</span><span class="p">)[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span> <span class="o">+</span> <span class="p">[</span><span class="n">tmp_subscripts</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;-&gt;&#39;</span><span class="p">)[</span><span class="o">-</span><span class="mi">1</span><span class="p">]])</span>
+</span><span id="einsum-182"><a href="#einsum-182"><span class="linenos">182</span></a>    <span class="n">einsum_path</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">einsum_path</span><span class="p">(</span><span class="n">extended_subscripts</span><span class="p">,</span> <span class="o">*</span><span class="n">conv_operands</span><span class="p">,</span> <span class="n">optimize</span><span class="o">=</span><span class="s1">&#39;optimal&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="einsum-183"><a href="#einsum-183"><span class="linenos">183</span></a>    <span class="n">jack_einsum</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">einsum</span><span class="p">(</span><span class="n">extended_subscripts</span><span class="p">,</span> <span class="o">*</span><span class="n">conv_operands</span><span class="p">,</span> <span class="n">optimize</span><span class="o">=</span><span class="n">einsum_path</span><span class="p">)</span>
+</span><span id="einsum-184"><a href="#einsum-184"><span class="linenos">184</span></a>
+</span><span id="einsum-185"><a href="#einsum-185"><span class="linenos">185</span></a>    <span class="k">if</span> <span class="n">jack_einsum</span><span class="o">.</span><span class="n">dtype</span> <span class="o">==</span> <span class="nb">complex</span><span class="p">:</span>
+</span><span id="einsum-186"><a href="#einsum-186"><span class="linenos">186</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">_imp_from_jack_c</span><span class="p">(</span><span class="n">jack_einsum</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="einsum-187"><a href="#einsum-187"><span class="linenos">187</span></a>    <span class="k">elif</span> <span class="n">jack_einsum</span><span class="o">.</span><span class="n">dtype</span> <span class="o">==</span> <span class="nb">float</span><span class="p">:</span>
+</span><span id="einsum-188"><a href="#einsum-188"><span class="linenos">188</span></a>        <span class="n">result</span> <span class="o">=</span> <span class="n">_imp_from_jack</span><span class="p">(</span><span class="n">jack_einsum</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="p">)</span>
+</span><span id="einsum-189"><a href="#einsum-189"><span class="linenos">189</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="einsum-190"><a href="#einsum-190"><span class="linenos">190</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Result has unexpected datatype&quot;</span><span class="p">)</span>
+</span><span id="einsum-191"><a href="#einsum-191"><span class="linenos">191</span></a>
+</span><span id="einsum-192"><a href="#einsum-192"><span class="linenos">192</span></a>    <span class="k">if</span> <span class="n">result</span><span class="o">.</span><span class="n">shape</span> <span class="o">==</span> <span class="p">():</span>
+</span><span id="einsum-193"><a href="#einsum-193"><span class="linenos">193</span></a>        <span class="k">return</span> <span class="n">result</span><span class="o">.</span><span class="n">flat</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="einsum-194"><a href="#einsum-194"><span class="linenos">194</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="einsum-195"><a href="#einsum-195"><span class="linenos">195</span></a>        <span class="k">return</span> <span class="n">result</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Wrapper for numpy.einsum</p>
 
@@ -656,21 +657,21 @@ Obs valued.</li>
 
                 </section>
                 <section id="inv">
-                            <div class="attr function"><a class="headerlink" href="#inv">#&nbsp;&nbsp</a>
+                            <input id="inv-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">inv</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">x</span></span>)</span>
+
+                <label class="view-source-button" for="inv-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">inv</span><span class="signature">(x)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="inv-197"><a href="#inv-197"><span class="linenos">197</span></a><span class="k">def</span> <span class="nf">inv</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
-</span><span id="inv-198"><a href="#inv-198"><span class="linenos">198</span></a>    <span class="sd">&quot;&quot;&quot;Inverse of Obs or CObs valued matrices.&quot;&quot;&quot;</span>
-</span><span id="inv-199"><a href="#inv-199"><span class="linenos">199</span></a>    <span class="k">return</span> <span class="n">_mat_mat_op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">inv</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
+    <a class="headerlink" href="#inv"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="inv-198"><a href="#inv-198"><span class="linenos">198</span></a><span class="k">def</span> <span class="nf">inv</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
+</span><span id="inv-199"><a href="#inv-199"><span class="linenos">199</span></a>    <span class="sd">&quot;&quot;&quot;Inverse of Obs or CObs valued matrices.&quot;&quot;&quot;</span>
+</span><span id="inv-200"><a href="#inv-200"><span class="linenos">200</span></a>    <span class="k">return</span> <span class="n">_mat_mat_op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">inv</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Inverse of Obs or CObs valued matrices.</p>
 </div>
@@ -678,23 +679,23 @@ Obs valued.</li>
 
                 </section>
                 <section id="cholesky">
-                            <div class="attr function"><a class="headerlink" href="#cholesky">#&nbsp;&nbsp</a>
+                            <input id="cholesky-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">cholesky</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">x</span></span>)</span>
+
+                <label class="view-source-button" for="cholesky-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">cholesky</span><span class="signature">(x)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="cholesky-202"><a href="#cholesky-202"><span class="linenos">202</span></a><span class="k">def</span> <span class="nf">cholesky</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
-</span><span id="cholesky-203"><a href="#cholesky-203"><span class="linenos">203</span></a>    <span class="sd">&quot;&quot;&quot;Cholesky decomposition of Obs valued matrices.&quot;&quot;&quot;</span>
-</span><span id="cholesky-204"><a href="#cholesky-204"><span class="linenos">204</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">()):</span>
-</span><span id="cholesky-205"><a href="#cholesky-205"><span class="linenos">205</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Cholesky decomposition is not implemented for CObs.&quot;</span><span class="p">)</span>
-</span><span id="cholesky-206"><a href="#cholesky-206"><span class="linenos">206</span></a>    <span class="k">return</span> <span class="n">_mat_mat_op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">cholesky</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
+    <a class="headerlink" href="#cholesky"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="cholesky-203"><a href="#cholesky-203"><span class="linenos">203</span></a><span class="k">def</span> <span class="nf">cholesky</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
+</span><span id="cholesky-204"><a href="#cholesky-204"><span class="linenos">204</span></a>    <span class="sd">&quot;&quot;&quot;Cholesky decomposition of Obs valued matrices.&quot;&quot;&quot;</span>
+</span><span id="cholesky-205"><a href="#cholesky-205"><span class="linenos">205</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">CObs</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">x</span><span class="o">.</span><span class="n">ravel</span><span class="p">()):</span>
+</span><span id="cholesky-206"><a href="#cholesky-206"><span class="linenos">206</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Cholesky decomposition is not implemented for CObs.&quot;</span><span class="p">)</span>
+</span><span id="cholesky-207"><a href="#cholesky-207"><span class="linenos">207</span></a>    <span class="k">return</span> <span class="n">_mat_mat_op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">cholesky</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Cholesky decomposition of Obs valued matrices.</p>
 </div>
@@ -702,21 +703,21 @@ Obs valued.</li>
 
                 </section>
                 <section id="det">
-                            <div class="attr function"><a class="headerlink" href="#det">#&nbsp;&nbsp</a>
+                            <input id="det-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">det</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">x</span></span>)</span>
+
+                <label class="view-source-button" for="det-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">det</span><span class="signature">(x)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="det-209"><a href="#det-209"><span class="linenos">209</span></a><span class="k">def</span> <span class="nf">det</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
-</span><span id="det-210"><a href="#det-210"><span class="linenos">210</span></a>    <span class="sd">&quot;&quot;&quot;Determinant of Obs valued matrices.&quot;&quot;&quot;</span>
-</span><span id="det-211"><a href="#det-211"><span class="linenos">211</span></a>    <span class="k">return</span> <span class="n">_scalar_mat_op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">det</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
+    <a class="headerlink" href="#det"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="det-210"><a href="#det-210"><span class="linenos">210</span></a><span class="k">def</span> <span class="nf">det</span><span class="p">(</span><span class="n">x</span><span class="p">):</span>
+</span><span id="det-211"><a href="#det-211"><span class="linenos">211</span></a>    <span class="sd">&quot;&quot;&quot;Determinant of Obs valued matrices.&quot;&quot;&quot;</span>
+</span><span id="det-212"><a href="#det-212"><span class="linenos">212</span></a>    <span class="k">return</span> <span class="n">_scalar_mat_op</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">det</span><span class="p">,</span> <span class="n">x</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Determinant of Obs valued matrices.</p>
 </div>
@@ -724,23 +725,23 @@ Obs valued.</li>
 
                 </section>
                 <section id="eigh">
-                            <div class="attr function"><a class="headerlink" href="#eigh">#&nbsp;&nbsp</a>
+                            <input id="eigh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">eigh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">obs</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="eigh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">eigh</span><span class="signature">(obs, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="eigh-261"><a href="#eigh-261"><span class="linenos">261</span></a><span class="k">def</span> <span class="nf">eigh</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="eigh-262"><a href="#eigh-262"><span class="linenos">262</span></a>    <span class="sd">&quot;&quot;&quot;Computes the eigenvalues and eigenvectors of a given hermitian matrix of Obs according to np.linalg.eigh.&quot;&quot;&quot;</span>
-</span><span id="eigh-263"><a href="#eigh-263"><span class="linenos">263</span></a>    <span class="n">w</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">x</span><span class="p">)[</span><span class="mi">0</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="eigh-264"><a href="#eigh-264"><span class="linenos">264</span></a>    <span class="n">v</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">x</span><span class="p">)[</span><span class="mi">1</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="eigh-265"><a href="#eigh-265"><span class="linenos">265</span></a>    <span class="k">return</span> <span class="n">w</span><span class="p">,</span> <span class="n">v</span>
+    <a class="headerlink" href="#eigh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="eigh-262"><a href="#eigh-262"><span class="linenos">262</span></a><span class="k">def</span> <span class="nf">eigh</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="eigh-263"><a href="#eigh-263"><span class="linenos">263</span></a>    <span class="sd">&quot;&quot;&quot;Computes the eigenvalues and eigenvectors of a given hermitian matrix of Obs according to np.linalg.eigh.&quot;&quot;&quot;</span>
+</span><span id="eigh-264"><a href="#eigh-264"><span class="linenos">264</span></a>    <span class="n">w</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">x</span><span class="p">)[</span><span class="mi">0</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
+</span><span id="eigh-265"><a href="#eigh-265"><span class="linenos">265</span></a>    <span class="n">v</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">x</span><span class="p">)[</span><span class="mi">1</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
+</span><span id="eigh-266"><a href="#eigh-266"><span class="linenos">266</span></a>    <span class="k">return</span> <span class="n">w</span><span class="p">,</span> <span class="n">v</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Computes the eigenvalues and eigenvectors of a given hermitian matrix of Obs according to np.linalg.eigh.</p>
 </div>
@@ -748,22 +749,22 @@ Obs valued.</li>
 
                 </section>
                 <section id="eig">
-                            <div class="attr function"><a class="headerlink" href="#eig">#&nbsp;&nbsp</a>
+                            <input id="eig-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">eig</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">obs</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="eig-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">eig</span><span class="signature">(obs, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="eig-268"><a href="#eig-268"><span class="linenos">268</span></a><span class="k">def</span> <span class="nf">eig</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="eig-269"><a href="#eig-269"><span class="linenos">269</span></a>    <span class="sd">&quot;&quot;&quot;Computes the eigenvalues of a given matrix of Obs according to np.linalg.eig.&quot;&quot;&quot;</span>
-</span><span id="eig-270"><a href="#eig-270"><span class="linenos">270</span></a>    <span class="n">w</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">real</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eig</span><span class="p">(</span><span class="n">x</span><span class="p">)[</span><span class="mi">0</span><span class="p">]),</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="eig-271"><a href="#eig-271"><span class="linenos">271</span></a>    <span class="k">return</span> <span class="n">w</span>
+    <a class="headerlink" href="#eig"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="eig-269"><a href="#eig-269"><span class="linenos">269</span></a><span class="k">def</span> <span class="nf">eig</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="eig-270"><a href="#eig-270"><span class="linenos">270</span></a>    <span class="sd">&quot;&quot;&quot;Computes the eigenvalues of a given matrix of Obs according to np.linalg.eig.&quot;&quot;&quot;</span>
+</span><span id="eig-271"><a href="#eig-271"><span class="linenos">271</span></a>    <span class="n">w</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">real</span><span class="p">(</span><span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eig</span><span class="p">(</span><span class="n">x</span><span class="p">)[</span><span class="mi">0</span><span class="p">]),</span> <span class="n">obs</span><span class="p">)</span>
+</span><span id="eig-272"><a href="#eig-272"><span class="linenos">272</span></a>    <span class="k">return</span> <span class="n">w</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Computes the eigenvalues of a given matrix of Obs according to np.linalg.eig.</p>
 </div>
@@ -771,21 +772,21 @@ Obs valued.</li>
 
                 </section>
                 <section id="pinv">
-                            <div class="attr function"><a class="headerlink" href="#pinv">#&nbsp;&nbsp</a>
+                            <input id="pinv-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">pinv</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">obs</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="pinv-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">pinv</span><span class="signature">(obs, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="pinv-274"><a href="#pinv-274"><span class="linenos">274</span></a><span class="k">def</span> <span class="nf">pinv</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="pinv-275"><a href="#pinv-275"><span class="linenos">275</span></a>    <span class="sd">&quot;&quot;&quot;Computes the Moore-Penrose pseudoinverse of a matrix of Obs.&quot;&quot;&quot;</span>
-</span><span id="pinv-276"><a href="#pinv-276"><span class="linenos">276</span></a>    <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">obs</span><span class="p">)</span>
+    <a class="headerlink" href="#pinv"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="pinv-275"><a href="#pinv-275"><span class="linenos">275</span></a><span class="k">def</span> <span class="nf">pinv</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="pinv-276"><a href="#pinv-276"><span class="linenos">276</span></a>    <span class="sd">&quot;&quot;&quot;Computes the Moore-Penrose pseudoinverse of a matrix of Obs.&quot;&quot;&quot;</span>
+</span><span id="pinv-277"><a href="#pinv-277"><span class="linenos">277</span></a>    <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">pinv</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">obs</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Computes the Moore-Penrose pseudoinverse of a matrix of Obs.</p>
 </div>
@@ -793,24 +794,24 @@ Obs valued.</li>
 
                 </section>
                 <section id="svd">
-                            <div class="attr function"><a class="headerlink" href="#svd">#&nbsp;&nbsp</a>
+                            <input id="svd-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">svd</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">obs</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="svd-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">svd</span><span class="signature">(obs, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="svd-279"><a href="#svd-279"><span class="linenos">279</span></a><span class="k">def</span> <span class="nf">svd</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="svd-280"><a href="#svd-280"><span class="linenos">280</span></a>    <span class="sd">&quot;&quot;&quot;Computes the singular value decomposition of a matrix of Obs.&quot;&quot;&quot;</span>
-</span><span id="svd-281"><a href="#svd-281"><span class="linenos">281</span></a>    <span class="n">u</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">svd</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">full_matrices</span><span class="o">=</span><span class="kc">False</span><span class="p">)[</span><span class="mi">0</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="svd-282"><a href="#svd-282"><span class="linenos">282</span></a>    <span class="n">s</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">svd</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">full_matrices</span><span class="o">=</span><span class="kc">False</span><span class="p">)[</span><span class="mi">1</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="svd-283"><a href="#svd-283"><span class="linenos">283</span></a>    <span class="n">vh</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">svd</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">full_matrices</span><span class="o">=</span><span class="kc">False</span><span class="p">)[</span><span class="mi">2</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
-</span><span id="svd-284"><a href="#svd-284"><span class="linenos">284</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">u</span><span class="p">,</span> <span class="n">s</span><span class="p">,</span> <span class="n">vh</span><span class="p">)</span>
+    <a class="headerlink" href="#svd"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="svd-280"><a href="#svd-280"><span class="linenos">280</span></a><span class="k">def</span> <span class="nf">svd</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="svd-281"><a href="#svd-281"><span class="linenos">281</span></a>    <span class="sd">&quot;&quot;&quot;Computes the singular value decomposition of a matrix of Obs.&quot;&quot;&quot;</span>
+</span><span id="svd-282"><a href="#svd-282"><span class="linenos">282</span></a>    <span class="n">u</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">svd</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">full_matrices</span><span class="o">=</span><span class="kc">False</span><span class="p">)[</span><span class="mi">0</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
+</span><span id="svd-283"><a href="#svd-283"><span class="linenos">283</span></a>    <span class="n">s</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">svd</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">full_matrices</span><span class="o">=</span><span class="kc">False</span><span class="p">)[</span><span class="mi">1</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
+</span><span id="svd-284"><a href="#svd-284"><span class="linenos">284</span></a>    <span class="n">vh</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">svd</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">full_matrices</span><span class="o">=</span><span class="kc">False</span><span class="p">)[</span><span class="mi">2</span><span class="p">],</span> <span class="n">obs</span><span class="p">)</span>
+</span><span id="svd-285"><a href="#svd-285"><span class="linenos">285</span></a>    <span class="k">return</span> <span class="p">(</span><span class="n">u</span><span class="p">,</span> <span class="n">s</span><span class="p">,</span> <span class="n">vh</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Computes the singular value decomposition of a matrix of Obs.</p>
 </div>
diff --git a/docs/pyerrors/misc.html b/docs/pyerrors/misc.html
index 23948a2c..76f606aa 100644
--- a/docs/pyerrors/misc.html
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@@ -76,164 +76,165 @@
 <a href="./../pyerrors.html">pyerrors</a><wbr>.misc    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">  0</span></a><span class="kn">import</span> <span class="nn">pickle</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="n">Obs</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a>
+                        <input id="misc-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="misc-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">  1</span></a><span class="kn">import</span> <span class="nn">pickle</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">  2</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">  3</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="n">Obs</span>
 </span><span id="L-4"><a href="#L-4"><span class="linenos">  4</span></a>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a><span class="k">def</span> <span class="nf">dump_object</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a>    <span class="sd">&quot;&quot;&quot;Dump object into pickle file.</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a><span class="sd">    Parameters</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="sd">    ----------</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="sd">    obj : object</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="sd">        object to be saved in the pickle file</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd">    name : str</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd">        name of the file</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">    path : str</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">        specifies a custom path for the file (default &#39;.&#39;)</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a>    <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a>        <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a>        <span class="n">file_name</span> <span class="o">=</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a>    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">file_name</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fb</span><span class="p">:</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>        <span class="n">pickle</span><span class="o">.</span><span class="n">dump</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="n">fb</span><span class="p">)</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">  5</span></a>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">  6</span></a><span class="k">def</span> <span class="nf">dump_object</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos">  7</span></a>    <span class="sd">&quot;&quot;&quot;Dump object into pickle file.</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">  8</span></a>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">  9</span></a><span class="sd">    Parameters</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="sd">    ----------</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a><span class="sd">    obj : object</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="sd">        object to be saved in the pickle file</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd">    name : str</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd">        name of the file</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd">    path : str</span>
+</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd">        specifies a custom path for the file (default &#39;.&#39;)</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a>    <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a>        <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a>        <span class="n">file_name</span> <span class="o">=</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a>    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">file_name</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fb</span><span class="p">:</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>        <span class="n">pickle</span><span class="o">.</span><span class="n">dump</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="n">fb</span><span class="p">)</span>
 </span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a>
-</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="k">def</span> <span class="nf">load_object</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a>    <span class="sd">&quot;&quot;&quot;Load object from pickle file.</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>
-</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd">    Parameters</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd">    ----------</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd">    path : str</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a><span class="sd">        path to the file</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a>    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">file</span><span class="p">:</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>        <span class="k">return</span> <span class="n">pickle</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">file</span><span class="p">)</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>
+</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a>
+</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a><span class="k">def</span> <span class="nf">load_object</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a>    <span class="sd">&quot;&quot;&quot;Load object from pickle file.</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a>
+</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd">    Parameters</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd">    ----------</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a><span class="sd">    path : str</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a><span class="sd">        path to the file</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a>    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">file</span><span class="p">:</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a>        <span class="k">return</span> <span class="n">pickle</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">file</span><span class="p">)</span>
 </span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a>
-</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a><span class="k">def</span> <span class="nf">pseudo_Obs</span><span class="p">(</span><span class="n">value</span><span class="p">,</span> <span class="n">dvalue</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">samples</span><span class="o">=</span><span class="mi">1000</span><span class="p">):</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a>    <span class="sd">&quot;&quot;&quot;Generate an Obs object with given value, dvalue and name for test purposes</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>
-</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a><span class="sd">    Parameters</span>
-</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a><span class="sd">    ----------</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a><span class="sd">    value : float</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a><span class="sd">        central value of the Obs to be generated.</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a><span class="sd">    dvalue : float</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a><span class="sd">        error of the Obs to be generated.</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a><span class="sd">    name : str</span>
-</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a><span class="sd">        name of the ensemble for which the Obs is to be generated.</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a><span class="sd">    samples: int</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a><span class="sd">        number of samples for the Obs (default 1000).</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a>    <span class="k">if</span> <span class="n">dvalue</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>        <span class="k">return</span> <span class="n">Obs</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span> <span class="o">+</span> <span class="n">value</span><span class="p">],</span> <span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>        <span class="k">for</span> <span class="n">_</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">100</span><span class="p">):</span>
-</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>            <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">normal</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">dvalue</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">samples</span><span class="p">),</span> <span class="n">samples</span><span class="p">)]</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>            <span class="n">deltas</span> <span class="o">-=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>            <span class="n">deltas</span> <span class="o">*=</span> <span class="n">dvalue</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">var</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span> <span class="o">/</span> <span class="n">samples</span><span class="p">))</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">3</span> <span class="o">/</span> <span class="n">samples</span><span class="p">)</span>
-</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>            <span class="n">deltas</span> <span class="o">+=</span> <span class="n">value</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>            <span class="n">res</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>            <span class="n">res</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="n">S</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">tau_exp</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>            <span class="k">if</span> <span class="nb">abs</span><span class="p">(</span><span class="n">res</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">-</span> <span class="n">dvalue</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mf">1e-10</span> <span class="o">*</span> <span class="n">dvalue</span><span class="p">:</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>                <span class="k">break</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>
-</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>        <span class="n">res</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">value</span><span class="p">)</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>
-</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>        <span class="k">return</span> <span class="n">res</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>
+</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a>
+</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a><span class="k">def</span> <span class="nf">pseudo_Obs</span><span class="p">(</span><span class="n">value</span><span class="p">,</span> <span class="n">dvalue</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">samples</span><span class="o">=</span><span class="mi">1000</span><span class="p">):</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a>    <span class="sd">&quot;&quot;&quot;Generate an Obs object with given value, dvalue and name for test purposes</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a>
+</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a><span class="sd">    Parameters</span>
+</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a><span class="sd">    ----------</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a><span class="sd">    value : float</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a><span class="sd">        central value of the Obs to be generated.</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a><span class="sd">    dvalue : float</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a><span class="sd">        error of the Obs to be generated.</span>
+</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a><span class="sd">    name : str</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a><span class="sd">        name of the ensemble for which the Obs is to be generated.</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a><span class="sd">    samples: int</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a><span class="sd">        number of samples for the Obs (default 1000).</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a>    <span class="k">if</span> <span class="n">dvalue</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a>        <span class="k">return</span> <span class="n">Obs</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span> <span class="o">+</span> <span class="n">value</span><span class="p">],</span> <span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a>        <span class="k">for</span> <span class="n">_</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">100</span><span class="p">):</span>
+</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a>            <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">normal</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">dvalue</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">samples</span><span class="p">),</span> <span class="n">samples</span><span class="p">)]</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>            <span class="n">deltas</span> <span class="o">-=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>            <span class="n">deltas</span> <span class="o">*=</span> <span class="n">dvalue</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">var</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span> <span class="o">/</span> <span class="n">samples</span><span class="p">))</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">3</span> <span class="o">/</span> <span class="n">samples</span><span class="p">)</span>
+</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>            <span class="n">deltas</span> <span class="o">+=</span> <span class="n">value</span>
+</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a>            <span class="n">res</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a>            <span class="n">res</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="n">S</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">tau_exp</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>            <span class="k">if</span> <span class="nb">abs</span><span class="p">(</span><span class="n">res</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">-</span> <span class="n">dvalue</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mf">1e-10</span> <span class="o">*</span> <span class="n">dvalue</span><span class="p">:</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a>                <span class="k">break</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>
+</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a>        <span class="n">res</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">value</span><span class="p">)</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>
+</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a>        <span class="k">return</span> <span class="n">res</span>
 </span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a>
-</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a><span class="k">def</span> <span class="nf">gen_correlated_data</span><span class="p">(</span><span class="n">means</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">tau</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">samples</span><span class="o">=</span><span class="mi">1000</span><span class="p">):</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a>    <span class="sd">&quot;&quot;&quot; Generate observables with given covariance and autocorrelation times.</span>
-</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>
-</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a><span class="sd">    Parameters</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a><span class="sd">    ----------</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a><span class="sd">    means : list</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a><span class="sd">        list containing the mean value of each observable.</span>
-</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a><span class="sd">    cov : numpy.ndarray</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a><span class="sd">        covariance matrix for the data to be generated.</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a><span class="sd">    name : str</span>
-</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a><span class="sd">        ensemble name for the data to be geneated.</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a><span class="sd">    tau : float or list</span>
-</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a><span class="sd">        can either be a real number or a list with an entry for</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a><span class="sd">        every dataset.</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a><span class="sd">    samples : int</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a><span class="sd">        number of samples to be generated for each observable.</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>
-</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>    <span class="k">assert</span> <span class="nb">len</span><span class="p">(</span><span class="n">means</span><span class="p">)</span> <span class="o">==</span> <span class="n">cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>    <span class="n">tau</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tau</span><span class="p">)</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">(</span><span class="n">tau</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mf">0.5</span><span class="p">:</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;All integrated autocorrelations have to be &gt;= 0.5.&#39;</span><span class="p">)</span>
-</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>
-</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>    <span class="n">a</span> <span class="o">=</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">tau</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">tau</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>    <span class="n">rand</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">multivariate_normal</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">zeros_like</span><span class="p">(</span><span class="n">means</span><span class="p">),</span> <span class="n">cov</span> <span class="o">*</span> <span class="n">samples</span><span class="p">,</span> <span class="n">samples</span><span class="p">)</span>
-</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>
-</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>    <span class="c1"># Normalize samples such that sample variance matches input</span>
-</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>    <span class="n">norm</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">var</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">ddof</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">samples</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">rand</span><span class="o">.</span><span class="n">T</span><span class="p">])</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>    <span class="n">rand</span> <span class="o">=</span> <span class="n">rand</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">)))</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">norm</span><span class="p">))</span>
-</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>
-</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="p">[</span><span class="n">rand</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">samples</span><span class="p">):</span>
-</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>        <span class="n">data</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">a</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">*</span> <span class="n">rand</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">a</span> <span class="o">*</span> <span class="n">data</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">means</span>
-</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>    <span class="k">return</span> <span class="p">[</span><span class="n">Obs</span><span class="p">([</span><span class="n">dat</span><span class="p">],</span> <span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="k">for</span> <span class="n">dat</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="o">.</span><span class="n">T</span><span class="p">]</span>
-</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>
+</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>
+</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a><span class="k">def</span> <span class="nf">gen_correlated_data</span><span class="p">(</span><span class="n">means</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">tau</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">samples</span><span class="o">=</span><span class="mi">1000</span><span class="p">):</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a>    <span class="sd">&quot;&quot;&quot; Generate observables with given covariance and autocorrelation times.</span>
+</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a>
+</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a><span class="sd">    Parameters</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a><span class="sd">    ----------</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a><span class="sd">    means : list</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a><span class="sd">        list containing the mean value of each observable.</span>
+</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a><span class="sd">    cov : numpy.ndarray</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a><span class="sd">        covariance matrix for the data to be generated.</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a><span class="sd">    name : str</span>
+</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a><span class="sd">        ensemble name for the data to be geneated.</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a><span class="sd">    tau : float or list</span>
+</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a><span class="sd">        can either be a real number or a list with an entry for</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a><span class="sd">        every dataset.</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a><span class="sd">    samples : int</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a><span class="sd">        number of samples to be generated for each observable.</span>
+</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a>
+</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a>    <span class="k">assert</span> <span class="nb">len</span><span class="p">(</span><span class="n">means</span><span class="p">)</span> <span class="o">==</span> <span class="n">cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>    <span class="n">tau</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tau</span><span class="p">)</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">(</span><span class="n">tau</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mf">0.5</span><span class="p">:</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;All integrated autocorrelations have to be &gt;= 0.5.&#39;</span><span class="p">)</span>
+</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a>
+</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a>    <span class="n">a</span> <span class="o">=</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">tau</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">tau</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a>    <span class="n">rand</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">multivariate_normal</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">zeros_like</span><span class="p">(</span><span class="n">means</span><span class="p">),</span> <span class="n">cov</span> <span class="o">*</span> <span class="n">samples</span><span class="p">,</span> <span class="n">samples</span><span class="p">)</span>
+</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a>
+</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a>    <span class="c1"># Normalize samples such that sample variance matches input</span>
+</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a>    <span class="n">norm</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">var</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">ddof</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">samples</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">rand</span><span class="o">.</span><span class="n">T</span><span class="p">])</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a>    <span class="n">rand</span> <span class="o">=</span> <span class="n">rand</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">)))</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">norm</span><span class="p">))</span>
+</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a>
+</span><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="p">[</span><span class="n">rand</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos">101</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">samples</span><span class="p">):</span>
+</span><span id="L-102"><a href="#L-102"><span class="linenos">102</span></a>        <span class="n">data</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">a</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">*</span> <span class="n">rand</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">a</span> <span class="o">*</span> <span class="n">data</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos">103</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">means</span>
+</span><span id="L-104"><a href="#L-104"><span class="linenos">104</span></a>    <span class="k">return</span> <span class="p">[</span><span class="n">Obs</span><span class="p">([</span><span class="n">dat</span><span class="p">],</span> <span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="k">for</span> <span class="n">dat</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="o">.</span><span class="n">T</span><span class="p">]</span>
 </span><span id="L-105"><a href="#L-105"><span class="linenos">105</span></a>
-</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a><span class="k">def</span> <span class="nf">_assert_equal_properties</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">otype</span><span class="o">=</span><span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">otype</span><span class="p">):</span>
-</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Wrong data type in list.&quot;</span><span class="p">)</span>
-</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
-</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">otype</span><span class="p">):</span>
-</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Wrong data type in list.&quot;</span><span class="p">)</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">==</span> <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span><span class="p">:</span>
-</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All Obs in list have to have the same state &#39;is_merged&#39;.&quot;</span><span class="p">)</span>
-</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">==</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
-</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All Obs in list have to have the same property &#39;reweighted&#39;.&quot;</span><span class="p">)</span>
-</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">e_content</span> <span class="o">==</span> <span class="n">o</span><span class="o">.</span><span class="n">e_content</span><span class="p">:</span>
-</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All Obs in list have to be defined on the same set of configs.&quot;</span><span class="p">)</span>
-</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span> <span class="o">==</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">:</span>
-</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All Obs in list have to be defined on the same set of configurations.&quot;</span><span class="p">)</span>
+</span><span id="L-106"><a href="#L-106"><span class="linenos">106</span></a>
+</span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a><span class="k">def</span> <span class="nf">_assert_equal_properties</span><span class="p">(</span><span class="n">ol</span><span class="p">,</span> <span class="n">otype</span><span class="o">=</span><span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">otype</span><span class="p">):</span>
+</span><span id="L-109"><a href="#L-109"><span class="linenos">109</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Wrong data type in list.&quot;</span><span class="p">)</span>
+</span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ol</span><span class="p">[</span><span class="mi">1</span><span class="p">:]:</span>
+</span><span id="L-111"><a href="#L-111"><span class="linenos">111</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">otype</span><span class="p">):</span>
+</span><span id="L-112"><a href="#L-112"><span class="linenos">112</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Wrong data type in list.&quot;</span><span class="p">)</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">==</span> <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span><span class="p">:</span>
+</span><span id="L-114"><a href="#L-114"><span class="linenos">114</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All Obs in list have to have the same state &#39;is_merged&#39;.&quot;</span><span class="p">)</span>
+</span><span id="L-115"><a href="#L-115"><span class="linenos">115</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">==</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
+</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All Obs in list have to have the same property &#39;reweighted&#39;.&quot;</span><span class="p">)</span>
+</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">e_content</span> <span class="o">==</span> <span class="n">o</span><span class="o">.</span><span class="n">e_content</span><span class="p">:</span>
+</span><span id="L-118"><a href="#L-118"><span class="linenos">118</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All Obs in list have to be defined on the same set of configs.&quot;</span><span class="p">)</span>
+</span><span id="L-119"><a href="#L-119"><span class="linenos">119</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span> <span class="o">==</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="p">:</span>
+</span><span id="L-120"><a href="#L-120"><span class="linenos">120</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;All Obs in list have to be defined on the same set of configurations.&quot;</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="dump_object">
-                            <div class="attr function"><a class="headerlink" href="#dump_object">#&nbsp;&nbsp</a>
+                            <input id="dump_object-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">dump_object</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">obj</span>, </span><span class="param"><span class="n">name</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="dump_object-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">dump_object</span><span class="signature">(obj, name, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="dump_object-6"><a href="#dump_object-6"><span class="linenos"> 6</span></a><span class="k">def</span> <span class="nf">dump_object</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="dump_object-7"><a href="#dump_object-7"><span class="linenos"> 7</span></a>    <span class="sd">&quot;&quot;&quot;Dump object into pickle file.</span>
-</span><span id="dump_object-8"><a href="#dump_object-8"><span class="linenos"> 8</span></a>
-</span><span id="dump_object-9"><a href="#dump_object-9"><span class="linenos"> 9</span></a><span class="sd">    Parameters</span>
-</span><span id="dump_object-10"><a href="#dump_object-10"><span class="linenos">10</span></a><span class="sd">    ----------</span>
-</span><span id="dump_object-11"><a href="#dump_object-11"><span class="linenos">11</span></a><span class="sd">    obj : object</span>
-</span><span id="dump_object-12"><a href="#dump_object-12"><span class="linenos">12</span></a><span class="sd">        object to be saved in the pickle file</span>
-</span><span id="dump_object-13"><a href="#dump_object-13"><span class="linenos">13</span></a><span class="sd">    name : str</span>
-</span><span id="dump_object-14"><a href="#dump_object-14"><span class="linenos">14</span></a><span class="sd">        name of the file</span>
-</span><span id="dump_object-15"><a href="#dump_object-15"><span class="linenos">15</span></a><span class="sd">    path : str</span>
-</span><span id="dump_object-16"><a href="#dump_object-16"><span class="linenos">16</span></a><span class="sd">        specifies a custom path for the file (default &#39;.&#39;)</span>
-</span><span id="dump_object-17"><a href="#dump_object-17"><span class="linenos">17</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="dump_object-18"><a href="#dump_object-18"><span class="linenos">18</span></a>    <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="dump_object-19"><a href="#dump_object-19"><span class="linenos">19</span></a>        <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span>
-</span><span id="dump_object-20"><a href="#dump_object-20"><span class="linenos">20</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="dump_object-21"><a href="#dump_object-21"><span class="linenos">21</span></a>        <span class="n">file_name</span> <span class="o">=</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span>
-</span><span id="dump_object-22"><a href="#dump_object-22"><span class="linenos">22</span></a>    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">file_name</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fb</span><span class="p">:</span>
-</span><span id="dump_object-23"><a href="#dump_object-23"><span class="linenos">23</span></a>        <span class="n">pickle</span><span class="o">.</span><span class="n">dump</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="n">fb</span><span class="p">)</span>
+    <a class="headerlink" href="#dump_object"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="dump_object-7"><a href="#dump_object-7"><span class="linenos"> 7</span></a><span class="k">def</span> <span class="nf">dump_object</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="dump_object-8"><a href="#dump_object-8"><span class="linenos"> 8</span></a>    <span class="sd">&quot;&quot;&quot;Dump object into pickle file.</span>
+</span><span id="dump_object-9"><a href="#dump_object-9"><span class="linenos"> 9</span></a>
+</span><span id="dump_object-10"><a href="#dump_object-10"><span class="linenos">10</span></a><span class="sd">    Parameters</span>
+</span><span id="dump_object-11"><a href="#dump_object-11"><span class="linenos">11</span></a><span class="sd">    ----------</span>
+</span><span id="dump_object-12"><a href="#dump_object-12"><span class="linenos">12</span></a><span class="sd">    obj : object</span>
+</span><span id="dump_object-13"><a href="#dump_object-13"><span class="linenos">13</span></a><span class="sd">        object to be saved in the pickle file</span>
+</span><span id="dump_object-14"><a href="#dump_object-14"><span class="linenos">14</span></a><span class="sd">    name : str</span>
+</span><span id="dump_object-15"><a href="#dump_object-15"><span class="linenos">15</span></a><span class="sd">        name of the file</span>
+</span><span id="dump_object-16"><a href="#dump_object-16"><span class="linenos">16</span></a><span class="sd">    path : str</span>
+</span><span id="dump_object-17"><a href="#dump_object-17"><span class="linenos">17</span></a><span class="sd">        specifies a custom path for the file (default &#39;.&#39;)</span>
+</span><span id="dump_object-18"><a href="#dump_object-18"><span class="linenos">18</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="dump_object-19"><a href="#dump_object-19"><span class="linenos">19</span></a>    <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="dump_object-20"><a href="#dump_object-20"><span class="linenos">20</span></a>        <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span>
+</span><span id="dump_object-21"><a href="#dump_object-21"><span class="linenos">21</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="dump_object-22"><a href="#dump_object-22"><span class="linenos">22</span></a>        <span class="n">file_name</span> <span class="o">=</span> <span class="n">name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span>
+</span><span id="dump_object-23"><a href="#dump_object-23"><span class="linenos">23</span></a>    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">file_name</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fb</span><span class="p">:</span>
+</span><span id="dump_object-24"><a href="#dump_object-24"><span class="linenos">24</span></a>        <span class="n">pickle</span><span class="o">.</span><span class="n">dump</span><span class="p">(</span><span class="n">obj</span><span class="p">,</span> <span class="n">fb</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Dump object into pickle file.</p>
 
@@ -252,28 +253,28 @@ specifies a custom path for the file (default '.')</li>
 
                 </section>
                 <section id="load_object">
-                            <div class="attr function"><a class="headerlink" href="#load_object">#&nbsp;&nbsp</a>
+                            <input id="load_object-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">load_object</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span></span>)</span>
+
+                <label class="view-source-button" for="load_object-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">load_object</span><span class="signature">(path)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="load_object-26"><a href="#load_object-26"><span class="linenos">26</span></a><span class="k">def</span> <span class="nf">load_object</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
-</span><span id="load_object-27"><a href="#load_object-27"><span class="linenos">27</span></a>    <span class="sd">&quot;&quot;&quot;Load object from pickle file.</span>
-</span><span id="load_object-28"><a href="#load_object-28"><span class="linenos">28</span></a>
-</span><span id="load_object-29"><a href="#load_object-29"><span class="linenos">29</span></a><span class="sd">    Parameters</span>
-</span><span id="load_object-30"><a href="#load_object-30"><span class="linenos">30</span></a><span class="sd">    ----------</span>
-</span><span id="load_object-31"><a href="#load_object-31"><span class="linenos">31</span></a><span class="sd">    path : str</span>
-</span><span id="load_object-32"><a href="#load_object-32"><span class="linenos">32</span></a><span class="sd">        path to the file</span>
-</span><span id="load_object-33"><a href="#load_object-33"><span class="linenos">33</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="load_object-34"><a href="#load_object-34"><span class="linenos">34</span></a>    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">file</span><span class="p">:</span>
-</span><span id="load_object-35"><a href="#load_object-35"><span class="linenos">35</span></a>        <span class="k">return</span> <span class="n">pickle</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">file</span><span class="p">)</span>
+    <a class="headerlink" href="#load_object"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="load_object-27"><a href="#load_object-27"><span class="linenos">27</span></a><span class="k">def</span> <span class="nf">load_object</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
+</span><span id="load_object-28"><a href="#load_object-28"><span class="linenos">28</span></a>    <span class="sd">&quot;&quot;&quot;Load object from pickle file.</span>
+</span><span id="load_object-29"><a href="#load_object-29"><span class="linenos">29</span></a>
+</span><span id="load_object-30"><a href="#load_object-30"><span class="linenos">30</span></a><span class="sd">    Parameters</span>
+</span><span id="load_object-31"><a href="#load_object-31"><span class="linenos">31</span></a><span class="sd">    ----------</span>
+</span><span id="load_object-32"><a href="#load_object-32"><span class="linenos">32</span></a><span class="sd">    path : str</span>
+</span><span id="load_object-33"><a href="#load_object-33"><span class="linenos">33</span></a><span class="sd">        path to the file</span>
+</span><span id="load_object-34"><a href="#load_object-34"><span class="linenos">34</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="load_object-35"><a href="#load_object-35"><span class="linenos">35</span></a>    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">file</span><span class="p">:</span>
+</span><span id="load_object-36"><a href="#load_object-36"><span class="linenos">36</span></a>        <span class="k">return</span> <span class="n">pickle</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">file</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Load object from pickle file.</p>
 
@@ -288,48 +289,48 @@ path to the file</li>
 
                 </section>
                 <section id="pseudo_Obs">
-                            <div class="attr function"><a class="headerlink" href="#pseudo_Obs">#&nbsp;&nbsp</a>
+                            <input id="pseudo_Obs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">pseudo_Obs</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">value</span>, </span><span class="param"><span class="n">dvalue</span>, </span><span class="param"><span class="n">name</span>, </span><span class="param"><span class="n">samples</span><span class="o">=</span><span class="mi">1000</span></span>)</span>
+
+                <label class="view-source-button" for="pseudo_Obs-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">pseudo_Obs</span><span class="signature">(value, dvalue, name, samples=1000)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="pseudo_Obs-38"><a href="#pseudo_Obs-38"><span class="linenos">38</span></a><span class="k">def</span> <span class="nf">pseudo_Obs</span><span class="p">(</span><span class="n">value</span><span class="p">,</span> <span class="n">dvalue</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">samples</span><span class="o">=</span><span class="mi">1000</span><span class="p">):</span>
-</span><span id="pseudo_Obs-39"><a href="#pseudo_Obs-39"><span class="linenos">39</span></a>    <span class="sd">&quot;&quot;&quot;Generate an Obs object with given value, dvalue and name for test purposes</span>
-</span><span id="pseudo_Obs-40"><a href="#pseudo_Obs-40"><span class="linenos">40</span></a>
-</span><span id="pseudo_Obs-41"><a href="#pseudo_Obs-41"><span class="linenos">41</span></a><span class="sd">    Parameters</span>
-</span><span id="pseudo_Obs-42"><a href="#pseudo_Obs-42"><span class="linenos">42</span></a><span class="sd">    ----------</span>
-</span><span id="pseudo_Obs-43"><a href="#pseudo_Obs-43"><span class="linenos">43</span></a><span class="sd">    value : float</span>
-</span><span id="pseudo_Obs-44"><a href="#pseudo_Obs-44"><span class="linenos">44</span></a><span class="sd">        central value of the Obs to be generated.</span>
-</span><span id="pseudo_Obs-45"><a href="#pseudo_Obs-45"><span class="linenos">45</span></a><span class="sd">    dvalue : float</span>
-</span><span id="pseudo_Obs-46"><a href="#pseudo_Obs-46"><span class="linenos">46</span></a><span class="sd">        error of the Obs to be generated.</span>
-</span><span id="pseudo_Obs-47"><a href="#pseudo_Obs-47"><span class="linenos">47</span></a><span class="sd">    name : str</span>
-</span><span id="pseudo_Obs-48"><a href="#pseudo_Obs-48"><span class="linenos">48</span></a><span class="sd">        name of the ensemble for which the Obs is to be generated.</span>
-</span><span id="pseudo_Obs-49"><a href="#pseudo_Obs-49"><span class="linenos">49</span></a><span class="sd">    samples: int</span>
-</span><span id="pseudo_Obs-50"><a href="#pseudo_Obs-50"><span class="linenos">50</span></a><span class="sd">        number of samples for the Obs (default 1000).</span>
-</span><span id="pseudo_Obs-51"><a href="#pseudo_Obs-51"><span class="linenos">51</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="pseudo_Obs-52"><a href="#pseudo_Obs-52"><span class="linenos">52</span></a>    <span class="k">if</span> <span class="n">dvalue</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="pseudo_Obs-53"><a href="#pseudo_Obs-53"><span class="linenos">53</span></a>        <span class="k">return</span> <span class="n">Obs</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span> <span class="o">+</span> <span class="n">value</span><span class="p">],</span> <span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="pseudo_Obs-54"><a href="#pseudo_Obs-54"><span class="linenos">54</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="pseudo_Obs-55"><a href="#pseudo_Obs-55"><span class="linenos">55</span></a>        <span class="k">for</span> <span class="n">_</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">100</span><span class="p">):</span>
-</span><span id="pseudo_Obs-56"><a href="#pseudo_Obs-56"><span class="linenos">56</span></a>            <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">normal</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">dvalue</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">samples</span><span class="p">),</span> <span class="n">samples</span><span class="p">)]</span>
-</span><span id="pseudo_Obs-57"><a href="#pseudo_Obs-57"><span class="linenos">57</span></a>            <span class="n">deltas</span> <span class="o">-=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span>
-</span><span id="pseudo_Obs-58"><a href="#pseudo_Obs-58"><span class="linenos">58</span></a>            <span class="n">deltas</span> <span class="o">*=</span> <span class="n">dvalue</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">var</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span> <span class="o">/</span> <span class="n">samples</span><span class="p">))</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">3</span> <span class="o">/</span> <span class="n">samples</span><span class="p">)</span>
-</span><span id="pseudo_Obs-59"><a href="#pseudo_Obs-59"><span class="linenos">59</span></a>            <span class="n">deltas</span> <span class="o">+=</span> <span class="n">value</span>
-</span><span id="pseudo_Obs-60"><a href="#pseudo_Obs-60"><span class="linenos">60</span></a>            <span class="n">res</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="pseudo_Obs-61"><a href="#pseudo_Obs-61"><span class="linenos">61</span></a>            <span class="n">res</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="n">S</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">tau_exp</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="pseudo_Obs-62"><a href="#pseudo_Obs-62"><span class="linenos">62</span></a>            <span class="k">if</span> <span class="nb">abs</span><span class="p">(</span><span class="n">res</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">-</span> <span class="n">dvalue</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mf">1e-10</span> <span class="o">*</span> <span class="n">dvalue</span><span class="p">:</span>
-</span><span id="pseudo_Obs-63"><a href="#pseudo_Obs-63"><span class="linenos">63</span></a>                <span class="k">break</span>
-</span><span id="pseudo_Obs-64"><a href="#pseudo_Obs-64"><span class="linenos">64</span></a>
-</span><span id="pseudo_Obs-65"><a href="#pseudo_Obs-65"><span class="linenos">65</span></a>        <span class="n">res</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">value</span><span class="p">)</span>
-</span><span id="pseudo_Obs-66"><a href="#pseudo_Obs-66"><span class="linenos">66</span></a>
-</span><span id="pseudo_Obs-67"><a href="#pseudo_Obs-67"><span class="linenos">67</span></a>        <span class="k">return</span> <span class="n">res</span>
+    <a class="headerlink" href="#pseudo_Obs"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="pseudo_Obs-39"><a href="#pseudo_Obs-39"><span class="linenos">39</span></a><span class="k">def</span> <span class="nf">pseudo_Obs</span><span class="p">(</span><span class="n">value</span><span class="p">,</span> <span class="n">dvalue</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">samples</span><span class="o">=</span><span class="mi">1000</span><span class="p">):</span>
+</span><span id="pseudo_Obs-40"><a href="#pseudo_Obs-40"><span class="linenos">40</span></a>    <span class="sd">&quot;&quot;&quot;Generate an Obs object with given value, dvalue and name for test purposes</span>
+</span><span id="pseudo_Obs-41"><a href="#pseudo_Obs-41"><span class="linenos">41</span></a>
+</span><span id="pseudo_Obs-42"><a href="#pseudo_Obs-42"><span class="linenos">42</span></a><span class="sd">    Parameters</span>
+</span><span id="pseudo_Obs-43"><a href="#pseudo_Obs-43"><span class="linenos">43</span></a><span class="sd">    ----------</span>
+</span><span id="pseudo_Obs-44"><a href="#pseudo_Obs-44"><span class="linenos">44</span></a><span class="sd">    value : float</span>
+</span><span id="pseudo_Obs-45"><a href="#pseudo_Obs-45"><span class="linenos">45</span></a><span class="sd">        central value of the Obs to be generated.</span>
+</span><span id="pseudo_Obs-46"><a href="#pseudo_Obs-46"><span class="linenos">46</span></a><span class="sd">    dvalue : float</span>
+</span><span id="pseudo_Obs-47"><a href="#pseudo_Obs-47"><span class="linenos">47</span></a><span class="sd">        error of the Obs to be generated.</span>
+</span><span id="pseudo_Obs-48"><a href="#pseudo_Obs-48"><span class="linenos">48</span></a><span class="sd">    name : str</span>
+</span><span id="pseudo_Obs-49"><a href="#pseudo_Obs-49"><span class="linenos">49</span></a><span class="sd">        name of the ensemble for which the Obs is to be generated.</span>
+</span><span id="pseudo_Obs-50"><a href="#pseudo_Obs-50"><span class="linenos">50</span></a><span class="sd">    samples: int</span>
+</span><span id="pseudo_Obs-51"><a href="#pseudo_Obs-51"><span class="linenos">51</span></a><span class="sd">        number of samples for the Obs (default 1000).</span>
+</span><span id="pseudo_Obs-52"><a href="#pseudo_Obs-52"><span class="linenos">52</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="pseudo_Obs-53"><a href="#pseudo_Obs-53"><span class="linenos">53</span></a>    <span class="k">if</span> <span class="n">dvalue</span> <span class="o">&lt;=</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="pseudo_Obs-54"><a href="#pseudo_Obs-54"><span class="linenos">54</span></a>        <span class="k">return</span> <span class="n">Obs</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span> <span class="o">+</span> <span class="n">value</span><span class="p">],</span> <span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="pseudo_Obs-55"><a href="#pseudo_Obs-55"><span class="linenos">55</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="pseudo_Obs-56"><a href="#pseudo_Obs-56"><span class="linenos">56</span></a>        <span class="k">for</span> <span class="n">_</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">100</span><span class="p">):</span>
+</span><span id="pseudo_Obs-57"><a href="#pseudo_Obs-57"><span class="linenos">57</span></a>            <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">normal</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">dvalue</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">samples</span><span class="p">),</span> <span class="n">samples</span><span class="p">)]</span>
+</span><span id="pseudo_Obs-58"><a href="#pseudo_Obs-58"><span class="linenos">58</span></a>            <span class="n">deltas</span> <span class="o">-=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span>
+</span><span id="pseudo_Obs-59"><a href="#pseudo_Obs-59"><span class="linenos">59</span></a>            <span class="n">deltas</span> <span class="o">*=</span> <span class="n">dvalue</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">var</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span> <span class="o">/</span> <span class="n">samples</span><span class="p">))</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">3</span> <span class="o">/</span> <span class="n">samples</span><span class="p">)</span>
+</span><span id="pseudo_Obs-60"><a href="#pseudo_Obs-60"><span class="linenos">60</span></a>            <span class="n">deltas</span> <span class="o">+=</span> <span class="n">value</span>
+</span><span id="pseudo_Obs-61"><a href="#pseudo_Obs-61"><span class="linenos">61</span></a>            <span class="n">res</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="pseudo_Obs-62"><a href="#pseudo_Obs-62"><span class="linenos">62</span></a>            <span class="n">res</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="n">S</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">tau_exp</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="pseudo_Obs-63"><a href="#pseudo_Obs-63"><span class="linenos">63</span></a>            <span class="k">if</span> <span class="nb">abs</span><span class="p">(</span><span class="n">res</span><span class="o">.</span><span class="n">dvalue</span> <span class="o">-</span> <span class="n">dvalue</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mf">1e-10</span> <span class="o">*</span> <span class="n">dvalue</span><span class="p">:</span>
+</span><span id="pseudo_Obs-64"><a href="#pseudo_Obs-64"><span class="linenos">64</span></a>                <span class="k">break</span>
+</span><span id="pseudo_Obs-65"><a href="#pseudo_Obs-65"><span class="linenos">65</span></a>
+</span><span id="pseudo_Obs-66"><a href="#pseudo_Obs-66"><span class="linenos">66</span></a>        <span class="n">res</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">value</span><span class="p">)</span>
+</span><span id="pseudo_Obs-67"><a href="#pseudo_Obs-67"><span class="linenos">67</span></a>
+</span><span id="pseudo_Obs-68"><a href="#pseudo_Obs-68"><span class="linenos">68</span></a>        <span class="k">return</span> <span class="n">res</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Generate an Obs object with given value, dvalue and name for test purposes</p>
 
@@ -350,53 +351,53 @@ number of samples for the Obs (default 1000).</li>
 
                 </section>
                 <section id="gen_correlated_data">
-                            <div class="attr function"><a class="headerlink" href="#gen_correlated_data">#&nbsp;&nbsp</a>
+                            <input id="gen_correlated_data-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">gen_correlated_data</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">means</span>, </span><span class="param"><span class="n">cov</span>, </span><span class="param"><span class="n">name</span>, </span><span class="param"><span class="n">tau</span><span class="o">=</span><span class="mf">0.5</span>, </span><span class="param"><span class="n">samples</span><span class="o">=</span><span class="mi">1000</span></span>)</span>
+
+                <label class="view-source-button" for="gen_correlated_data-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">gen_correlated_data</span><span class="signature">(means, cov, name, tau=0.5, samples=1000)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="gen_correlated_data-70"><a href="#gen_correlated_data-70"><span class="linenos"> 70</span></a><span class="k">def</span> <span class="nf">gen_correlated_data</span><span class="p">(</span><span class="n">means</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">tau</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">samples</span><span class="o">=</span><span class="mi">1000</span><span class="p">):</span>
-</span><span id="gen_correlated_data-71"><a href="#gen_correlated_data-71"><span class="linenos"> 71</span></a>    <span class="sd">&quot;&quot;&quot; Generate observables with given covariance and autocorrelation times.</span>
-</span><span id="gen_correlated_data-72"><a href="#gen_correlated_data-72"><span class="linenos"> 72</span></a>
-</span><span id="gen_correlated_data-73"><a href="#gen_correlated_data-73"><span class="linenos"> 73</span></a><span class="sd">    Parameters</span>
-</span><span id="gen_correlated_data-74"><a href="#gen_correlated_data-74"><span class="linenos"> 74</span></a><span class="sd">    ----------</span>
-</span><span id="gen_correlated_data-75"><a href="#gen_correlated_data-75"><span class="linenos"> 75</span></a><span class="sd">    means : list</span>
-</span><span id="gen_correlated_data-76"><a href="#gen_correlated_data-76"><span class="linenos"> 76</span></a><span class="sd">        list containing the mean value of each observable.</span>
-</span><span id="gen_correlated_data-77"><a href="#gen_correlated_data-77"><span class="linenos"> 77</span></a><span class="sd">    cov : numpy.ndarray</span>
-</span><span id="gen_correlated_data-78"><a href="#gen_correlated_data-78"><span class="linenos"> 78</span></a><span class="sd">        covariance matrix for the data to be generated.</span>
-</span><span id="gen_correlated_data-79"><a href="#gen_correlated_data-79"><span class="linenos"> 79</span></a><span class="sd">    name : str</span>
-</span><span id="gen_correlated_data-80"><a href="#gen_correlated_data-80"><span class="linenos"> 80</span></a><span class="sd">        ensemble name for the data to be geneated.</span>
-</span><span id="gen_correlated_data-81"><a href="#gen_correlated_data-81"><span class="linenos"> 81</span></a><span class="sd">    tau : float or list</span>
-</span><span id="gen_correlated_data-82"><a href="#gen_correlated_data-82"><span class="linenos"> 82</span></a><span class="sd">        can either be a real number or a list with an entry for</span>
-</span><span id="gen_correlated_data-83"><a href="#gen_correlated_data-83"><span class="linenos"> 83</span></a><span class="sd">        every dataset.</span>
-</span><span id="gen_correlated_data-84"><a href="#gen_correlated_data-84"><span class="linenos"> 84</span></a><span class="sd">    samples : int</span>
-</span><span id="gen_correlated_data-85"><a href="#gen_correlated_data-85"><span class="linenos"> 85</span></a><span class="sd">        number of samples to be generated for each observable.</span>
-</span><span id="gen_correlated_data-86"><a href="#gen_correlated_data-86"><span class="linenos"> 86</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="gen_correlated_data-87"><a href="#gen_correlated_data-87"><span class="linenos"> 87</span></a>
-</span><span id="gen_correlated_data-88"><a href="#gen_correlated_data-88"><span class="linenos"> 88</span></a>    <span class="k">assert</span> <span class="nb">len</span><span class="p">(</span><span class="n">means</span><span class="p">)</span> <span class="o">==</span> <span class="n">cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="gen_correlated_data-89"><a href="#gen_correlated_data-89"><span class="linenos"> 89</span></a>    <span class="n">tau</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tau</span><span class="p">)</span>
-</span><span id="gen_correlated_data-90"><a href="#gen_correlated_data-90"><span class="linenos"> 90</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">(</span><span class="n">tau</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mf">0.5</span><span class="p">:</span>
-</span><span id="gen_correlated_data-91"><a href="#gen_correlated_data-91"><span class="linenos"> 91</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;All integrated autocorrelations have to be &gt;= 0.5.&#39;</span><span class="p">)</span>
-</span><span id="gen_correlated_data-92"><a href="#gen_correlated_data-92"><span class="linenos"> 92</span></a>
-</span><span id="gen_correlated_data-93"><a href="#gen_correlated_data-93"><span class="linenos"> 93</span></a>    <span class="n">a</span> <span class="o">=</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">tau</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">tau</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="gen_correlated_data-94"><a href="#gen_correlated_data-94"><span class="linenos"> 94</span></a>    <span class="n">rand</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">multivariate_normal</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">zeros_like</span><span class="p">(</span><span class="n">means</span><span class="p">),</span> <span class="n">cov</span> <span class="o">*</span> <span class="n">samples</span><span class="p">,</span> <span class="n">samples</span><span class="p">)</span>
-</span><span id="gen_correlated_data-95"><a href="#gen_correlated_data-95"><span class="linenos"> 95</span></a>
-</span><span id="gen_correlated_data-96"><a href="#gen_correlated_data-96"><span class="linenos"> 96</span></a>    <span class="c1"># Normalize samples such that sample variance matches input</span>
-</span><span id="gen_correlated_data-97"><a href="#gen_correlated_data-97"><span class="linenos"> 97</span></a>    <span class="n">norm</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">var</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">ddof</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">samples</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">rand</span><span class="o">.</span><span class="n">T</span><span class="p">])</span>
-</span><span id="gen_correlated_data-98"><a href="#gen_correlated_data-98"><span class="linenos"> 98</span></a>    <span class="n">rand</span> <span class="o">=</span> <span class="n">rand</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">)))</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">norm</span><span class="p">))</span>
-</span><span id="gen_correlated_data-99"><a href="#gen_correlated_data-99"><span class="linenos"> 99</span></a>
-</span><span id="gen_correlated_data-100"><a href="#gen_correlated_data-100"><span class="linenos">100</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="p">[</span><span class="n">rand</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
-</span><span id="gen_correlated_data-101"><a href="#gen_correlated_data-101"><span class="linenos">101</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">samples</span><span class="p">):</span>
-</span><span id="gen_correlated_data-102"><a href="#gen_correlated_data-102"><span class="linenos">102</span></a>        <span class="n">data</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">a</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">*</span> <span class="n">rand</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">a</span> <span class="o">*</span> <span class="n">data</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="gen_correlated_data-103"><a href="#gen_correlated_data-103"><span class="linenos">103</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">means</span>
-</span><span id="gen_correlated_data-104"><a href="#gen_correlated_data-104"><span class="linenos">104</span></a>    <span class="k">return</span> <span class="p">[</span><span class="n">Obs</span><span class="p">([</span><span class="n">dat</span><span class="p">],</span> <span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="k">for</span> <span class="n">dat</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="o">.</span><span class="n">T</span><span class="p">]</span>
+    <a class="headerlink" href="#gen_correlated_data"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="gen_correlated_data-71"><a href="#gen_correlated_data-71"><span class="linenos"> 71</span></a><span class="k">def</span> <span class="nf">gen_correlated_data</span><span class="p">(</span><span class="n">means</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">tau</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">samples</span><span class="o">=</span><span class="mi">1000</span><span class="p">):</span>
+</span><span id="gen_correlated_data-72"><a href="#gen_correlated_data-72"><span class="linenos"> 72</span></a>    <span class="sd">&quot;&quot;&quot; Generate observables with given covariance and autocorrelation times.</span>
+</span><span id="gen_correlated_data-73"><a href="#gen_correlated_data-73"><span class="linenos"> 73</span></a>
+</span><span id="gen_correlated_data-74"><a href="#gen_correlated_data-74"><span class="linenos"> 74</span></a><span class="sd">    Parameters</span>
+</span><span id="gen_correlated_data-75"><a href="#gen_correlated_data-75"><span class="linenos"> 75</span></a><span class="sd">    ----------</span>
+</span><span id="gen_correlated_data-76"><a href="#gen_correlated_data-76"><span class="linenos"> 76</span></a><span class="sd">    means : list</span>
+</span><span id="gen_correlated_data-77"><a href="#gen_correlated_data-77"><span class="linenos"> 77</span></a><span class="sd">        list containing the mean value of each observable.</span>
+</span><span id="gen_correlated_data-78"><a href="#gen_correlated_data-78"><span class="linenos"> 78</span></a><span class="sd">    cov : numpy.ndarray</span>
+</span><span id="gen_correlated_data-79"><a href="#gen_correlated_data-79"><span class="linenos"> 79</span></a><span class="sd">        covariance matrix for the data to be generated.</span>
+</span><span id="gen_correlated_data-80"><a href="#gen_correlated_data-80"><span class="linenos"> 80</span></a><span class="sd">    name : str</span>
+</span><span id="gen_correlated_data-81"><a href="#gen_correlated_data-81"><span class="linenos"> 81</span></a><span class="sd">        ensemble name for the data to be geneated.</span>
+</span><span id="gen_correlated_data-82"><a href="#gen_correlated_data-82"><span class="linenos"> 82</span></a><span class="sd">    tau : float or list</span>
+</span><span id="gen_correlated_data-83"><a href="#gen_correlated_data-83"><span class="linenos"> 83</span></a><span class="sd">        can either be a real number or a list with an entry for</span>
+</span><span id="gen_correlated_data-84"><a href="#gen_correlated_data-84"><span class="linenos"> 84</span></a><span class="sd">        every dataset.</span>
+</span><span id="gen_correlated_data-85"><a href="#gen_correlated_data-85"><span class="linenos"> 85</span></a><span class="sd">    samples : int</span>
+</span><span id="gen_correlated_data-86"><a href="#gen_correlated_data-86"><span class="linenos"> 86</span></a><span class="sd">        number of samples to be generated for each observable.</span>
+</span><span id="gen_correlated_data-87"><a href="#gen_correlated_data-87"><span class="linenos"> 87</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="gen_correlated_data-88"><a href="#gen_correlated_data-88"><span class="linenos"> 88</span></a>
+</span><span id="gen_correlated_data-89"><a href="#gen_correlated_data-89"><span class="linenos"> 89</span></a>    <span class="k">assert</span> <span class="nb">len</span><span class="p">(</span><span class="n">means</span><span class="p">)</span> <span class="o">==</span> <span class="n">cov</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="gen_correlated_data-90"><a href="#gen_correlated_data-90"><span class="linenos"> 90</span></a>    <span class="n">tau</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tau</span><span class="p">)</span>
+</span><span id="gen_correlated_data-91"><a href="#gen_correlated_data-91"><span class="linenos"> 91</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">(</span><span class="n">tau</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mf">0.5</span><span class="p">:</span>
+</span><span id="gen_correlated_data-92"><a href="#gen_correlated_data-92"><span class="linenos"> 92</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;All integrated autocorrelations have to be &gt;= 0.5.&#39;</span><span class="p">)</span>
+</span><span id="gen_correlated_data-93"><a href="#gen_correlated_data-93"><span class="linenos"> 93</span></a>
+</span><span id="gen_correlated_data-94"><a href="#gen_correlated_data-94"><span class="linenos"> 94</span></a>    <span class="n">a</span> <span class="o">=</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">tau</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">tau</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="gen_correlated_data-95"><a href="#gen_correlated_data-95"><span class="linenos"> 95</span></a>    <span class="n">rand</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">random</span><span class="o">.</span><span class="n">multivariate_normal</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">zeros_like</span><span class="p">(</span><span class="n">means</span><span class="p">),</span> <span class="n">cov</span> <span class="o">*</span> <span class="n">samples</span><span class="p">,</span> <span class="n">samples</span><span class="p">)</span>
+</span><span id="gen_correlated_data-96"><a href="#gen_correlated_data-96"><span class="linenos"> 96</span></a>
+</span><span id="gen_correlated_data-97"><a href="#gen_correlated_data-97"><span class="linenos"> 97</span></a>    <span class="c1"># Normalize samples such that sample variance matches input</span>
+</span><span id="gen_correlated_data-98"><a href="#gen_correlated_data-98"><span class="linenos"> 98</span></a>    <span class="n">norm</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">var</span><span class="p">(</span><span class="n">o</span><span class="p">,</span> <span class="n">ddof</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">samples</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">rand</span><span class="o">.</span><span class="n">T</span><span class="p">])</span>
+</span><span id="gen_correlated_data-99"><a href="#gen_correlated_data-99"><span class="linenos"> 99</span></a>    <span class="n">rand</span> <span class="o">=</span> <span class="n">rand</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">)))</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">norm</span><span class="p">))</span>
+</span><span id="gen_correlated_data-100"><a href="#gen_correlated_data-100"><span class="linenos">100</span></a>
+</span><span id="gen_correlated_data-101"><a href="#gen_correlated_data-101"><span class="linenos">101</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="p">[</span><span class="n">rand</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span>
+</span><span id="gen_correlated_data-102"><a href="#gen_correlated_data-102"><span class="linenos">102</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">samples</span><span class="p">):</span>
+</span><span id="gen_correlated_data-103"><a href="#gen_correlated_data-103"><span class="linenos">103</span></a>        <span class="n">data</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">a</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">*</span> <span class="n">rand</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">+</span> <span class="n">a</span> <span class="o">*</span> <span class="n">data</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="gen_correlated_data-104"><a href="#gen_correlated_data-104"><span class="linenos">104</span></a>    <span class="n">corr_data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">data</span><span class="p">)</span> <span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">data</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">means</span>
+</span><span id="gen_correlated_data-105"><a href="#gen_correlated_data-105"><span class="linenos">105</span></a>    <span class="k">return</span> <span class="p">[</span><span class="n">Obs</span><span class="p">([</span><span class="n">dat</span><span class="p">],</span> <span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="k">for</span> <span class="n">dat</span> <span class="ow">in</span> <span class="n">corr_data</span><span class="o">.</span><span class="n">T</span><span class="p">]</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Generate observables with given covariance and autocorrelation times.</p>
 
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@@ -67,136 +67,137 @@
 <a href="./../pyerrors.html">pyerrors</a><wbr>.mpm    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos"> 0</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a><span class="kn">import</span> <span class="nn">scipy.linalg</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos"> 2</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="n">Obs</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a><span class="kn">from</span> <span class="nn">.linalg</span> <span class="kn">import</span> <span class="n">svd</span><span class="p">,</span> <span class="n">eig</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a>
+                        <input id="mpm-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="mpm-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos"> 2</span></a><span class="kn">import</span> <span class="nn">scipy.linalg</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="n">Obs</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a><span class="kn">from</span> <span class="nn">.linalg</span> <span class="kn">import</span> <span class="n">svd</span><span class="p">,</span> <span class="n">eig</span>
 </span><span id="L-5"><a href="#L-5"><span class="linenos"> 5</span></a>
-</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a><span class="k">def</span> <span class="nf">matrix_pencil_method</span><span class="p">(</span><span class="n">corrs</span><span class="p">,</span> <span class="n">k</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">p</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a>    <span class="sd">&quot;&quot;&quot;Matrix pencil method to extract k energy levels from data</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a>
-</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a><span class="sd">    Implementation of the matrix pencil method based on</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos">10</span></a><span class="sd">    eq. (2.17) of Y. Hua, T. K. Sarkar, IEEE Trans. Acoust. 38, 814-824 (1990)</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos">11</span></a>
-</span><span id="L-12"><a href="#L-12"><span class="linenos">12</span></a><span class="sd">    Parameters</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos">13</span></a><span class="sd">    ----------</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos">14</span></a><span class="sd">    data : list</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos">15</span></a><span class="sd">        can be a list of Obs for the analysis of a single correlator, or a list of lists</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos">16</span></a><span class="sd">        of Obs if several correlators are to analyzed at once.</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos">17</span></a><span class="sd">    k : int</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos">18</span></a><span class="sd">        Number of states to extract (default 1).</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos">19</span></a><span class="sd">    p : int</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos">20</span></a><span class="sd">        matrix pencil parameter which filters noise. The optimal value is expected between</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos">21</span></a><span class="sd">        len(data)/3 and 2*len(data)/3. The computation is more expensive the closer p is</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos">22</span></a><span class="sd">        to len(data)/2 but could possibly suppress more noise (default len(data)//2).</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos">23</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos">24</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">corrs</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos">25</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="p">[</span><span class="n">corrs</span><span class="p">]</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos">26</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos">27</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">corrs</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos">28</span></a>
-</span><span id="L-29"><a href="#L-29"><span class="linenos">29</span></a>    <span class="n">lengths</span> <span class="o">=</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">)</span> <span class="k">for</span> <span class="n">d</span> <span class="ow">in</span> <span class="n">data</span><span class="p">]</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos">30</span></a>    <span class="k">if</span> <span class="n">lengths</span><span class="o">.</span><span class="n">count</span><span class="p">(</span><span class="n">lengths</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">lengths</span><span class="p">):</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos">31</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;All datasets have to have the same length.&#39;</span><span class="p">)</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos">32</span></a>
-</span><span id="L-33"><a href="#L-33"><span class="linenos">33</span></a>    <span class="n">data_sets</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos">34</span></a>    <span class="n">n_data</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos">35</span></a>
-</span><span id="L-36"><a href="#L-36"><span class="linenos">36</span></a>    <span class="k">if</span> <span class="n">p</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos">37</span></a>        <span class="n">p</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="n">n_data</span> <span class="o">//</span> <span class="mi">2</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos">38</span></a>    <span class="k">if</span> <span class="n">n_data</span> <span class="o">&lt;=</span> <span class="n">p</span><span class="p">:</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos">39</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The pencil p has to be smaller than the number of data samples.&#39;</span><span class="p">)</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos">40</span></a>    <span class="k">if</span> <span class="n">p</span> <span class="o">&lt;</span> <span class="n">k</span> <span class="ow">or</span> <span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span> <span class="o">&lt;</span> <span class="n">k</span><span class="p">:</span>
-</span><span id="L-41"><a href="#L-41"><span class="linenos">41</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Cannot extract&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="s1">&#39;energy levels with p=&#39;</span><span class="p">,</span> <span class="n">p</span><span class="p">,</span> <span class="s1">&#39;and N-p=&#39;</span><span class="p">,</span> <span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span><span class="p">)</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos">42</span></a>
-</span><span id="L-43"><a href="#L-43"><span class="linenos">43</span></a>    <span class="c1"># Construct the hankel matrices</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos">44</span></a>    <span class="n">matrix</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos">45</span></a>    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">data_sets</span><span class="p">):</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos">46</span></a>        <span class="n">matrix</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">scipy</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">hankel</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="n">n</span><span class="p">][:</span><span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span><span class="p">],</span> <span class="n">data</span><span class="p">[</span><span class="n">n</span><span class="p">][</span><span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span> <span class="o">-</span> <span class="mi">1</span><span class="p">:]))</span>
-</span><span id="L-47"><a href="#L-47"><span class="linenos">47</span></a>    <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos">48</span></a>    <span class="c1"># Construct y1 and y2</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos">49</span></a>    <span class="n">y1</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">matrix</span><span class="p">[:,</span> <span class="p">:,</span> <span class="p">:</span><span class="n">p</span><span class="p">])</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos">50</span></a>    <span class="n">y2</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">matrix</span><span class="p">[:,</span> <span class="p">:,</span> <span class="mi">1</span><span class="p">:])</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos">51</span></a>    <span class="c1"># Apply SVD to y2</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos">52</span></a>    <span class="n">u</span><span class="p">,</span> <span class="n">s</span><span class="p">,</span> <span class="n">vh</span> <span class="o">=</span> <span class="n">svd</span><span class="p">(</span><span class="n">y2</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-53"><a href="#L-53"><span class="linenos">53</span></a>    <span class="c1"># Construct z from y1 and SVD of y2, setting all singular values beyond the kth to zero</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos">54</span></a>    <span class="n">z</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mf">1.</span> <span class="o">/</span> <span class="n">s</span><span class="p">[:</span><span class="n">k</span><span class="p">])</span> <span class="o">@</span> <span class="n">u</span><span class="p">[:,</span> <span class="p">:</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">y1</span> <span class="o">@</span> <span class="n">vh</span><span class="o">.</span><span class="n">T</span><span class="p">[:,</span> <span class="p">:</span><span class="n">k</span><span class="p">]</span>
-</span><span id="L-55"><a href="#L-55"><span class="linenos">55</span></a>    <span class="c1"># Return the sorted logarithms of the real eigenvalues as Obs</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos">56</span></a>    <span class="n">energy_levels</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">eig</span><span class="p">(</span><span class="n">z</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)))</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos">57</span></a>    <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">energy_levels</span><span class="p">,</span> <span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">abs</span><span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">value</span><span class="p">))</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a>
+</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a><span class="k">def</span> <span class="nf">matrix_pencil_method</span><span class="p">(</span><span class="n">corrs</span><span class="p">,</span> <span class="n">k</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">p</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a>    <span class="sd">&quot;&quot;&quot;Matrix pencil method to extract k energy levels from data</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a>
+</span><span id="L-10"><a href="#L-10"><span class="linenos">10</span></a><span class="sd">    Implementation of the matrix pencil method based on</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos">11</span></a><span class="sd">    eq. (2.17) of Y. Hua, T. K. Sarkar, IEEE Trans. Acoust. 38, 814-824 (1990)</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos">12</span></a>
+</span><span id="L-13"><a href="#L-13"><span class="linenos">13</span></a><span class="sd">    Parameters</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos">14</span></a><span class="sd">    ----------</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos">15</span></a><span class="sd">    data : list</span>
+</span><span id="L-16"><a href="#L-16"><span class="linenos">16</span></a><span class="sd">        can be a list of Obs for the analysis of a single correlator, or a list of lists</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos">17</span></a><span class="sd">        of Obs if several correlators are to analyzed at once.</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos">18</span></a><span class="sd">    k : int</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos">19</span></a><span class="sd">        Number of states to extract (default 1).</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos">20</span></a><span class="sd">    p : int</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos">21</span></a><span class="sd">        matrix pencil parameter which filters noise. The optimal value is expected between</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos">22</span></a><span class="sd">        len(data)/3 and 2*len(data)/3. The computation is more expensive the closer p is</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos">23</span></a><span class="sd">        to len(data)/2 but could possibly suppress more noise (default len(data)//2).</span>
+</span><span id="L-24"><a href="#L-24"><span class="linenos">24</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos">25</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">corrs</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos">26</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="p">[</span><span class="n">corrs</span><span class="p">]</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos">27</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos">28</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">corrs</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos">29</span></a>
+</span><span id="L-30"><a href="#L-30"><span class="linenos">30</span></a>    <span class="n">lengths</span> <span class="o">=</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">)</span> <span class="k">for</span> <span class="n">d</span> <span class="ow">in</span> <span class="n">data</span><span class="p">]</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos">31</span></a>    <span class="k">if</span> <span class="n">lengths</span><span class="o">.</span><span class="n">count</span><span class="p">(</span><span class="n">lengths</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">lengths</span><span class="p">):</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos">32</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;All datasets have to have the same length.&#39;</span><span class="p">)</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos">33</span></a>
+</span><span id="L-34"><a href="#L-34"><span class="linenos">34</span></a>    <span class="n">data_sets</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos">35</span></a>    <span class="n">n_data</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos">36</span></a>
+</span><span id="L-37"><a href="#L-37"><span class="linenos">37</span></a>    <span class="k">if</span> <span class="n">p</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos">38</span></a>        <span class="n">p</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="n">n_data</span> <span class="o">//</span> <span class="mi">2</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos">39</span></a>    <span class="k">if</span> <span class="n">n_data</span> <span class="o">&lt;=</span> <span class="n">p</span><span class="p">:</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos">40</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The pencil p has to be smaller than the number of data samples.&#39;</span><span class="p">)</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos">41</span></a>    <span class="k">if</span> <span class="n">p</span> <span class="o">&lt;</span> <span class="n">k</span> <span class="ow">or</span> <span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span> <span class="o">&lt;</span> <span class="n">k</span><span class="p">:</span>
+</span><span id="L-42"><a href="#L-42"><span class="linenos">42</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Cannot extract&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="s1">&#39;energy levels with p=&#39;</span><span class="p">,</span> <span class="n">p</span><span class="p">,</span> <span class="s1">&#39;and N-p=&#39;</span><span class="p">,</span> <span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span><span class="p">)</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos">43</span></a>
+</span><span id="L-44"><a href="#L-44"><span class="linenos">44</span></a>    <span class="c1"># Construct the hankel matrices</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos">45</span></a>    <span class="n">matrix</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos">46</span></a>    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">data_sets</span><span class="p">):</span>
+</span><span id="L-47"><a href="#L-47"><span class="linenos">47</span></a>        <span class="n">matrix</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">scipy</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">hankel</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="n">n</span><span class="p">][:</span><span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span><span class="p">],</span> <span class="n">data</span><span class="p">[</span><span class="n">n</span><span class="p">][</span><span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span> <span class="o">-</span> <span class="mi">1</span><span class="p">:]))</span>
+</span><span id="L-48"><a href="#L-48"><span class="linenos">48</span></a>    <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos">49</span></a>    <span class="c1"># Construct y1 and y2</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos">50</span></a>    <span class="n">y1</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">matrix</span><span class="p">[:,</span> <span class="p">:,</span> <span class="p">:</span><span class="n">p</span><span class="p">])</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos">51</span></a>    <span class="n">y2</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">matrix</span><span class="p">[:,</span> <span class="p">:,</span> <span class="mi">1</span><span class="p">:])</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos">52</span></a>    <span class="c1"># Apply SVD to y2</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos">53</span></a>    <span class="n">u</span><span class="p">,</span> <span class="n">s</span><span class="p">,</span> <span class="n">vh</span> <span class="o">=</span> <span class="n">svd</span><span class="p">(</span><span class="n">y2</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-54"><a href="#L-54"><span class="linenos">54</span></a>    <span class="c1"># Construct z from y1 and SVD of y2, setting all singular values beyond the kth to zero</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos">55</span></a>    <span class="n">z</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mf">1.</span> <span class="o">/</span> <span class="n">s</span><span class="p">[:</span><span class="n">k</span><span class="p">])</span> <span class="o">@</span> <span class="n">u</span><span class="p">[:,</span> <span class="p">:</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">y1</span> <span class="o">@</span> <span class="n">vh</span><span class="o">.</span><span class="n">T</span><span class="p">[:,</span> <span class="p">:</span><span class="n">k</span><span class="p">]</span>
+</span><span id="L-56"><a href="#L-56"><span class="linenos">56</span></a>    <span class="c1"># Return the sorted logarithms of the real eigenvalues as Obs</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos">57</span></a>    <span class="n">energy_levels</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">eig</span><span class="p">(</span><span class="n">z</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)))</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos">58</span></a>    <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">energy_levels</span><span class="p">,</span> <span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">abs</span><span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">value</span><span class="p">))</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="matrix_pencil_method">
-                            <div class="attr function"><a class="headerlink" href="#matrix_pencil_method">#&nbsp;&nbsp</a>
+                            <input id="matrix_pencil_method-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">matrix_pencil_method</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">corrs</span>, </span><span class="param"><span class="n">k</span><span class="o">=</span><span class="mi">1</span>, </span><span class="param"><span class="n">p</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="matrix_pencil_method-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">matrix_pencil_method</span><span class="signature">(corrs, k=1, p=None, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="matrix_pencil_method-7"><a href="#matrix_pencil_method-7"><span class="linenos"> 7</span></a><span class="k">def</span> <span class="nf">matrix_pencil_method</span><span class="p">(</span><span class="n">corrs</span><span class="p">,</span> <span class="n">k</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">p</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="matrix_pencil_method-8"><a href="#matrix_pencil_method-8"><span class="linenos"> 8</span></a>    <span class="sd">&quot;&quot;&quot;Matrix pencil method to extract k energy levels from data</span>
-</span><span id="matrix_pencil_method-9"><a href="#matrix_pencil_method-9"><span class="linenos"> 9</span></a>
-</span><span id="matrix_pencil_method-10"><a href="#matrix_pencil_method-10"><span class="linenos">10</span></a><span class="sd">    Implementation of the matrix pencil method based on</span>
-</span><span id="matrix_pencil_method-11"><a href="#matrix_pencil_method-11"><span class="linenos">11</span></a><span class="sd">    eq. (2.17) of Y. Hua, T. K. Sarkar, IEEE Trans. Acoust. 38, 814-824 (1990)</span>
-</span><span id="matrix_pencil_method-12"><a href="#matrix_pencil_method-12"><span class="linenos">12</span></a>
-</span><span id="matrix_pencil_method-13"><a href="#matrix_pencil_method-13"><span class="linenos">13</span></a><span class="sd">    Parameters</span>
-</span><span id="matrix_pencil_method-14"><a href="#matrix_pencil_method-14"><span class="linenos">14</span></a><span class="sd">    ----------</span>
-</span><span id="matrix_pencil_method-15"><a href="#matrix_pencil_method-15"><span class="linenos">15</span></a><span class="sd">    data : list</span>
-</span><span id="matrix_pencil_method-16"><a href="#matrix_pencil_method-16"><span class="linenos">16</span></a><span class="sd">        can be a list of Obs for the analysis of a single correlator, or a list of lists</span>
-</span><span id="matrix_pencil_method-17"><a href="#matrix_pencil_method-17"><span class="linenos">17</span></a><span class="sd">        of Obs if several correlators are to analyzed at once.</span>
-</span><span id="matrix_pencil_method-18"><a href="#matrix_pencil_method-18"><span class="linenos">18</span></a><span class="sd">    k : int</span>
-</span><span id="matrix_pencil_method-19"><a href="#matrix_pencil_method-19"><span class="linenos">19</span></a><span class="sd">        Number of states to extract (default 1).</span>
-</span><span id="matrix_pencil_method-20"><a href="#matrix_pencil_method-20"><span class="linenos">20</span></a><span class="sd">    p : int</span>
-</span><span id="matrix_pencil_method-21"><a href="#matrix_pencil_method-21"><span class="linenos">21</span></a><span class="sd">        matrix pencil parameter which filters noise. The optimal value is expected between</span>
-</span><span id="matrix_pencil_method-22"><a href="#matrix_pencil_method-22"><span class="linenos">22</span></a><span class="sd">        len(data)/3 and 2*len(data)/3. The computation is more expensive the closer p is</span>
-</span><span id="matrix_pencil_method-23"><a href="#matrix_pencil_method-23"><span class="linenos">23</span></a><span class="sd">        to len(data)/2 but could possibly suppress more noise (default len(data)//2).</span>
-</span><span id="matrix_pencil_method-24"><a href="#matrix_pencil_method-24"><span class="linenos">24</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="matrix_pencil_method-25"><a href="#matrix_pencil_method-25"><span class="linenos">25</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">corrs</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="matrix_pencil_method-26"><a href="#matrix_pencil_method-26"><span class="linenos">26</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="p">[</span><span class="n">corrs</span><span class="p">]</span>
-</span><span id="matrix_pencil_method-27"><a href="#matrix_pencil_method-27"><span class="linenos">27</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="matrix_pencil_method-28"><a href="#matrix_pencil_method-28"><span class="linenos">28</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">corrs</span>
-</span><span id="matrix_pencil_method-29"><a href="#matrix_pencil_method-29"><span class="linenos">29</span></a>
-</span><span id="matrix_pencil_method-30"><a href="#matrix_pencil_method-30"><span class="linenos">30</span></a>    <span class="n">lengths</span> <span class="o">=</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">)</span> <span class="k">for</span> <span class="n">d</span> <span class="ow">in</span> <span class="n">data</span><span class="p">]</span>
-</span><span id="matrix_pencil_method-31"><a href="#matrix_pencil_method-31"><span class="linenos">31</span></a>    <span class="k">if</span> <span class="n">lengths</span><span class="o">.</span><span class="n">count</span><span class="p">(</span><span class="n">lengths</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">lengths</span><span class="p">):</span>
-</span><span id="matrix_pencil_method-32"><a href="#matrix_pencil_method-32"><span class="linenos">32</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;All datasets have to have the same length.&#39;</span><span class="p">)</span>
-</span><span id="matrix_pencil_method-33"><a href="#matrix_pencil_method-33"><span class="linenos">33</span></a>
-</span><span id="matrix_pencil_method-34"><a href="#matrix_pencil_method-34"><span class="linenos">34</span></a>    <span class="n">data_sets</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
-</span><span id="matrix_pencil_method-35"><a href="#matrix_pencil_method-35"><span class="linenos">35</span></a>    <span class="n">n_data</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="matrix_pencil_method-36"><a href="#matrix_pencil_method-36"><span class="linenos">36</span></a>
-</span><span id="matrix_pencil_method-37"><a href="#matrix_pencil_method-37"><span class="linenos">37</span></a>    <span class="k">if</span> <span class="n">p</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="matrix_pencil_method-38"><a href="#matrix_pencil_method-38"><span class="linenos">38</span></a>        <span class="n">p</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="n">n_data</span> <span class="o">//</span> <span class="mi">2</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
-</span><span id="matrix_pencil_method-39"><a href="#matrix_pencil_method-39"><span class="linenos">39</span></a>    <span class="k">if</span> <span class="n">n_data</span> <span class="o">&lt;=</span> <span class="n">p</span><span class="p">:</span>
-</span><span id="matrix_pencil_method-40"><a href="#matrix_pencil_method-40"><span class="linenos">40</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The pencil p has to be smaller than the number of data samples.&#39;</span><span class="p">)</span>
-</span><span id="matrix_pencil_method-41"><a href="#matrix_pencil_method-41"><span class="linenos">41</span></a>    <span class="k">if</span> <span class="n">p</span> <span class="o">&lt;</span> <span class="n">k</span> <span class="ow">or</span> <span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span> <span class="o">&lt;</span> <span class="n">k</span><span class="p">:</span>
-</span><span id="matrix_pencil_method-42"><a href="#matrix_pencil_method-42"><span class="linenos">42</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Cannot extract&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="s1">&#39;energy levels with p=&#39;</span><span class="p">,</span> <span class="n">p</span><span class="p">,</span> <span class="s1">&#39;and N-p=&#39;</span><span class="p">,</span> <span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span><span class="p">)</span>
-</span><span id="matrix_pencil_method-43"><a href="#matrix_pencil_method-43"><span class="linenos">43</span></a>
-</span><span id="matrix_pencil_method-44"><a href="#matrix_pencil_method-44"><span class="linenos">44</span></a>    <span class="c1"># Construct the hankel matrices</span>
-</span><span id="matrix_pencil_method-45"><a href="#matrix_pencil_method-45"><span class="linenos">45</span></a>    <span class="n">matrix</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="matrix_pencil_method-46"><a href="#matrix_pencil_method-46"><span class="linenos">46</span></a>    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">data_sets</span><span class="p">):</span>
-</span><span id="matrix_pencil_method-47"><a href="#matrix_pencil_method-47"><span class="linenos">47</span></a>        <span class="n">matrix</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">scipy</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">hankel</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="n">n</span><span class="p">][:</span><span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span><span class="p">],</span> <span class="n">data</span><span class="p">[</span><span class="n">n</span><span class="p">][</span><span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span> <span class="o">-</span> <span class="mi">1</span><span class="p">:]))</span>
-</span><span id="matrix_pencil_method-48"><a href="#matrix_pencil_method-48"><span class="linenos">48</span></a>    <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
-</span><span id="matrix_pencil_method-49"><a href="#matrix_pencil_method-49"><span class="linenos">49</span></a>    <span class="c1"># Construct y1 and y2</span>
-</span><span id="matrix_pencil_method-50"><a href="#matrix_pencil_method-50"><span class="linenos">50</span></a>    <span class="n">y1</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">matrix</span><span class="p">[:,</span> <span class="p">:,</span> <span class="p">:</span><span class="n">p</span><span class="p">])</span>
-</span><span id="matrix_pencil_method-51"><a href="#matrix_pencil_method-51"><span class="linenos">51</span></a>    <span class="n">y2</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">matrix</span><span class="p">[:,</span> <span class="p">:,</span> <span class="mi">1</span><span class="p">:])</span>
-</span><span id="matrix_pencil_method-52"><a href="#matrix_pencil_method-52"><span class="linenos">52</span></a>    <span class="c1"># Apply SVD to y2</span>
-</span><span id="matrix_pencil_method-53"><a href="#matrix_pencil_method-53"><span class="linenos">53</span></a>    <span class="n">u</span><span class="p">,</span> <span class="n">s</span><span class="p">,</span> <span class="n">vh</span> <span class="o">=</span> <span class="n">svd</span><span class="p">(</span><span class="n">y2</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="matrix_pencil_method-54"><a href="#matrix_pencil_method-54"><span class="linenos">54</span></a>    <span class="c1"># Construct z from y1 and SVD of y2, setting all singular values beyond the kth to zero</span>
-</span><span id="matrix_pencil_method-55"><a href="#matrix_pencil_method-55"><span class="linenos">55</span></a>    <span class="n">z</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mf">1.</span> <span class="o">/</span> <span class="n">s</span><span class="p">[:</span><span class="n">k</span><span class="p">])</span> <span class="o">@</span> <span class="n">u</span><span class="p">[:,</span> <span class="p">:</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">y1</span> <span class="o">@</span> <span class="n">vh</span><span class="o">.</span><span class="n">T</span><span class="p">[:,</span> <span class="p">:</span><span class="n">k</span><span class="p">]</span>
-</span><span id="matrix_pencil_method-56"><a href="#matrix_pencil_method-56"><span class="linenos">56</span></a>    <span class="c1"># Return the sorted logarithms of the real eigenvalues as Obs</span>
-</span><span id="matrix_pencil_method-57"><a href="#matrix_pencil_method-57"><span class="linenos">57</span></a>    <span class="n">energy_levels</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">eig</span><span class="p">(</span><span class="n">z</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)))</span>
-</span><span id="matrix_pencil_method-58"><a href="#matrix_pencil_method-58"><span class="linenos">58</span></a>    <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">energy_levels</span><span class="p">,</span> <span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">abs</span><span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">value</span><span class="p">))</span>
+    <a class="headerlink" href="#matrix_pencil_method"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="matrix_pencil_method-8"><a href="#matrix_pencil_method-8"><span class="linenos"> 8</span></a><span class="k">def</span> <span class="nf">matrix_pencil_method</span><span class="p">(</span><span class="n">corrs</span><span class="p">,</span> <span class="n">k</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">p</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="matrix_pencil_method-9"><a href="#matrix_pencil_method-9"><span class="linenos"> 9</span></a>    <span class="sd">&quot;&quot;&quot;Matrix pencil method to extract k energy levels from data</span>
+</span><span id="matrix_pencil_method-10"><a href="#matrix_pencil_method-10"><span class="linenos">10</span></a>
+</span><span id="matrix_pencil_method-11"><a href="#matrix_pencil_method-11"><span class="linenos">11</span></a><span class="sd">    Implementation of the matrix pencil method based on</span>
+</span><span id="matrix_pencil_method-12"><a href="#matrix_pencil_method-12"><span class="linenos">12</span></a><span class="sd">    eq. (2.17) of Y. Hua, T. K. Sarkar, IEEE Trans. Acoust. 38, 814-824 (1990)</span>
+</span><span id="matrix_pencil_method-13"><a href="#matrix_pencil_method-13"><span class="linenos">13</span></a>
+</span><span id="matrix_pencil_method-14"><a href="#matrix_pencil_method-14"><span class="linenos">14</span></a><span class="sd">    Parameters</span>
+</span><span id="matrix_pencil_method-15"><a href="#matrix_pencil_method-15"><span class="linenos">15</span></a><span class="sd">    ----------</span>
+</span><span id="matrix_pencil_method-16"><a href="#matrix_pencil_method-16"><span class="linenos">16</span></a><span class="sd">    data : list</span>
+</span><span id="matrix_pencil_method-17"><a href="#matrix_pencil_method-17"><span class="linenos">17</span></a><span class="sd">        can be a list of Obs for the analysis of a single correlator, or a list of lists</span>
+</span><span id="matrix_pencil_method-18"><a href="#matrix_pencil_method-18"><span class="linenos">18</span></a><span class="sd">        of Obs if several correlators are to analyzed at once.</span>
+</span><span id="matrix_pencil_method-19"><a href="#matrix_pencil_method-19"><span class="linenos">19</span></a><span class="sd">    k : int</span>
+</span><span id="matrix_pencil_method-20"><a href="#matrix_pencil_method-20"><span class="linenos">20</span></a><span class="sd">        Number of states to extract (default 1).</span>
+</span><span id="matrix_pencil_method-21"><a href="#matrix_pencil_method-21"><span class="linenos">21</span></a><span class="sd">    p : int</span>
+</span><span id="matrix_pencil_method-22"><a href="#matrix_pencil_method-22"><span class="linenos">22</span></a><span class="sd">        matrix pencil parameter which filters noise. The optimal value is expected between</span>
+</span><span id="matrix_pencil_method-23"><a href="#matrix_pencil_method-23"><span class="linenos">23</span></a><span class="sd">        len(data)/3 and 2*len(data)/3. The computation is more expensive the closer p is</span>
+</span><span id="matrix_pencil_method-24"><a href="#matrix_pencil_method-24"><span class="linenos">24</span></a><span class="sd">        to len(data)/2 but could possibly suppress more noise (default len(data)//2).</span>
+</span><span id="matrix_pencil_method-25"><a href="#matrix_pencil_method-25"><span class="linenos">25</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="matrix_pencil_method-26"><a href="#matrix_pencil_method-26"><span class="linenos">26</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">corrs</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="matrix_pencil_method-27"><a href="#matrix_pencil_method-27"><span class="linenos">27</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="p">[</span><span class="n">corrs</span><span class="p">]</span>
+</span><span id="matrix_pencil_method-28"><a href="#matrix_pencil_method-28"><span class="linenos">28</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="matrix_pencil_method-29"><a href="#matrix_pencil_method-29"><span class="linenos">29</span></a>        <span class="n">data</span> <span class="o">=</span> <span class="n">corrs</span>
+</span><span id="matrix_pencil_method-30"><a href="#matrix_pencil_method-30"><span class="linenos">30</span></a>
+</span><span id="matrix_pencil_method-31"><a href="#matrix_pencil_method-31"><span class="linenos">31</span></a>    <span class="n">lengths</span> <span class="o">=</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">d</span><span class="p">)</span> <span class="k">for</span> <span class="n">d</span> <span class="ow">in</span> <span class="n">data</span><span class="p">]</span>
+</span><span id="matrix_pencil_method-32"><a href="#matrix_pencil_method-32"><span class="linenos">32</span></a>    <span class="k">if</span> <span class="n">lengths</span><span class="o">.</span><span class="n">count</span><span class="p">(</span><span class="n">lengths</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">lengths</span><span class="p">):</span>
+</span><span id="matrix_pencil_method-33"><a href="#matrix_pencil_method-33"><span class="linenos">33</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;All datasets have to have the same length.&#39;</span><span class="p">)</span>
+</span><span id="matrix_pencil_method-34"><a href="#matrix_pencil_method-34"><span class="linenos">34</span></a>
+</span><span id="matrix_pencil_method-35"><a href="#matrix_pencil_method-35"><span class="linenos">35</span></a>    <span class="n">data_sets</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
+</span><span id="matrix_pencil_method-36"><a href="#matrix_pencil_method-36"><span class="linenos">36</span></a>    <span class="n">n_data</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="matrix_pencil_method-37"><a href="#matrix_pencil_method-37"><span class="linenos">37</span></a>
+</span><span id="matrix_pencil_method-38"><a href="#matrix_pencil_method-38"><span class="linenos">38</span></a>    <span class="k">if</span> <span class="n">p</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="matrix_pencil_method-39"><a href="#matrix_pencil_method-39"><span class="linenos">39</span></a>        <span class="n">p</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="n">n_data</span> <span class="o">//</span> <span class="mi">2</span><span class="p">,</span> <span class="n">k</span><span class="p">)</span>
+</span><span id="matrix_pencil_method-40"><a href="#matrix_pencil_method-40"><span class="linenos">40</span></a>    <span class="k">if</span> <span class="n">n_data</span> <span class="o">&lt;=</span> <span class="n">p</span><span class="p">:</span>
+</span><span id="matrix_pencil_method-41"><a href="#matrix_pencil_method-41"><span class="linenos">41</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The pencil p has to be smaller than the number of data samples.&#39;</span><span class="p">)</span>
+</span><span id="matrix_pencil_method-42"><a href="#matrix_pencil_method-42"><span class="linenos">42</span></a>    <span class="k">if</span> <span class="n">p</span> <span class="o">&lt;</span> <span class="n">k</span> <span class="ow">or</span> <span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span> <span class="o">&lt;</span> <span class="n">k</span><span class="p">:</span>
+</span><span id="matrix_pencil_method-43"><a href="#matrix_pencil_method-43"><span class="linenos">43</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Cannot extract&#39;</span><span class="p">,</span> <span class="n">k</span><span class="p">,</span> <span class="s1">&#39;energy levels with p=&#39;</span><span class="p">,</span> <span class="n">p</span><span class="p">,</span> <span class="s1">&#39;and N-p=&#39;</span><span class="p">,</span> <span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span><span class="p">)</span>
+</span><span id="matrix_pencil_method-44"><a href="#matrix_pencil_method-44"><span class="linenos">44</span></a>
+</span><span id="matrix_pencil_method-45"><a href="#matrix_pencil_method-45"><span class="linenos">45</span></a>    <span class="c1"># Construct the hankel matrices</span>
+</span><span id="matrix_pencil_method-46"><a href="#matrix_pencil_method-46"><span class="linenos">46</span></a>    <span class="n">matrix</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="matrix_pencil_method-47"><a href="#matrix_pencil_method-47"><span class="linenos">47</span></a>    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">data_sets</span><span class="p">):</span>
+</span><span id="matrix_pencil_method-48"><a href="#matrix_pencil_method-48"><span class="linenos">48</span></a>        <span class="n">matrix</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">scipy</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">hankel</span><span class="p">(</span><span class="n">data</span><span class="p">[</span><span class="n">n</span><span class="p">][:</span><span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span><span class="p">],</span> <span class="n">data</span><span class="p">[</span><span class="n">n</span><span class="p">][</span><span class="n">n_data</span> <span class="o">-</span> <span class="n">p</span> <span class="o">-</span> <span class="mi">1</span><span class="p">:]))</span>
+</span><span id="matrix_pencil_method-49"><a href="#matrix_pencil_method-49"><span class="linenos">49</span></a>    <span class="n">matrix</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">matrix</span><span class="p">)</span>
+</span><span id="matrix_pencil_method-50"><a href="#matrix_pencil_method-50"><span class="linenos">50</span></a>    <span class="c1"># Construct y1 and y2</span>
+</span><span id="matrix_pencil_method-51"><a href="#matrix_pencil_method-51"><span class="linenos">51</span></a>    <span class="n">y1</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">matrix</span><span class="p">[:,</span> <span class="p">:,</span> <span class="p">:</span><span class="n">p</span><span class="p">])</span>
+</span><span id="matrix_pencil_method-52"><a href="#matrix_pencil_method-52"><span class="linenos">52</span></a>    <span class="n">y2</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">matrix</span><span class="p">[:,</span> <span class="p">:,</span> <span class="mi">1</span><span class="p">:])</span>
+</span><span id="matrix_pencil_method-53"><a href="#matrix_pencil_method-53"><span class="linenos">53</span></a>    <span class="c1"># Apply SVD to y2</span>
+</span><span id="matrix_pencil_method-54"><a href="#matrix_pencil_method-54"><span class="linenos">54</span></a>    <span class="n">u</span><span class="p">,</span> <span class="n">s</span><span class="p">,</span> <span class="n">vh</span> <span class="o">=</span> <span class="n">svd</span><span class="p">(</span><span class="n">y2</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="matrix_pencil_method-55"><a href="#matrix_pencil_method-55"><span class="linenos">55</span></a>    <span class="c1"># Construct z from y1 and SVD of y2, setting all singular values beyond the kth to zero</span>
+</span><span id="matrix_pencil_method-56"><a href="#matrix_pencil_method-56"><span class="linenos">56</span></a>    <span class="n">z</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mf">1.</span> <span class="o">/</span> <span class="n">s</span><span class="p">[:</span><span class="n">k</span><span class="p">])</span> <span class="o">@</span> <span class="n">u</span><span class="p">[:,</span> <span class="p">:</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">y1</span> <span class="o">@</span> <span class="n">vh</span><span class="o">.</span><span class="n">T</span><span class="p">[:,</span> <span class="p">:</span><span class="n">k</span><span class="p">]</span>
+</span><span id="matrix_pencil_method-57"><a href="#matrix_pencil_method-57"><span class="linenos">57</span></a>    <span class="c1"># Return the sorted logarithms of the real eigenvalues as Obs</span>
+</span><span id="matrix_pencil_method-58"><a href="#matrix_pencil_method-58"><span class="linenos">58</span></a>    <span class="n">energy_levels</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">eig</span><span class="p">(</span><span class="n">z</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)))</span>
+</span><span id="matrix_pencil_method-59"><a href="#matrix_pencil_method-59"><span class="linenos">59</span></a>    <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">energy_levels</span><span class="p">,</span> <span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">abs</span><span class="p">(</span><span class="n">x</span><span class="o">.</span><span class="n">value</span><span class="p">))</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Matrix pencil method to extract k energy levels from data</p>
 
diff --git a/docs/pyerrors/obs.html b/docs/pyerrors/obs.html
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@@ -307,2411 +307,2414 @@
 <a href="./../pyerrors.html">pyerrors</a><wbr>.obs    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">   0</span></a><span class="kn">import</span> <span class="nn">warnings</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos">   1</span></a><span class="kn">import</span> <span class="nn">pickle</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos">   2</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos">   3</span></a><span class="kn">import</span> <span class="nn">autograd.numpy</span> <span class="k">as</span> <span class="nn">anp</span>  <span class="c1"># Thinly-wrapped numpy</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos">   4</span></a><span class="kn">from</span> <span class="nn">autograd</span> <span class="kn">import</span> <span class="n">jacobian</span>
-</span><span id="L-5"><a href="#L-5"><span class="linenos">   5</span></a><span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="k">as</span> <span class="nn">plt</span>
-</span><span id="L-6"><a href="#L-6"><span class="linenos">   6</span></a><span class="kn">from</span> <span class="nn">scipy.stats</span> <span class="kn">import</span> <span class="n">skew</span><span class="p">,</span> <span class="n">skewtest</span><span class="p">,</span> <span class="n">kurtosis</span><span class="p">,</span> <span class="n">kurtosistest</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos">   7</span></a><span class="kn">import</span> <span class="nn">numdifftools</span> <span class="k">as</span> <span class="nn">nd</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos">   8</span></a><span class="kn">from</span> <span class="nn">itertools</span> <span class="kn">import</span> <span class="n">groupby</span>
-</span><span id="L-9"><a href="#L-9"><span class="linenos">   9</span></a><span class="kn">from</span> <span class="nn">.covobs</span> <span class="kn">import</span> <span class="n">Covobs</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos">  10</span></a>
+                        <input id="obs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="obs-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">   1</span></a><span class="kn">import</span> <span class="nn">warnings</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos">   2</span></a><span class="kn">import</span> <span class="nn">pickle</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos">   3</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos">   4</span></a><span class="kn">import</span> <span class="nn">autograd.numpy</span> <span class="k">as</span> <span class="nn">anp</span>  <span class="c1"># Thinly-wrapped numpy</span>
+</span><span id="L-5"><a href="#L-5"><span class="linenos">   5</span></a><span class="kn">from</span> <span class="nn">autograd</span> <span class="kn">import</span> <span class="n">jacobian</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos">   6</span></a><span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="k">as</span> <span class="nn">plt</span>
+</span><span id="L-7"><a href="#L-7"><span class="linenos">   7</span></a><span class="kn">from</span> <span class="nn">scipy.stats</span> <span class="kn">import</span> <span class="n">skew</span><span class="p">,</span> <span class="n">skewtest</span><span class="p">,</span> <span class="n">kurtosis</span><span class="p">,</span> <span class="n">kurtosistest</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos">   8</span></a><span class="kn">import</span> <span class="nn">numdifftools</span> <span class="k">as</span> <span class="nn">nd</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos">   9</span></a><span class="kn">from</span> <span class="nn">itertools</span> <span class="kn">import</span> <span class="n">groupby</span>
+</span><span id="L-10"><a href="#L-10"><span class="linenos">  10</span></a><span class="kn">from</span> <span class="nn">.covobs</span> <span class="kn">import</span> <span class="n">Covobs</span>
 </span><span id="L-11"><a href="#L-11"><span class="linenos">  11</span></a>
-</span><span id="L-12"><a href="#L-12"><span class="linenos">  12</span></a><span class="k">class</span> <span class="nc">Obs</span><span class="p">:</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos">  13</span></a>    <span class="sd">&quot;&quot;&quot;Class for a general observable.</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos">  14</span></a>
-</span><span id="L-15"><a href="#L-15"><span class="linenos">  15</span></a><span class="sd">    Instances of Obs are the basic objects of a pyerrors error analysis.</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos">  16</span></a><span class="sd">    They are initialized with a list which contains arrays of samples for</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos">  17</span></a><span class="sd">    different ensembles/replica and another list of same length which contains</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos">  18</span></a><span class="sd">    the names of the ensembles/replica. Mathematical operations can be</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos">  19</span></a><span class="sd">    performed on instances. The result is another instance of Obs. The error of</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos">  20</span></a><span class="sd">    an instance can be computed with the gamma_method. Also contains additional</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos">  21</span></a><span class="sd">    methods for output and visualization of the error calculation.</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos">  22</span></a>
-</span><span id="L-23"><a href="#L-23"><span class="linenos">  23</span></a><span class="sd">    Attributes</span>
-</span><span id="L-24"><a href="#L-24"><span class="linenos">  24</span></a><span class="sd">    ----------</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos">  25</span></a><span class="sd">    S_global : float</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos">  26</span></a><span class="sd">        Standard value for S (default 2.0)</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos">  27</span></a><span class="sd">    S_dict : dict</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos">  28</span></a><span class="sd">        Dictionary for S values. If an entry for a given ensemble</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos">  29</span></a><span class="sd">        exists this overwrites the standard value for that ensemble.</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos">  30</span></a><span class="sd">    tau_exp_global : float</span>
-</span><span id="L-31"><a href="#L-31"><span class="linenos">  31</span></a><span class="sd">        Standard value for tau_exp (default 0.0)</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos">  32</span></a><span class="sd">    tau_exp_dict : dict</span>
-</span><span id="L-33"><a href="#L-33"><span class="linenos">  33</span></a><span class="sd">        Dictionary for tau_exp values. If an entry for a given ensemble exists</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos">  34</span></a><span class="sd">        this overwrites the standard value for that ensemble.</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos">  35</span></a><span class="sd">    N_sigma_global : float</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos">  36</span></a><span class="sd">        Standard value for N_sigma (default 1.0)</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos">  37</span></a><span class="sd">    N_sigma_dict : dict</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos">  38</span></a><span class="sd">        Dictionary for N_sigma values. If an entry for a given ensemble exists</span>
-</span><span id="L-39"><a href="#L-39"><span class="linenos">  39</span></a><span class="sd">        this overwrites the standard value for that ensemble.</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos">  40</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-41"><a href="#L-41"><span class="linenos">  41</span></a>    <span class="vm">__slots__</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">,</span> <span class="s1">&#39;shape&#39;</span><span class="p">,</span> <span class="s1">&#39;r_values&#39;</span><span class="p">,</span> <span class="s1">&#39;deltas&#39;</span><span class="p">,</span> <span class="s1">&#39;N&#39;</span><span class="p">,</span> <span class="s1">&#39;_value&#39;</span><span class="p">,</span> <span class="s1">&#39;_dvalue&#39;</span><span class="p">,</span>
-</span><span id="L-42"><a href="#L-42"><span class="linenos">  42</span></a>                 <span class="s1">&#39;ddvalue&#39;</span><span class="p">,</span> <span class="s1">&#39;reweighted&#39;</span><span class="p">,</span> <span class="s1">&#39;S&#39;</span><span class="p">,</span> <span class="s1">&#39;tau_exp&#39;</span><span class="p">,</span> <span class="s1">&#39;N_sigma&#39;</span><span class="p">,</span>
-</span><span id="L-43"><a href="#L-43"><span class="linenos">  43</span></a>                 <span class="s1">&#39;e_dvalue&#39;</span><span class="p">,</span> <span class="s1">&#39;e_ddvalue&#39;</span><span class="p">,</span> <span class="s1">&#39;e_tauint&#39;</span><span class="p">,</span> <span class="s1">&#39;e_dtauint&#39;</span><span class="p">,</span>
-</span><span id="L-44"><a href="#L-44"><span class="linenos">  44</span></a>                 <span class="s1">&#39;e_windowsize&#39;</span><span class="p">,</span> <span class="s1">&#39;e_rho&#39;</span><span class="p">,</span> <span class="s1">&#39;e_drho&#39;</span><span class="p">,</span> <span class="s1">&#39;e_n_tauint&#39;</span><span class="p">,</span> <span class="s1">&#39;e_n_dtauint&#39;</span><span class="p">,</span>
-</span><span id="L-45"><a href="#L-45"><span class="linenos">  45</span></a>                 <span class="s1">&#39;idl&#39;</span><span class="p">,</span> <span class="s1">&#39;is_merged&#39;</span><span class="p">,</span> <span class="s1">&#39;tag&#39;</span><span class="p">,</span> <span class="s1">&#39;_covobs&#39;</span><span class="p">,</span> <span class="s1">&#39;__dict__&#39;</span><span class="p">]</span>
-</span><span id="L-46"><a href="#L-46"><span class="linenos">  46</span></a>
-</span><span id="L-47"><a href="#L-47"><span class="linenos">  47</span></a>    <span class="n">S_global</span> <span class="o">=</span> <span class="mf">2.0</span>
-</span><span id="L-48"><a href="#L-48"><span class="linenos">  48</span></a>    <span class="n">S_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-49"><a href="#L-49"><span class="linenos">  49</span></a>    <span class="n">tau_exp_global</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-50"><a href="#L-50"><span class="linenos">  50</span></a>    <span class="n">tau_exp_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-51"><a href="#L-51"><span class="linenos">  51</span></a>    <span class="n">N_sigma_global</span> <span class="o">=</span> <span class="mf">1.0</span>
-</span><span id="L-52"><a href="#L-52"><span class="linenos">  52</span></a>    <span class="n">N_sigma_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-53"><a href="#L-53"><span class="linenos">  53</span></a>    <span class="n">filter_eps</span> <span class="o">=</span> <span class="mf">1e-10</span>
-</span><span id="L-54"><a href="#L-54"><span class="linenos">  54</span></a>
-</span><span id="L-55"><a href="#L-55"><span class="linenos">  55</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-56"><a href="#L-56"><span class="linenos">  56</span></a>        <span class="sd">&quot;&quot;&quot; Initialize Obs object.</span>
-</span><span id="L-57"><a href="#L-57"><span class="linenos">  57</span></a>
-</span><span id="L-58"><a href="#L-58"><span class="linenos">  58</span></a><span class="sd">        Parameters</span>
-</span><span id="L-59"><a href="#L-59"><span class="linenos">  59</span></a><span class="sd">        ----------</span>
-</span><span id="L-60"><a href="#L-60"><span class="linenos">  60</span></a><span class="sd">        samples : list</span>
-</span><span id="L-61"><a href="#L-61"><span class="linenos">  61</span></a><span class="sd">            list of numpy arrays containing the Monte Carlo samples</span>
-</span><span id="L-62"><a href="#L-62"><span class="linenos">  62</span></a><span class="sd">        names : list</span>
-</span><span id="L-63"><a href="#L-63"><span class="linenos">  63</span></a><span class="sd">            list of strings labeling the individual samples</span>
-</span><span id="L-64"><a href="#L-64"><span class="linenos">  64</span></a><span class="sd">        idl : list, optional</span>
-</span><span id="L-65"><a href="#L-65"><span class="linenos">  65</span></a><span class="sd">            list of ranges or lists on which the samples are defined</span>
-</span><span id="L-66"><a href="#L-66"><span class="linenos">  66</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-67"><a href="#L-67"><span class="linenos">  67</span></a>
-</span><span id="L-68"><a href="#L-68"><span class="linenos">  68</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">and</span> <span class="nb">len</span><span class="p">(</span><span class="n">samples</span><span class="p">):</span>
-</span><span id="L-69"><a href="#L-69"><span class="linenos">  69</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">):</span>
-</span><span id="L-70"><a href="#L-70"><span class="linenos">  70</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of samples and names incompatible.&#39;</span><span class="p">)</span>
-</span><span id="L-71"><a href="#L-71"><span class="linenos">  71</span></a>            <span class="k">if</span> <span class="n">idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-72"><a href="#L-72"><span class="linenos">  72</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">):</span>
-</span><span id="L-73"><a href="#L-73"><span class="linenos">  73</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of idl incompatible with samples and names.&#39;</span><span class="p">)</span>
-</span><span id="L-74"><a href="#L-74"><span class="linenos">  74</span></a>            <span class="n">name_length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
-</span><span id="L-75"><a href="#L-75"><span class="linenos">  75</span></a>            <span class="k">if</span> <span class="n">name_length</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-76"><a href="#L-76"><span class="linenos">  76</span></a>                <span class="k">if</span> <span class="n">name_length</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">names</span><span class="p">)):</span>
-</span><span id="L-77"><a href="#L-77"><span class="linenos">  77</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;names are not unique.&#39;</span><span class="p">)</span>
-</span><span id="L-78"><a href="#L-78"><span class="linenos">  78</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="nb">str</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">names</span><span class="p">):</span>
-</span><span id="L-79"><a href="#L-79"><span class="linenos">  79</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;All names have to be strings.&#39;</span><span class="p">)</span>
-</span><span id="L-80"><a href="#L-80"><span class="linenos">  80</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-81"><a href="#L-81"><span class="linenos">  81</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="L-82"><a href="#L-82"><span class="linenos">  82</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;All names have to be strings.&#39;</span><span class="p">)</span>
-</span><span id="L-83"><a href="#L-83"><span class="linenos">  83</span></a>            <span class="k">if</span> <span class="nb">min</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">samples</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mi">4</span><span class="p">:</span>
-</span><span id="L-84"><a href="#L-84"><span class="linenos">  84</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Samples have to have at least 5 entries.&#39;</span><span class="p">)</span>
-</span><span id="L-85"><a href="#L-85"><span class="linenos">  85</span></a>
-</span><span id="L-86"><a href="#L-86"><span class="linenos">  86</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
-</span><span id="L-87"><a href="#L-87"><span class="linenos">  87</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">shape</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-88"><a href="#L-88"><span class="linenos">  88</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-89"><a href="#L-89"><span class="linenos">  89</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-90"><a href="#L-90"><span class="linenos">  90</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-91"><a href="#L-91"><span class="linenos">  91</span></a>
-</span><span id="L-92"><a href="#L-92"><span class="linenos">  92</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-93"><a href="#L-93"><span class="linenos">  93</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-94"><a href="#L-94"><span class="linenos">  94</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-95"><a href="#L-95"><span class="linenos">  95</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-96"><a href="#L-96"><span class="linenos">  96</span></a>        <span class="k">if</span> <span class="n">idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-97"><a href="#L-97"><span class="linenos">  97</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">idx</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="p">)):</span>
-</span><span id="L-98"><a href="#L-98"><span class="linenos">  98</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="L-99"><a href="#L-99"><span class="linenos">  99</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">idx</span>
-</span><span id="L-100"><a href="#L-100"><span class="linenos"> 100</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="p">(</span><span class="nb">list</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)):</span>
-</span><span id="L-101"><a href="#L-101"><span class="linenos"> 101</span></a>                    <span class="n">dc</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">idx</span><span class="p">))</span>
-</span><span id="L-102"><a href="#L-102"><span class="linenos"> 102</span></a>                    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">dc</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">):</span>
-</span><span id="L-103"><a href="#L-103"><span class="linenos"> 103</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsorted idx for idl[</span><span class="si">%s</span><span class="s2">]&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
-</span><span id="L-104"><a href="#L-104"><span class="linenos"> 104</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">dc</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-105"><a href="#L-105"><span class="linenos"> 105</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">idx</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">idx</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-106"><a href="#L-106"><span class="linenos"> 106</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-107"><a href="#L-107"><span class="linenos"> 107</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
-</span><span id="L-108"><a href="#L-108"><span class="linenos"> 108</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-109"><a href="#L-109"><span class="linenos"> 109</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;incompatible type for idl[</span><span class="si">%s</span><span class="s1">].&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
-</span><span id="L-110"><a href="#L-110"><span class="linenos"> 110</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-111"><a href="#L-111"><span class="linenos"> 111</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">)):</span>
-</span><span id="L-112"><a href="#L-112"><span class="linenos"> 112</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-113"><a href="#L-113"><span class="linenos"> 113</span></a>
-</span><span id="L-114"><a href="#L-114"><span class="linenos"> 114</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-115"><a href="#L-115"><span class="linenos"> 115</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span><span class="p">,</span> <span class="n">mean</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">))):</span>
-</span><span id="L-116"><a href="#L-116"><span class="linenos"> 116</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="L-117"><a href="#L-117"><span class="linenos"> 117</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-118"><a href="#L-118"><span class="linenos"> 118</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">mean</span>
-</span><span id="L-119"><a href="#L-119"><span class="linenos"> 119</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">sample</span>
-</span><span id="L-120"><a href="#L-120"><span class="linenos"> 120</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-121"><a href="#L-121"><span class="linenos"> 121</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">)):</span>
-</span><span id="L-122"><a href="#L-122"><span class="linenos"> 122</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="L-123"><a href="#L-123"><span class="linenos"> 123</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-124"><a href="#L-124"><span class="linenos"> 124</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="L-125"><a href="#L-125"><span class="linenos"> 125</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Incompatible samples and idx for </span><span class="si">%s</span><span class="s1">: </span><span class="si">%d</span><span class="s1"> vs. </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
-</span><span id="L-126"><a href="#L-126"><span class="linenos"> 126</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span>
-</span><span id="L-127"><a href="#L-127"><span class="linenos"> 127</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">sample</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-128"><a href="#L-128"><span class="linenos"> 128</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-129"><a href="#L-129"><span class="linenos"> 129</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">/=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span>
-</span><span id="L-130"><a href="#L-130"><span class="linenos"> 130</span></a>
-</span><span id="L-131"><a href="#L-131"><span class="linenos"> 131</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-132"><a href="#L-132"><span class="linenos"> 132</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-133"><a href="#L-133"><span class="linenos"> 133</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-134"><a href="#L-134"><span class="linenos"> 134</span></a>
-</span><span id="L-135"><a href="#L-135"><span class="linenos"> 135</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-136"><a href="#L-136"><span class="linenos"> 136</span></a>
-</span><span id="L-137"><a href="#L-137"><span class="linenos"> 137</span></a>    <span class="nd">@property</span>
-</span><span id="L-138"><a href="#L-138"><span class="linenos"> 138</span></a>    <span class="k">def</span> <span class="nf">value</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-139"><a href="#L-139"><span class="linenos"> 139</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_value</span>
-</span><span id="L-140"><a href="#L-140"><span class="linenos"> 140</span></a>
-</span><span id="L-141"><a href="#L-141"><span class="linenos"> 141</span></a>    <span class="nd">@property</span>
-</span><span id="L-142"><a href="#L-142"><span class="linenos"> 142</span></a>    <span class="k">def</span> <span class="nf">dvalue</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-143"><a href="#L-143"><span class="linenos"> 143</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
-</span><span id="L-144"><a href="#L-144"><span class="linenos"> 144</span></a>
-</span><span id="L-145"><a href="#L-145"><span class="linenos"> 145</span></a>    <span class="nd">@property</span>
-</span><span id="L-146"><a href="#L-146"><span class="linenos"> 146</span></a>    <span class="k">def</span> <span class="nf">e_names</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-147"><a href="#L-147"><span class="linenos"> 147</span></a>        <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">]))</span>
-</span><span id="L-148"><a href="#L-148"><span class="linenos"> 148</span></a>
-</span><span id="L-149"><a href="#L-149"><span class="linenos"> 149</span></a>    <span class="nd">@property</span>
-</span><span id="L-150"><a href="#L-150"><span class="linenos"> 150</span></a>    <span class="k">def</span> <span class="nf">cov_names</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-151"><a href="#L-151"><span class="linenos"> 151</span></a>        <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">()]))</span>
-</span><span id="L-152"><a href="#L-152"><span class="linenos"> 152</span></a>
-</span><span id="L-153"><a href="#L-153"><span class="linenos"> 153</span></a>    <span class="nd">@property</span>
-</span><span id="L-154"><a href="#L-154"><span class="linenos"> 154</span></a>    <span class="k">def</span> <span class="nf">mc_names</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-155"><a href="#L-155"><span class="linenos"> 155</span></a>        <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">not</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">]))</span>
-</span><span id="L-156"><a href="#L-156"><span class="linenos"> 156</span></a>
-</span><span id="L-157"><a href="#L-157"><span class="linenos"> 157</span></a>    <span class="nd">@property</span>
-</span><span id="L-158"><a href="#L-158"><span class="linenos"> 158</span></a>    <span class="k">def</span> <span class="nf">e_content</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-159"><a href="#L-159"><span class="linenos"> 159</span></a>        <span class="n">res</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-160"><a href="#L-160"><span class="linenos"> 160</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
-</span><span id="L-161"><a href="#L-161"><span class="linenos"> 161</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">))</span>
-</span><span id="L-162"><a href="#L-162"><span class="linenos"> 162</span></a>            <span class="k">if</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
-</span><span id="L-163"><a href="#L-163"><span class="linenos"> 163</span></a>                <span class="n">res</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">e_name</span><span class="p">)</span>
-</span><span id="L-164"><a href="#L-164"><span class="linenos"> 164</span></a>        <span class="k">return</span> <span class="n">res</span>
-</span><span id="L-165"><a href="#L-165"><span class="linenos"> 165</span></a>
-</span><span id="L-166"><a href="#L-166"><span class="linenos"> 166</span></a>    <span class="nd">@property</span>
-</span><span id="L-167"><a href="#L-167"><span class="linenos"> 167</span></a>    <span class="k">def</span> <span class="nf">covobs</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-168"><a href="#L-168"><span class="linenos"> 168</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_covobs</span>
-</span><span id="L-169"><a href="#L-169"><span class="linenos"> 169</span></a>
-</span><span id="L-170"><a href="#L-170"><span class="linenos"> 170</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-171"><a href="#L-171"><span class="linenos"> 171</span></a>        <span class="sd">&quot;&quot;&quot;Estimate the error and related properties of the Obs.</span>
-</span><span id="L-172"><a href="#L-172"><span class="linenos"> 172</span></a>
-</span><span id="L-173"><a href="#L-173"><span class="linenos"> 173</span></a><span class="sd">        Parameters</span>
-</span><span id="L-174"><a href="#L-174"><span class="linenos"> 174</span></a><span class="sd">        ----------</span>
-</span><span id="L-175"><a href="#L-175"><span class="linenos"> 175</span></a><span class="sd">        S : float</span>
-</span><span id="L-176"><a href="#L-176"><span class="linenos"> 176</span></a><span class="sd">            specifies a custom value for the parameter S (default 2.0).</span>
-</span><span id="L-177"><a href="#L-177"><span class="linenos"> 177</span></a><span class="sd">            If set to 0 it is assumed that the data exhibits no</span>
-</span><span id="L-178"><a href="#L-178"><span class="linenos"> 178</span></a><span class="sd">            autocorrelation. In this case the error estimates coincides</span>
-</span><span id="L-179"><a href="#L-179"><span class="linenos"> 179</span></a><span class="sd">            with the sample standard error.</span>
-</span><span id="L-180"><a href="#L-180"><span class="linenos"> 180</span></a><span class="sd">        tau_exp : float</span>
-</span><span id="L-181"><a href="#L-181"><span class="linenos"> 181</span></a><span class="sd">            positive value triggers the critical slowing down analysis</span>
-</span><span id="L-182"><a href="#L-182"><span class="linenos"> 182</span></a><span class="sd">            (default 0.0).</span>
-</span><span id="L-183"><a href="#L-183"><span class="linenos"> 183</span></a><span class="sd">        N_sigma : float</span>
-</span><span id="L-184"><a href="#L-184"><span class="linenos"> 184</span></a><span class="sd">            number of standard deviations from zero until the tail is</span>
-</span><span id="L-185"><a href="#L-185"><span class="linenos"> 185</span></a><span class="sd">            attached to the autocorrelation function (default 1).</span>
-</span><span id="L-186"><a href="#L-186"><span class="linenos"> 186</span></a><span class="sd">        fft : bool</span>
-</span><span id="L-187"><a href="#L-187"><span class="linenos"> 187</span></a><span class="sd">            determines whether the fft algorithm is used for the computation</span>
-</span><span id="L-188"><a href="#L-188"><span class="linenos"> 188</span></a><span class="sd">            of the autocorrelation function (default True)</span>
-</span><span id="L-189"><a href="#L-189"><span class="linenos"> 189</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-190"><a href="#L-190"><span class="linenos"> 190</span></a>
-</span><span id="L-191"><a href="#L-191"><span class="linenos"> 191</span></a>        <span class="n">e_content</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_content</span>
-</span><span id="L-192"><a href="#L-192"><span class="linenos"> 192</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-193"><a href="#L-193"><span class="linenos"> 193</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-194"><a href="#L-194"><span class="linenos"> 194</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-195"><a href="#L-195"><span class="linenos"> 195</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-196"><a href="#L-196"><span class="linenos"> 196</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-197"><a href="#L-197"><span class="linenos"> 197</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-198"><a href="#L-198"><span class="linenos"> 198</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-199"><a href="#L-199"><span class="linenos"> 199</span></a>        <span class="n">e_gamma</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-200"><a href="#L-200"><span class="linenos"> 200</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-201"><a href="#L-201"><span class="linenos"> 201</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-202"><a href="#L-202"><span class="linenos"> 202</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-203"><a href="#L-203"><span class="linenos"> 203</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-204"><a href="#L-204"><span class="linenos"> 204</span></a>
-</span><span id="L-205"><a href="#L-205"><span class="linenos"> 205</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">S</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-206"><a href="#L-206"><span class="linenos"> 206</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-207"><a href="#L-207"><span class="linenos"> 207</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-208"><a href="#L-208"><span class="linenos"> 208</span></a>
-</span><span id="L-209"><a href="#L-209"><span class="linenos"> 209</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;fft&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">False</span><span class="p">:</span>
-</span><span id="L-210"><a href="#L-210"><span class="linenos"> 210</span></a>            <span class="n">fft</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="L-211"><a href="#L-211"><span class="linenos"> 211</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-212"><a href="#L-212"><span class="linenos"> 212</span></a>            <span class="n">fft</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="L-213"><a href="#L-213"><span class="linenos"> 213</span></a>
-</span><span id="L-214"><a href="#L-214"><span class="linenos"> 214</span></a>        <span class="k">def</span> <span class="nf">_parse_kwarg</span><span class="p">(</span><span class="n">kwarg_name</span><span class="p">):</span>
-</span><span id="L-215"><a href="#L-215"><span class="linenos"> 215</span></a>            <span class="k">if</span> <span class="n">kwarg_name</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-216"><a href="#L-216"><span class="linenos"> 216</span></a>                <span class="n">tmp</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">kwarg_name</span><span class="p">)</span>
-</span><span id="L-217"><a href="#L-217"><span class="linenos"> 217</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
-</span><span id="L-218"><a href="#L-218"><span class="linenos"> 218</span></a>                    <span class="k">if</span> <span class="n">tmp</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-219"><a href="#L-219"><span class="linenos"> 219</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39; has to be larger or equal to 0.&#39;</span><span class="p">)</span>
-</span><span id="L-220"><a href="#L-220"><span class="linenos"> 220</span></a>                    <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
-</span><span id="L-221"><a href="#L-221"><span class="linenos"> 221</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">tmp</span>
-</span><span id="L-222"><a href="#L-222"><span class="linenos"> 222</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-223"><a href="#L-223"><span class="linenos"> 223</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39; is not in proper format.&#39;</span><span class="p">)</span>
-</span><span id="L-224"><a href="#L-224"><span class="linenos"> 224</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-225"><a href="#L-225"><span class="linenos"> 225</span></a>                <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
-</span><span id="L-226"><a href="#L-226"><span class="linenos"> 226</span></a>                    <span class="k">if</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_dict&#39;</span><span class="p">):</span>
-</span><span id="L-227"><a href="#L-227"><span class="linenos"> 227</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_dict&#39;</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span>
-</span><span id="L-228"><a href="#L-228"><span class="linenos"> 228</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-229"><a href="#L-229"><span class="linenos"> 229</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_global&#39;</span><span class="p">)</span>
-</span><span id="L-230"><a href="#L-230"><span class="linenos"> 230</span></a>
-</span><span id="L-231"><a href="#L-231"><span class="linenos"> 231</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;S&#39;</span><span class="p">)</span>
-</span><span id="L-232"><a href="#L-232"><span class="linenos"> 232</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;tau_exp&#39;</span><span class="p">)</span>
-</span><span id="L-233"><a href="#L-233"><span class="linenos"> 233</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;N_sigma&#39;</span><span class="p">)</span>
-</span><span id="L-234"><a href="#L-234"><span class="linenos"> 234</span></a>
-</span><span id="L-235"><a href="#L-235"><span class="linenos"> 235</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="L-236"><a href="#L-236"><span class="linenos"> 236</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-237"><a href="#L-237"><span class="linenos"> 237</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="L-238"><a href="#L-238"><span class="linenos"> 238</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="L-239"><a href="#L-239"><span class="linenos"> 239</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
-</span><span id="L-240"><a href="#L-240"><span class="linenos"> 240</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-241"><a href="#L-241"><span class="linenos"> 241</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-242"><a href="#L-242"><span class="linenos"> 242</span></a>
-</span><span id="L-243"><a href="#L-243"><span class="linenos"> 243</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]])</span>
-</span><span id="L-244"><a href="#L-244"><span class="linenos"> 244</span></a>            <span class="n">w_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span> <span class="o">//</span> <span class="mi">2</span>
-</span><span id="L-245"><a href="#L-245"><span class="linenos"> 245</span></a>            <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="L-246"><a href="#L-246"><span class="linenos"> 246</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="L-247"><a href="#L-247"><span class="linenos"> 247</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="L-248"><a href="#L-248"><span class="linenos"> 248</span></a>
-</span><span id="L-249"><a href="#L-249"><span class="linenos"> 249</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="L-250"><a href="#L-250"><span class="linenos"> 250</span></a>                <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_calc_gamma</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">)</span>
-</span><span id="L-251"><a href="#L-251"><span class="linenos"> 251</span></a>
-</span><span id="L-252"><a href="#L-252"><span class="linenos"> 252</span></a>            <span class="n">gamma_div</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="L-253"><a href="#L-253"><span class="linenos"> 253</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="L-254"><a href="#L-254"><span class="linenos"> 254</span></a>                <span class="n">gamma_div</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_calc_gamma</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">])),</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">)</span>
-</span><span id="L-255"><a href="#L-255"><span class="linenos"> 255</span></a>            <span class="n">gamma_div</span><span class="p">[</span><span class="n">gamma_div</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.0</span>
-</span><span id="L-256"><a href="#L-256"><span class="linenos"> 256</span></a>            <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">/=</span> <span class="n">gamma_div</span><span class="p">[:</span><span class="n">w_max</span><span class="p">]</span>
-</span><span id="L-257"><a href="#L-257"><span class="linenos"> 257</span></a>
-</span><span id="L-258"><a href="#L-258"><span class="linenos"> 258</span></a>            <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span> <span class="o">&lt;</span> <span class="mi">10</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="nb">float</span><span class="p">)</span><span class="o">.</span><span class="n">tiny</span><span class="p">:</span>  <span class="c1"># Prevent division by zero</span>
-</span><span id="L-259"><a href="#L-259"><span class="linenos"> 259</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span>
-</span><span id="L-260"><a href="#L-260"><span class="linenos"> 260</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-261"><a href="#L-261"><span class="linenos"> 261</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-262"><a href="#L-262"><span class="linenos"> 262</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-263"><a href="#L-263"><span class="linenos"> 263</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-264"><a href="#L-264"><span class="linenos"> 264</span></a>                <span class="k">continue</span>
-</span><span id="L-265"><a href="#L-265"><span class="linenos"> 265</span></a>
-</span><span id="L-266"><a href="#L-266"><span class="linenos"> 266</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="n">w_max</span><span class="p">]</span> <span class="o">/</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-267"><a href="#L-267"><span class="linenos"> 267</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">cumsum</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(([</span><span class="mf">0.5</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:])))</span>
-</span><span id="L-268"><a href="#L-268"><span class="linenos"> 268</span></a>            <span class="c1"># Make sure no entry of tauint is smaller than 0.5</span>
-</span><span id="L-269"><a href="#L-269"><span class="linenos"> 269</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="mf">0.5</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span>
-</span><span id="L-270"><a href="#L-270"><span class="linenos"> 270</span></a>            <span class="c1"># hep-lat/0306017 eq. (42)</span>
-</span><span id="L-271"><a href="#L-271"><span class="linenos"> 271</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span> <span class="o">+</span> <span class="mf">0.5</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="L-272"><a href="#L-272"><span class="linenos"> 272</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-273"><a href="#L-273"><span class="linenos"> 273</span></a>
-</span><span id="L-274"><a href="#L-274"><span class="linenos"> 274</span></a>            <span class="k">def</span> <span class="nf">_compute_drho</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
-</span><span id="L-275"><a href="#L-275"><span class="linenos"> 275</span></a>                <span class="n">tmp</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span><span class="n">w_max</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">::</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:</span><span class="n">w_max</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">i</span><span class="p">]])</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:</span><span class="n">w_max</span> <span class="o">-</span> <span class="n">i</span><span class="p">]</span>
-</span><span id="L-276"><a href="#L-276"><span class="linenos"> 276</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">tmp</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="L-277"><a href="#L-277"><span class="linenos"> 277</span></a>
-</span><span id="L-278"><a href="#L-278"><span class="linenos"> 278</span></a>            <span class="n">_compute_drho</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="L-279"><a href="#L-279"><span class="linenos"> 279</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-280"><a href="#L-280"><span class="linenos"> 280</span></a>                <span class="n">texp</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span>
-</span><span id="L-281"><a href="#L-281"><span class="linenos"> 281</span></a>                <span class="c1"># Critical slowing down analysis</span>
-</span><span id="L-282"><a href="#L-282"><span class="linenos"> 282</span></a>                <span class="k">if</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">&lt;=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-283"><a href="#L-283"><span class="linenos"> 283</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Need at least 8 samples for tau_exp error analysis&quot;</span><span class="p">)</span>
-</span><span id="L-284"><a href="#L-284"><span class="linenos"> 284</span></a>                <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="L-285"><a href="#L-285"><span class="linenos"> 285</span></a>                    <span class="n">_compute_drho</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-286"><a href="#L-286"><span class="linenos"> 286</span></a>                    <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">])</span> <span class="o">&lt;</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="L-287"><a href="#L-287"><span class="linenos"> 287</span></a>                        <span class="c1"># Bias correction hep-lat/0306017 eq. (49) included</span>
-</span><span id="L-288"><a href="#L-288"><span class="linenos"> 288</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">+</span> <span class="n">texp</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span>  <span class="c1"># The absolute makes sure, that the tail contribution is always positive</span>
-</span><span id="L-289"><a href="#L-289"><span class="linenos"> 289</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">texp</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="L-290"><a href="#L-290"><span class="linenos"> 290</span></a>                        <span class="c1"># Error of tau_exp neglected so far, missing term: self.e_rho[e_name][n + 1] ** 2 * d_tau_exp ** 2</span>
-</span><span id="L-291"><a href="#L-291"><span class="linenos"> 291</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="L-292"><a href="#L-292"><span class="linenos"> 292</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">n</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="L-293"><a href="#L-293"><span class="linenos"> 293</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">n</span>
-</span><span id="L-294"><a href="#L-294"><span class="linenos"> 294</span></a>                        <span class="k">break</span>
-</span><span id="L-295"><a href="#L-295"><span class="linenos"> 295</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-296"><a href="#L-296"><span class="linenos"> 296</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="L-297"><a href="#L-297"><span class="linenos"> 297</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span>
-</span><span id="L-298"><a href="#L-298"><span class="linenos"> 298</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-299"><a href="#L-299"><span class="linenos"> 299</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="p">(</span><span class="n">e_N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-300"><a href="#L-300"><span class="linenos"> 300</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="L-301"><a href="#L-301"><span class="linenos"> 301</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-302"><a href="#L-302"><span class="linenos"> 302</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-303"><a href="#L-303"><span class="linenos"> 303</span></a>                    <span class="c1"># Standard automatic windowing procedure</span>
-</span><span id="L-304"><a href="#L-304"><span class="linenos"> 304</span></a>                    <span class="n">tau</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">((</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-305"><a href="#L-305"><span class="linenos"> 305</span></a>                    <span class="n">g_w</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span> <span class="o">/</span> <span class="n">tau</span><span class="p">)</span> <span class="o">-</span> <span class="n">tau</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span> <span class="o">*</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="L-306"><a href="#L-306"><span class="linenos"> 306</span></a>                    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">):</span>
-</span><span id="L-307"><a href="#L-307"><span class="linenos"> 307</span></a>                        <span class="k">if</span> <span class="n">n</span> <span class="o">&lt;</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="L-308"><a href="#L-308"><span class="linenos"> 308</span></a>                            <span class="n">_compute_drho</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-309"><a href="#L-309"><span class="linenos"> 309</span></a>                        <span class="k">if</span> <span class="n">g_w</span><span class="p">[</span><span class="n">n</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">&lt;</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="n">w_max</span> <span class="o">-</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-310"><a href="#L-310"><span class="linenos"> 310</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>  <span class="c1"># Bias correction hep-lat/0306017 eq. (49)</span>
-</span><span id="L-311"><a href="#L-311"><span class="linenos"> 311</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span>
-</span><span id="L-312"><a href="#L-312"><span class="linenos"> 312</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="L-313"><a href="#L-313"><span class="linenos"> 313</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">n</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="L-314"><a href="#L-314"><span class="linenos"> 314</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">n</span>
-</span><span id="L-315"><a href="#L-315"><span class="linenos"> 315</span></a>                            <span class="k">break</span>
-</span><span id="L-316"><a href="#L-316"><span class="linenos"> 316</span></a>
-</span><span id="L-317"><a href="#L-317"><span class="linenos"> 317</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="L-318"><a href="#L-318"><span class="linenos"> 318</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">+=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="L-319"><a href="#L-319"><span class="linenos"> 319</span></a>
-</span><span id="L-320"><a href="#L-320"><span class="linenos"> 320</span></a>        <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="L-321"><a href="#L-321"><span class="linenos"> 321</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">errsq</span><span class="p">())</span>
-</span><span id="L-322"><a href="#L-322"><span class="linenos"> 322</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-323"><a href="#L-323"><span class="linenos"> 323</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">**</span><span class="mi">2</span>
-</span><span id="L-324"><a href="#L-324"><span class="linenos"> 324</span></a>
-</span><span id="L-325"><a href="#L-325"><span class="linenos"> 325</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
-</span><span id="L-326"><a href="#L-326"><span class="linenos"> 326</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="L-327"><a href="#L-327"><span class="linenos"> 327</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-328"><a href="#L-328"><span class="linenos"> 328</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-329"><a href="#L-329"><span class="linenos"> 329</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span><span class="p">)</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
-</span><span id="L-330"><a href="#L-330"><span class="linenos"> 330</span></a>        <span class="k">return</span>
-</span><span id="L-331"><a href="#L-331"><span class="linenos"> 331</span></a>
-</span><span id="L-332"><a href="#L-332"><span class="linenos"> 332</span></a>    <span class="k">def</span> <span class="nf">_calc_gamma</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">shape</span><span class="p">,</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">):</span>
-</span><span id="L-333"><a href="#L-333"><span class="linenos"> 333</span></a>        <span class="sd">&quot;&quot;&quot;Calculate Gamma_{AA} from the deltas, which are defined on idx.</span>
-</span><span id="L-334"><a href="#L-334"><span class="linenos"> 334</span></a><span class="sd">           idx is assumed to be a contiguous range (possibly with a stepsize != 1)</span>
-</span><span id="L-335"><a href="#L-335"><span class="linenos"> 335</span></a>
-</span><span id="L-336"><a href="#L-336"><span class="linenos"> 336</span></a><span class="sd">        Parameters</span>
-</span><span id="L-337"><a href="#L-337"><span class="linenos"> 337</span></a><span class="sd">        ----------</span>
-</span><span id="L-338"><a href="#L-338"><span class="linenos"> 338</span></a><span class="sd">        deltas : list</span>
-</span><span id="L-339"><a href="#L-339"><span class="linenos"> 339</span></a><span class="sd">            List of fluctuations</span>
-</span><span id="L-340"><a href="#L-340"><span class="linenos"> 340</span></a><span class="sd">        idx : list</span>
-</span><span id="L-341"><a href="#L-341"><span class="linenos"> 341</span></a><span class="sd">            List or range of configurations on which the deltas are defined.</span>
-</span><span id="L-342"><a href="#L-342"><span class="linenos"> 342</span></a><span class="sd">        shape : int</span>
-</span><span id="L-343"><a href="#L-343"><span class="linenos"> 343</span></a><span class="sd">            Number of configurations in idx.</span>
-</span><span id="L-344"><a href="#L-344"><span class="linenos"> 344</span></a><span class="sd">        w_max : int</span>
-</span><span id="L-345"><a href="#L-345"><span class="linenos"> 345</span></a><span class="sd">            Upper bound for the summation window.</span>
-</span><span id="L-346"><a href="#L-346"><span class="linenos"> 346</span></a><span class="sd">        fft : bool</span>
-</span><span id="L-347"><a href="#L-347"><span class="linenos"> 347</span></a><span class="sd">            determines whether the fft algorithm is used for the computation</span>
-</span><span id="L-348"><a href="#L-348"><span class="linenos"> 348</span></a><span class="sd">            of the autocorrelation function.</span>
-</span><span id="L-349"><a href="#L-349"><span class="linenos"> 349</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-350"><a href="#L-350"><span class="linenos"> 350</span></a>        <span class="n">gamma</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="L-351"><a href="#L-351"><span class="linenos"> 351</span></a>        <span class="n">deltas</span> <span class="o">=</span> <span class="n">_expand_deltas</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">shape</span><span class="p">)</span>
-</span><span id="L-352"><a href="#L-352"><span class="linenos"> 352</span></a>        <span class="n">new_shape</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span>
-</span><span id="L-353"><a href="#L-353"><span class="linenos"> 353</span></a>        <span class="k">if</span> <span class="n">fft</span><span class="p">:</span>
-</span><span id="L-354"><a href="#L-354"><span class="linenos"> 354</span></a>            <span class="n">max_gamma</span> <span class="o">=</span> <span class="nb">min</span><span class="p">(</span><span class="n">new_shape</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span>
-</span><span id="L-355"><a href="#L-355"><span class="linenos"> 355</span></a>            <span class="c1"># The padding for the fft has to be even</span>
-</span><span id="L-356"><a href="#L-356"><span class="linenos"> 356</span></a>            <span class="n">padding</span> <span class="o">=</span> <span class="n">new_shape</span> <span class="o">+</span> <span class="n">max_gamma</span> <span class="o">+</span> <span class="p">(</span><span class="n">new_shape</span> <span class="o">+</span> <span class="n">max_gamma</span><span class="p">)</span> <span class="o">%</span> <span class="mi">2</span>
-</span><span id="L-357"><a href="#L-357"><span class="linenos"> 357</span></a>            <span class="n">gamma</span><span class="p">[:</span><span class="n">max_gamma</span><span class="p">]</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">fft</span><span class="o">.</span><span class="n">irfft</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">fft</span><span class="o">.</span><span class="n">rfft</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">padding</span><span class="p">))</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)[:</span><span class="n">max_gamma</span><span class="p">]</span>
-</span><span id="L-358"><a href="#L-358"><span class="linenos"> 358</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-359"><a href="#L-359"><span class="linenos"> 359</span></a>            <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">w_max</span><span class="p">):</span>
-</span><span id="L-360"><a href="#L-360"><span class="linenos"> 360</span></a>                <span class="k">if</span> <span class="n">new_shape</span> <span class="o">-</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-361"><a href="#L-361"><span class="linenos"> 361</span></a>                    <span class="n">gamma</span><span class="p">[</span><span class="n">n</span><span class="p">]</span> <span class="o">+=</span> <span class="n">deltas</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span><span class="n">new_shape</span> <span class="o">-</span> <span class="n">n</span><span class="p">]</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">n</span><span class="p">:</span><span class="n">new_shape</span><span class="p">])</span>
-</span><span id="L-362"><a href="#L-362"><span class="linenos"> 362</span></a>
-</span><span id="L-363"><a href="#L-363"><span class="linenos"> 363</span></a>        <span class="k">return</span> <span class="n">gamma</span>
-</span><span id="L-364"><a href="#L-364"><span class="linenos"> 364</span></a>
-</span><span id="L-365"><a href="#L-365"><span class="linenos"> 365</span></a>    <span class="k">def</span> <span class="nf">details</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">ens_content</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="L-366"><a href="#L-366"><span class="linenos"> 366</span></a>        <span class="sd">&quot;&quot;&quot;Output detailed properties of the Obs.</span>
-</span><span id="L-367"><a href="#L-367"><span class="linenos"> 367</span></a>
-</span><span id="L-368"><a href="#L-368"><span class="linenos"> 368</span></a><span class="sd">        Parameters</span>
-</span><span id="L-369"><a href="#L-369"><span class="linenos"> 369</span></a><span class="sd">        ----------</span>
-</span><span id="L-370"><a href="#L-370"><span class="linenos"> 370</span></a><span class="sd">        ens_content : bool</span>
-</span><span id="L-371"><a href="#L-371"><span class="linenos"> 371</span></a><span class="sd">            print details about the ensembles and replica if true.</span>
-</span><span id="L-372"><a href="#L-372"><span class="linenos"> 372</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-373"><a href="#L-373"><span class="linenos"> 373</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-374"><a href="#L-374"><span class="linenos"> 374</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Description:&quot;</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
-</span><span id="L-375"><a href="#L-375"><span class="linenos"> 375</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="L-376"><a href="#L-376"><span class="linenos"> 376</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Result</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">))</span>
-</span><span id="L-377"><a href="#L-377"><span class="linenos"> 377</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-378"><a href="#L-378"><span class="linenos"> 378</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="L-379"><a href="#L-379"><span class="linenos"> 379</span></a>                <span class="n">percentage</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">nan</span>
-</span><span id="L-380"><a href="#L-380"><span class="linenos"> 380</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-381"><a href="#L-381"><span class="linenos"> 381</span></a>                <span class="n">percentage</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">*</span> <span class="mi">100</span>
-</span><span id="L-382"><a href="#L-382"><span class="linenos"> 382</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Result</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> (</span><span class="si">%3.3f%%</span><span class="s1">)&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span><span class="p">,</span> <span class="n">percentage</span><span class="p">))</span>
-</span><span id="L-383"><a href="#L-383"><span class="linenos"> 383</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-384"><a href="#L-384"><span class="linenos"> 384</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; Ensemble errors:&#39;</span><span class="p">)</span>
-</span><span id="L-385"><a href="#L-385"><span class="linenos"> 385</span></a>            <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
-</span><span id="L-386"><a href="#L-386"><span class="linenos"> 386</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-387"><a href="#L-387"><span class="linenos"> 387</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="L-388"><a href="#L-388"><span class="linenos"> 388</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-389"><a href="#L-389"><span class="linenos"> 389</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; t_int</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> tau_exp = </span><span class="si">%3.2f</span><span class="s1">,  N_sigma = </span><span class="si">%1.0i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="L-390"><a href="#L-390"><span class="linenos"> 390</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-391"><a href="#L-391"><span class="linenos"> 391</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; t_int</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> S = </span><span class="si">%3.2f</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="L-392"><a href="#L-392"><span class="linenos"> 392</span></a>            <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="L-393"><a href="#L-393"><span class="linenos"> 393</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="L-394"><a href="#L-394"><span class="linenos"> 394</span></a>        <span class="k">if</span> <span class="n">ens_content</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-395"><a href="#L-395"><span class="linenos"> 395</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-396"><a href="#L-396"><span class="linenos"> 396</span></a>                <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="s1">&#39;samples in&#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">),</span> <span class="s1">&#39;ensemble:&#39;</span><span class="p">)</span>
-</span><span id="L-397"><a href="#L-397"><span class="linenos"> 397</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-398"><a href="#L-398"><span class="linenos"> 398</span></a>                <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="s1">&#39;samples in&#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">),</span> <span class="s1">&#39;ensembles:&#39;</span><span class="p">)</span>
-</span><span id="L-399"><a href="#L-399"><span class="linenos"> 399</span></a>            <span class="n">my_string_list</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-400"><a href="#L-400"><span class="linenos"> 400</span></a>            <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">items</span><span class="p">()):</span>
-</span><span id="L-401"><a href="#L-401"><span class="linenos"> 401</span></a>                <span class="k">if</span> <span class="n">key</span> <span class="ow">not</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="p">:</span>
-</span><span id="L-402"><a href="#L-402"><span class="linenos"> 402</span></a>                    <span class="n">my_string</span> <span class="o">=</span> <span class="s1">&#39;  &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Ensemble &#39;&quot;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
-</span><span id="L-403"><a href="#L-403"><span class="linenos"> 403</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">value</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-404"><a href="#L-404"><span class="linenos"> 404</span></a>                        <span class="n">my_string</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39;: </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="si">}</span><span class="s1"> configurations&#39;</span>
-</span><span id="L-405"><a href="#L-405"><span class="linenos"> 405</span></a>                        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]],</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="L-406"><a href="#L-406"><span class="linenos"> 406</span></a>                            <span class="n">my_string</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39; (from </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">start</span><span class="si">}</span><span class="s1"> to </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="sa">f</span><span class="s1">&#39; in steps of </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">step</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;)&#39;</span>
-</span><span id="L-407"><a href="#L-407"><span class="linenos"> 407</span></a>                        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-408"><a href="#L-408"><span class="linenos"> 408</span></a>                            <span class="n">my_string</span> <span class="o">+=</span> <span class="s1">&#39; (irregular range)&#39;</span>
-</span><span id="L-409"><a href="#L-409"><span class="linenos"> 409</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-410"><a href="#L-410"><span class="linenos"> 410</span></a>                        <span class="n">sublist</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-411"><a href="#L-411"><span class="linenos"> 411</span></a>                        <span class="k">for</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">value</span><span class="p">:</span>
-</span><span id="L-412"><a href="#L-412"><span class="linenos"> 412</span></a>                            <span class="n">my_substring</span> <span class="o">=</span> <span class="s1">&#39;    &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Replicum &#39;&quot;</span> <span class="o">+</span> <span class="n">v</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">key</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
-</span><span id="L-413"><a href="#L-413"><span class="linenos"> 413</span></a>                            <span class="n">my_substring</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39;: </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="si">}</span><span class="s1"> configurations&#39;</span>
-</span><span id="L-414"><a href="#L-414"><span class="linenos"> 414</span></a>                            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">],</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="L-415"><a href="#L-415"><span class="linenos"> 415</span></a>                                <span class="n">my_substring</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39; (from </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">start</span><span class="si">}</span><span class="s1"> to </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="sa">f</span><span class="s1">&#39; in steps of </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">step</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;)&#39;</span>
-</span><span id="L-416"><a href="#L-416"><span class="linenos"> 416</span></a>                            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-417"><a href="#L-417"><span class="linenos"> 417</span></a>                                <span class="n">my_substring</span> <span class="o">+=</span> <span class="s1">&#39; (irregular range)&#39;</span>
-</span><span id="L-418"><a href="#L-418"><span class="linenos"> 418</span></a>                            <span class="n">sublist</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">my_substring</span><span class="p">)</span>
-</span><span id="L-419"><a href="#L-419"><span class="linenos"> 419</span></a>
-</span><span id="L-420"><a href="#L-420"><span class="linenos"> 420</span></a>                        <span class="n">my_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sublist</span><span class="p">)</span>
-</span><span id="L-421"><a href="#L-421"><span class="linenos"> 421</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-422"><a href="#L-422"><span class="linenos"> 422</span></a>                    <span class="n">my_string</span> <span class="o">=</span> <span class="s1">&#39;  &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Covobs   &#39;&quot;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
-</span><span id="L-423"><a href="#L-423"><span class="linenos"> 423</span></a>                <span class="n">my_string_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">my_string</span><span class="p">)</span>
-</span><span id="L-424"><a href="#L-424"><span class="linenos"> 424</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">my_string_list</span><span class="p">))</span>
-</span><span id="L-425"><a href="#L-425"><span class="linenos"> 425</span></a>
-</span><span id="L-426"><a href="#L-426"><span class="linenos"> 426</span></a>    <span class="k">def</span> <span class="nf">is_zero_within_error</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">sigma</span><span class="o">=</span><span class="mi">1</span><span class="p">):</span>
-</span><span id="L-427"><a href="#L-427"><span class="linenos"> 427</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether the observable is zero within &#39;sigma&#39; standard errors.</span>
-</span><span id="L-428"><a href="#L-428"><span class="linenos"> 428</span></a>
-</span><span id="L-429"><a href="#L-429"><span class="linenos"> 429</span></a><span class="sd">        Parameters</span>
-</span><span id="L-430"><a href="#L-430"><span class="linenos"> 430</span></a><span class="sd">        ----------</span>
-</span><span id="L-431"><a href="#L-431"><span class="linenos"> 431</span></a><span class="sd">        sigma : int</span>
-</span><span id="L-432"><a href="#L-432"><span class="linenos"> 432</span></a><span class="sd">            Number of standard errors used for the check.</span>
-</span><span id="L-433"><a href="#L-433"><span class="linenos"> 433</span></a>
-</span><span id="L-434"><a href="#L-434"><span class="linenos"> 434</span></a><span class="sd">        Works only properly when the gamma method was run.</span>
-</span><span id="L-435"><a href="#L-435"><span class="linenos"> 435</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-436"><a href="#L-436"><span class="linenos"> 436</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span> <span class="ow">or</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="n">sigma</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
-</span><span id="L-437"><a href="#L-437"><span class="linenos"> 437</span></a>
-</span><span id="L-438"><a href="#L-438"><span class="linenos"> 438</span></a>    <span class="k">def</span> <span class="nf">is_zero</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">atol</span><span class="o">=</span><span class="mf">1e-10</span><span class="p">):</span>
-</span><span id="L-439"><a href="#L-439"><span class="linenos"> 439</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether the observable is zero within a given tolerance.</span>
-</span><span id="L-440"><a href="#L-440"><span class="linenos"> 440</span></a>
-</span><span id="L-441"><a href="#L-441"><span class="linenos"> 441</span></a><span class="sd">        Parameters</span>
-</span><span id="L-442"><a href="#L-442"><span class="linenos"> 442</span></a><span class="sd">        ----------</span>
-</span><span id="L-443"><a href="#L-443"><span class="linenos"> 443</span></a><span class="sd">        atol : float</span>
-</span><span id="L-444"><a href="#L-444"><span class="linenos"> 444</span></a><span class="sd">            Absolute tolerance (for details see numpy documentation).</span>
-</span><span id="L-445"><a href="#L-445"><span class="linenos"> 445</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-446"><a href="#L-446"><span class="linenos"> 446</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">delta</span><span class="p">,</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="k">for</span> <span class="n">delta</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">values</span><span class="p">())</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">delta</span><span class="o">.</span><span class="n">errsq</span><span class="p">(),</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="k">for</span> <span class="n">delta</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">values</span><span class="p">())</span>
-</span><span id="L-447"><a href="#L-447"><span class="linenos"> 447</span></a>
-</span><span id="L-448"><a href="#L-448"><span class="linenos"> 448</span></a>    <span class="k">def</span> <span class="nf">plot_tauint</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-449"><a href="#L-449"><span class="linenos"> 449</span></a>        <span class="sd">&quot;&quot;&quot;Plot integrated autocorrelation time for each ensemble.</span>
-</span><span id="L-450"><a href="#L-450"><span class="linenos"> 450</span></a>
-</span><span id="L-451"><a href="#L-451"><span class="linenos"> 451</span></a><span class="sd">        Parameters</span>
-</span><span id="L-452"><a href="#L-452"><span class="linenos"> 452</span></a><span class="sd">        ----------</span>
-</span><span id="L-453"><a href="#L-453"><span class="linenos"> 453</span></a><span class="sd">        save : str</span>
-</span><span id="L-454"><a href="#L-454"><span class="linenos"> 454</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
-</span><span id="L-455"><a href="#L-455"><span class="linenos"> 455</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-456"><a href="#L-456"><span class="linenos"> 456</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="L-457"><a href="#L-457"><span class="linenos"> 457</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="L-458"><a href="#L-458"><span class="linenos"> 458</span></a>
-</span><span id="L-459"><a href="#L-459"><span class="linenos"> 459</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="L-460"><a href="#L-460"><span class="linenos"> 460</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="L-461"><a href="#L-461"><span class="linenos"> 461</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$W$&#39;</span><span class="p">)</span>
-</span><span id="L-462"><a href="#L-462"><span class="linenos"> 462</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$\tau_\mathrm</span><span class="si">{int}</span><span class="s1">$&#39;</span><span class="p">)</span>
-</span><span id="L-463"><a href="#L-463"><span class="linenos"> 463</span></a>            <span class="n">length</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="L-464"><a href="#L-464"><span class="linenos"> 464</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-465"><a href="#L-465"><span class="linenos"> 465</span></a>                <span class="n">base</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]]</span>
-</span><span id="L-466"><a href="#L-466"><span class="linenos"> 466</span></a>                <span class="n">x_help</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span>
-</span><span id="L-467"><a href="#L-467"><span class="linenos"> 467</span></a>                <span class="n">y_help</span> <span class="o">=</span> <span class="p">(</span><span class="n">x_help</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">x_help</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)))</span> <span class="o">+</span> <span class="n">base</span>
-</span><span id="L-468"><a href="#L-468"><span class="linenos"> 468</span></a>                <span class="n">x_arr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span>
-</span><span id="L-469"><a href="#L-469"><span class="linenos"> 469</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_arr</span><span class="p">,</span> <span class="n">y_help</span><span class="p">,</span> <span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="L-470"><a href="#L-470"><span class="linenos"> 470</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span>
-</span><span id="L-471"><a href="#L-471"><span class="linenos"> 471</span></a>                             <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">,</span> <span class="n">mfc</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;axes.facecolor&#39;</span><span class="p">])</span>
-</span><span id="L-472"><a href="#L-472"><span class="linenos"> 472</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mf">1.5</span>
-</span><span id="L-473"><a href="#L-473"><span class="linenos"> 473</span></a>                <span class="n">label</span> <span class="o">=</span> <span class="n">e_name</span> <span class="o">+</span> <span class="sa">r</span><span class="s1">&#39;, $\tau_\mathrm</span><span class="si">{exp}</span><span class="s1">$=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">))</span>
-</span><span id="L-474"><a href="#L-474"><span class="linenos"> 474</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-475"><a href="#L-475"><span class="linenos"> 475</span></a>                <span class="n">label</span> <span class="o">=</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;, S=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">))</span>
-</span><span id="L-476"><a href="#L-476"><span class="linenos"> 476</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="mf">10.5</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
-</span><span id="L-477"><a href="#L-477"><span class="linenos"> 477</span></a>
-</span><span id="L-478"><a href="#L-478"><span class="linenos"> 478</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">length</span><span class="p">)[:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="n">label</span><span class="p">)</span>
-</span><span id="L-479"><a href="#L-479"><span class="linenos"> 479</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">)</span>
-</span><span id="L-480"><a href="#L-480"><span class="linenos"> 480</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
-</span><span id="L-481"><a href="#L-481"><span class="linenos"> 481</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">)</span>
-</span><span id="L-482"><a href="#L-482"><span class="linenos"> 482</span></a>            <span class="n">ylim</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">()</span>
-</span><span id="L-483"><a href="#L-483"><span class="linenos"> 483</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">(</span><span class="n">bottom</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="nb">max</span><span class="p">(</span><span class="mf">1.0</span><span class="p">,</span> <span class="n">ylim</span><span class="p">[</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-484"><a href="#L-484"><span class="linenos"> 484</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="L-485"><a href="#L-485"><span class="linenos"> 485</span></a>            <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
-</span><span id="L-486"><a href="#L-486"><span class="linenos"> 486</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span> <span class="o">+</span> <span class="s2">&quot;_&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
-</span><span id="L-487"><a href="#L-487"><span class="linenos"> 487</span></a>
-</span><span id="L-488"><a href="#L-488"><span class="linenos"> 488</span></a>    <span class="k">def</span> <span class="nf">plot_rho</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-489"><a href="#L-489"><span class="linenos"> 489</span></a>        <span class="sd">&quot;&quot;&quot;Plot normalized autocorrelation function time for each ensemble.</span>
-</span><span id="L-490"><a href="#L-490"><span class="linenos"> 490</span></a>
-</span><span id="L-491"><a href="#L-491"><span class="linenos"> 491</span></a><span class="sd">        Parameters</span>
-</span><span id="L-492"><a href="#L-492"><span class="linenos"> 492</span></a><span class="sd">        ----------</span>
-</span><span id="L-493"><a href="#L-493"><span class="linenos"> 493</span></a><span class="sd">        save : str</span>
-</span><span id="L-494"><a href="#L-494"><span class="linenos"> 494</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
-</span><span id="L-495"><a href="#L-495"><span class="linenos"> 495</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-496"><a href="#L-496"><span class="linenos"> 496</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="L-497"><a href="#L-497"><span class="linenos"> 497</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="L-498"><a href="#L-498"><span class="linenos"> 498</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="L-499"><a href="#L-499"><span class="linenos"> 499</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="L-500"><a href="#L-500"><span class="linenos"> 500</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;W&#39;</span><span class="p">)</span>
-</span><span id="L-501"><a href="#L-501"><span class="linenos"> 501</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;rho&#39;</span><span class="p">)</span>
-</span><span id="L-502"><a href="#L-502"><span class="linenos"> 502</span></a>            <span class="n">length</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="L-503"><a href="#L-503"><span class="linenos"> 503</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">length</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="n">length</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:],</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
-</span><span id="L-504"><a href="#L-504"><span class="linenos"> 504</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.25</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="L-505"><a href="#L-505"><span class="linenos"> 505</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-506"><a href="#L-506"><span class="linenos"> 506</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span>
-</span><span id="L-507"><a href="#L-507"><span class="linenos"> 507</span></a>                         <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="mi">0</span><span class="p">],</span> <span class="s1">&#39;k-&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="L-508"><a href="#L-508"><span class="linenos"> 508</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mf">1.5</span>
-</span><span id="L-509"><a href="#L-509"><span class="linenos"> 509</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Rho &#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="sa">r</span><span class="s1">&#39;, tau\_exp=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">)))</span>
-</span><span id="L-510"><a href="#L-510"><span class="linenos"> 510</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-511"><a href="#L-511"><span class="linenos"> 511</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="mf">10.5</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
-</span><span id="L-512"><a href="#L-512"><span class="linenos"> 512</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Rho &#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;, S=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">)))</span>
-</span><span id="L-513"><a href="#L-513"><span class="linenos"> 513</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">([</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="s1">&#39;k--&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="L-514"><a href="#L-514"><span class="linenos"> 514</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">)</span>
-</span><span id="L-515"><a href="#L-515"><span class="linenos"> 515</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="L-516"><a href="#L-516"><span class="linenos"> 516</span></a>            <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
-</span><span id="L-517"><a href="#L-517"><span class="linenos"> 517</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span> <span class="o">+</span> <span class="s2">&quot;_&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
-</span><span id="L-518"><a href="#L-518"><span class="linenos"> 518</span></a>
-</span><span id="L-519"><a href="#L-519"><span class="linenos"> 519</span></a>    <span class="k">def</span> <span class="nf">plot_rep_dist</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-520"><a href="#L-520"><span class="linenos"> 520</span></a>        <span class="sd">&quot;&quot;&quot;Plot replica distribution for each ensemble with more than one replicum.&quot;&quot;&quot;</span>
-</span><span id="L-521"><a href="#L-521"><span class="linenos"> 521</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="L-522"><a href="#L-522"><span class="linenos"> 522</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="L-523"><a href="#L-523"><span class="linenos"> 523</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="L-524"><a href="#L-524"><span class="linenos"> 524</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-525"><a href="#L-525"><span class="linenos"> 525</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;No replica distribution for a single replicum (&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;)&#39;</span><span class="p">)</span>
-</span><span id="L-526"><a href="#L-526"><span class="linenos"> 526</span></a>                <span class="k">continue</span>
-</span><span id="L-527"><a href="#L-527"><span class="linenos"> 527</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-528"><a href="#L-528"><span class="linenos"> 528</span></a>            <span class="n">sub_r_mean</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-529"><a href="#L-529"><span class="linenos"> 529</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
-</span><span id="L-530"><a href="#L-530"><span class="linenos"> 530</span></a>                <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
-</span><span id="L-531"><a href="#L-531"><span class="linenos"> 531</span></a>                <span class="n">sub_r_mean</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span>
-</span><span id="L-532"><a href="#L-532"><span class="linenos"> 532</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span>
-</span><span id="L-533"><a href="#L-533"><span class="linenos"> 533</span></a>            <span class="n">sub_r_mean</span> <span class="o">/=</span> <span class="n">e_N</span>
-</span><span id="L-534"><a href="#L-534"><span class="linenos"> 534</span></a>            <span class="n">arr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="L-535"><a href="#L-535"><span class="linenos"> 535</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
-</span><span id="L-536"><a href="#L-536"><span class="linenos"> 536</span></a>                <span class="n">arr</span><span class="p">[</span><span class="n">r</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">-</span> <span class="n">sub_r_mean</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">e_N</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-537"><a href="#L-537"><span class="linenos"> 537</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">hist</span><span class="p">(</span><span class="n">arr</span><span class="p">,</span> <span class="n">rwidth</span><span class="o">=</span><span class="mf">0.8</span><span class="p">,</span> <span class="n">bins</span><span class="o">=</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="L-538"><a href="#L-538"><span class="linenos"> 538</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Replica distribution&#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39; (mean=0, var=1)&#39;</span><span class="p">)</span>
-</span><span id="L-539"><a href="#L-539"><span class="linenos"> 539</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="L-540"><a href="#L-540"><span class="linenos"> 540</span></a>
-</span><span id="L-541"><a href="#L-541"><span class="linenos"> 541</span></a>    <span class="k">def</span> <span class="nf">plot_history</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">expand</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="L-542"><a href="#L-542"><span class="linenos"> 542</span></a>        <span class="sd">&quot;&quot;&quot;Plot derived Monte Carlo history for each ensemble</span>
-</span><span id="L-543"><a href="#L-543"><span class="linenos"> 543</span></a>
-</span><span id="L-544"><a href="#L-544"><span class="linenos"> 544</span></a><span class="sd">        Parameters</span>
-</span><span id="L-545"><a href="#L-545"><span class="linenos"> 545</span></a><span class="sd">        ----------</span>
-</span><span id="L-546"><a href="#L-546"><span class="linenos"> 546</span></a><span class="sd">        expand : bool</span>
-</span><span id="L-547"><a href="#L-547"><span class="linenos"> 547</span></a><span class="sd">            show expanded history for irregular Monte Carlo chains (default: True).</span>
-</span><span id="L-548"><a href="#L-548"><span class="linenos"> 548</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-549"><a href="#L-549"><span class="linenos"> 549</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="L-550"><a href="#L-550"><span class="linenos"> 550</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="L-551"><a href="#L-551"><span class="linenos"> 551</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-552"><a href="#L-552"><span class="linenos"> 552</span></a>            <span class="n">tmp</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-553"><a href="#L-553"><span class="linenos"> 553</span></a>            <span class="n">tmp_expanded</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-554"><a href="#L-554"><span class="linenos"> 554</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
-</span><span id="L-555"><a href="#L-555"><span class="linenos"> 555</span></a>                <span class="n">tmp</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
-</span><span id="L-556"><a href="#L-556"><span class="linenos"> 556</span></a>                <span class="k">if</span> <span class="n">expand</span><span class="p">:</span>
-</span><span id="L-557"><a href="#L-557"><span class="linenos"> 557</span></a>                    <span class="n">tmp_expanded</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_expand_deltas</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]),</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
-</span><span id="L-558"><a href="#L-558"><span class="linenos"> 558</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp_expanded</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-559"><a href="#L-559"><span class="linenos"> 559</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-560"><a href="#L-560"><span class="linenos"> 560</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="L-561"><a href="#L-561"><span class="linenos"> 561</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span>
-</span><span id="L-562"><a href="#L-562"><span class="linenos"> 562</span></a>            <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">e_N</span><span class="p">)</span>
-</span><span id="L-563"><a href="#L-563"><span class="linenos"> 563</span></a>            <span class="n">y_test</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="L-564"><a href="#L-564"><span class="linenos"> 564</span></a>            <span class="k">if</span> <span class="n">expand</span><span class="p">:</span>
-</span><span id="L-565"><a href="#L-565"><span class="linenos"> 565</span></a>                <span class="n">y</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">tmp_expanded</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="L-566"><a href="#L-566"><span class="linenos"> 566</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-567"><a href="#L-567"><span class="linenos"> 567</span></a>                <span class="n">y</span> <span class="o">=</span> <span class="n">y_test</span>
-</span><span id="L-568"><a href="#L-568"><span class="linenos"> 568</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;.&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">3</span><span class="p">)</span>
-</span><span id="L-569"><a href="#L-569"><span class="linenos"> 569</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">e_N</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
-</span><span id="L-570"><a href="#L-570"><span class="linenos"> 570</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">e_name</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">skew: </span><span class="si">{</span><span class="n">skew</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1"> (p=</span><span class="si">{</span><span class="n">skewtest</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="o">.</span><span class="n">pvalue</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1">), kurtosis: </span><span class="si">{</span><span class="n">kurtosis</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1"> (p=</span><span class="si">{</span><span class="n">kurtosistest</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="o">.</span><span class="n">pvalue</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1">)&#39;</span><span class="p">)</span>
-</span><span id="L-571"><a href="#L-571"><span class="linenos"> 571</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="L-572"><a href="#L-572"><span class="linenos"> 572</span></a>
-</span><span id="L-573"><a href="#L-573"><span class="linenos"> 573</span></a>    <span class="k">def</span> <span class="nf">plot_piechart</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-574"><a href="#L-574"><span class="linenos"> 574</span></a>        <span class="sd">&quot;&quot;&quot;Plot piechart which shows the fractional contribution of each</span>
-</span><span id="L-575"><a href="#L-575"><span class="linenos"> 575</span></a><span class="sd">        ensemble to the error and returns a dictionary containing the fractions.</span>
-</span><span id="L-576"><a href="#L-576"><span class="linenos"> 576</span></a>
-</span><span id="L-577"><a href="#L-577"><span class="linenos"> 577</span></a><span class="sd">        Parameters</span>
-</span><span id="L-578"><a href="#L-578"><span class="linenos"> 578</span></a><span class="sd">        ----------</span>
-</span><span id="L-579"><a href="#L-579"><span class="linenos"> 579</span></a><span class="sd">        save : str</span>
-</span><span id="L-580"><a href="#L-580"><span class="linenos"> 580</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
-</span><span id="L-581"><a href="#L-581"><span class="linenos"> 581</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-582"><a href="#L-582"><span class="linenos"> 582</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="L-583"><a href="#L-583"><span class="linenos"> 583</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="L-584"><a href="#L-584"><span class="linenos"> 584</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">,</span> <span class="n">atol</span><span class="o">=</span><span class="mf">1e-15</span><span class="p">):</span>
-</span><span id="L-585"><a href="#L-585"><span class="linenos"> 585</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error is 0.0&#39;</span><span class="p">)</span>
-</span><span id="L-586"><a href="#L-586"><span class="linenos"> 586</span></a>        <span class="n">labels</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_names</span>
-</span><span id="L-587"><a href="#L-587"><span class="linenos"> 587</span></a>        <span class="n">sizes</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">labels</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="L-588"><a href="#L-588"><span class="linenos"> 588</span></a>        <span class="n">fig1</span><span class="p">,</span> <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplots</span><span class="p">()</span>
-</span><span id="L-589"><a href="#L-589"><span class="linenos"> 589</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">pie</span><span class="p">(</span><span class="n">sizes</span><span class="p">,</span> <span class="n">labels</span><span class="o">=</span><span class="n">labels</span><span class="p">,</span> <span class="n">startangle</span><span class="o">=</span><span class="mi">90</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="L-590"><a href="#L-590"><span class="linenos"> 590</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">axis</span><span class="p">(</span><span class="s1">&#39;equal&#39;</span><span class="p">)</span>
-</span><span id="L-591"><a href="#L-591"><span class="linenos"> 591</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="L-592"><a href="#L-592"><span class="linenos"> 592</span></a>        <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
-</span><span id="L-593"><a href="#L-593"><span class="linenos"> 593</span></a>            <span class="n">fig1</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span><span class="p">)</span>
-</span><span id="L-594"><a href="#L-594"><span class="linenos"> 594</span></a>
-</span><span id="L-595"><a href="#L-595"><span class="linenos"> 595</span></a>        <span class="k">return</span> <span class="nb">dict</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">,</span> <span class="n">sizes</span><span class="p">))</span>
-</span><span id="L-596"><a href="#L-596"><span class="linenos"> 596</span></a>
-</span><span id="L-597"><a href="#L-597"><span class="linenos"> 597</span></a>    <span class="k">def</span> <span class="nf">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="n">datatype</span><span class="o">=</span><span class="s2">&quot;json.gz&quot;</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s2">&quot;&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-598"><a href="#L-598"><span class="linenos"> 598</span></a>        <span class="sd">&quot;&quot;&quot;Dump the Obs to a file &#39;name&#39; of chosen format.</span>
-</span><span id="L-599"><a href="#L-599"><span class="linenos"> 599</span></a>
-</span><span id="L-600"><a href="#L-600"><span class="linenos"> 600</span></a><span class="sd">        Parameters</span>
-</span><span id="L-601"><a href="#L-601"><span class="linenos"> 601</span></a><span class="sd">        ----------</span>
-</span><span id="L-602"><a href="#L-602"><span class="linenos"> 602</span></a><span class="sd">        filename : str</span>
-</span><span id="L-603"><a href="#L-603"><span class="linenos"> 603</span></a><span class="sd">            name of the file to be saved.</span>
-</span><span id="L-604"><a href="#L-604"><span class="linenos"> 604</span></a><span class="sd">        datatype : str</span>
-</span><span id="L-605"><a href="#L-605"><span class="linenos"> 605</span></a><span class="sd">            Format of the exported file. Supported formats include</span>
-</span><span id="L-606"><a href="#L-606"><span class="linenos"> 606</span></a><span class="sd">            &quot;json.gz&quot; and &quot;pickle&quot;</span>
-</span><span id="L-607"><a href="#L-607"><span class="linenos"> 607</span></a><span class="sd">        description : str</span>
-</span><span id="L-608"><a href="#L-608"><span class="linenos"> 608</span></a><span class="sd">            Description for output file, only relevant for json.gz format.</span>
-</span><span id="L-609"><a href="#L-609"><span class="linenos"> 609</span></a><span class="sd">        path : str</span>
-</span><span id="L-610"><a href="#L-610"><span class="linenos"> 610</span></a><span class="sd">            specifies a custom path for the file (default &#39;.&#39;)</span>
-</span><span id="L-611"><a href="#L-611"><span class="linenos"> 611</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-612"><a href="#L-612"><span class="linenos"> 612</span></a>        <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-613"><a href="#L-613"><span class="linenos"> 613</span></a>            <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">filename</span>
-</span><span id="L-614"><a href="#L-614"><span class="linenos"> 614</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-615"><a href="#L-615"><span class="linenos"> 615</span></a>            <span class="n">file_name</span> <span class="o">=</span> <span class="n">filename</span>
-</span><span id="L-616"><a href="#L-616"><span class="linenos"> 616</span></a>
-</span><span id="L-617"><a href="#L-617"><span class="linenos"> 617</span></a>        <span class="k">if</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;json.gz&quot;</span><span class="p">:</span>
-</span><span id="L-618"><a href="#L-618"><span class="linenos"> 618</span></a>            <span class="kn">from</span> <span class="nn">.input.json</span> <span class="kn">import</span> <span class="n">dump_to_json</span>
-</span><span id="L-619"><a href="#L-619"><span class="linenos"> 619</span></a>            <span class="n">dump_to_json</span><span class="p">([</span><span class="bp">self</span><span class="p">],</span> <span class="n">file_name</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="n">description</span><span class="p">)</span>
-</span><span id="L-620"><a href="#L-620"><span class="linenos"> 620</span></a>        <span class="k">elif</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;pickle&quot;</span><span class="p">:</span>
-</span><span id="L-621"><a href="#L-621"><span class="linenos"> 621</span></a>            <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">file_name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fb</span><span class="p">:</span>
-</span><span id="L-622"><a href="#L-622"><span class="linenos"> 622</span></a>                <span class="n">pickle</span><span class="o">.</span><span class="n">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">fb</span><span class="p">)</span>
-</span><span id="L-623"><a href="#L-623"><span class="linenos"> 623</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-624"><a href="#L-624"><span class="linenos"> 624</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown datatype &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">datatype</span><span class="p">))</span>
-</span><span id="L-625"><a href="#L-625"><span class="linenos"> 625</span></a>
-</span><span id="L-626"><a href="#L-626"><span class="linenos"> 626</span></a>    <span class="k">def</span> <span class="nf">export_jackknife</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-627"><a href="#L-627"><span class="linenos"> 627</span></a>        <span class="sd">&quot;&quot;&quot;Export jackknife samples from the Obs</span>
-</span><span id="L-628"><a href="#L-628"><span class="linenos"> 628</span></a>
-</span><span id="L-629"><a href="#L-629"><span class="linenos"> 629</span></a><span class="sd">        Returns</span>
-</span><span id="L-630"><a href="#L-630"><span class="linenos"> 630</span></a><span class="sd">        -------</span>
-</span><span id="L-631"><a href="#L-631"><span class="linenos"> 631</span></a><span class="sd">        numpy.ndarray</span>
-</span><span id="L-632"><a href="#L-632"><span class="linenos"> 632</span></a><span class="sd">            Returns a numpy array of length N + 1 where N is the number of samples</span>
-</span><span id="L-633"><a href="#L-633"><span class="linenos"> 633</span></a><span class="sd">            for the given ensemble and replicum. The zeroth entry of the array contains</span>
-</span><span id="L-634"><a href="#L-634"><span class="linenos"> 634</span></a><span class="sd">            the mean value of the Obs, entries 1 to N contain the N jackknife samples</span>
-</span><span id="L-635"><a href="#L-635"><span class="linenos"> 635</span></a><span class="sd">            derived from the Obs. The current implementation only works for observables</span>
-</span><span id="L-636"><a href="#L-636"><span class="linenos"> 636</span></a><span class="sd">            defined on exactly one ensemble and replicum. The derived jackknife samples</span>
-</span><span id="L-637"><a href="#L-637"><span class="linenos"> 637</span></a><span class="sd">            should agree with samples from a full jackknife analysis up to O(1/N).</span>
-</span><span id="L-638"><a href="#L-638"><span class="linenos"> 638</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-639"><a href="#L-639"><span class="linenos"> 639</span></a>
-</span><span id="L-640"><a href="#L-640"><span class="linenos"> 640</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-641"><a href="#L-641"><span class="linenos"> 641</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;export_jackknife&#39; is only implemented for Obs defined on one ensemble and replicum.&quot;</span><span class="p">)</span>
-</span><span id="L-642"><a href="#L-642"><span class="linenos"> 642</span></a>
-</span><span id="L-643"><a href="#L-643"><span class="linenos"> 643</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-644"><a href="#L-644"><span class="linenos"> 644</span></a>        <span class="n">full_data</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-645"><a href="#L-645"><span class="linenos"> 645</span></a>        <span class="n">n</span> <span class="o">=</span> <span class="n">full_data</span><span class="o">.</span><span class="n">size</span>
-</span><span id="L-646"><a href="#L-646"><span class="linenos"> 646</span></a>        <span class="n">mean</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span>
-</span><span id="L-647"><a href="#L-647"><span class="linenos"> 647</span></a>        <span class="n">tmp_jacks</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-648"><a href="#L-648"><span class="linenos"> 648</span></a>        <span class="n">tmp_jacks</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="n">mean</span>
-</span><span id="L-649"><a href="#L-649"><span class="linenos"> 649</span></a>        <span class="n">tmp_jacks</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="o">=</span> <span class="p">(</span><span class="n">n</span> <span class="o">*</span> <span class="n">mean</span> <span class="o">-</span> <span class="n">full_data</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">n</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-650"><a href="#L-650"><span class="linenos"> 650</span></a>        <span class="k">return</span> <span class="n">tmp_jacks</span>
-</span><span id="L-651"><a href="#L-651"><span class="linenos"> 651</span></a>
-</span><span id="L-652"><a href="#L-652"><span class="linenos"> 652</span></a>    <span class="k">def</span> <span class="fm">__float__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-653"><a href="#L-653"><span class="linenos"> 653</span></a>        <span class="k">return</span> <span class="nb">float</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
-</span><span id="L-654"><a href="#L-654"><span class="linenos"> 654</span></a>
-</span><span id="L-655"><a href="#L-655"><span class="linenos"> 655</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-656"><a href="#L-656"><span class="linenos"> 656</span></a>        <span class="k">return</span> <span class="s1">&#39;Obs[&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;]&#39;</span>
-</span><span id="L-657"><a href="#L-657"><span class="linenos"> 657</span></a>
-</span><span id="L-658"><a href="#L-658"><span class="linenos"> 658</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-659"><a href="#L-659"><span class="linenos"> 659</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="L-660"><a href="#L-660"><span class="linenos"> 660</span></a>            <span class="k">return</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
-</span><span id="L-661"><a href="#L-661"><span class="linenos"> 661</span></a>        <span class="n">fexp</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">floor</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">log10</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">))</span>
-</span><span id="L-662"><a href="#L-662"><span class="linenos"> 662</span></a>        <span class="k">if</span> <span class="n">fexp</span> <span class="o">&lt;</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="L-663"><a href="#L-663"><span class="linenos"> 663</span></a>            <span class="k">return</span> <span class="s1">&#39;{:</span><span class="si">{form}</span><span class="s1">}(</span><span class="si">{:2.0f}</span><span class="s1">)&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">*</span> <span class="mi">10</span> <span class="o">**</span> <span class="p">(</span><span class="o">-</span><span class="n">fexp</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">form</span><span class="o">=</span><span class="s1">&#39;.&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="o">-</span><span class="nb">int</span><span class="p">(</span><span class="n">fexp</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;f&#39;</span><span class="p">)</span>
-</span><span id="L-664"><a href="#L-664"><span class="linenos"> 664</span></a>        <span class="k">elif</span> <span class="n">fexp</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="L-665"><a href="#L-665"><span class="linenos"> 665</span></a>            <span class="k">return</span> <span class="s1">&#39;</span><span class="si">{:.1f}</span><span class="s1">(</span><span class="si">{:1.1f}</span><span class="s1">)&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
-</span><span id="L-666"><a href="#L-666"><span class="linenos"> 666</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-667"><a href="#L-667"><span class="linenos"> 667</span></a>            <span class="k">return</span> <span class="s1">&#39;</span><span class="si">{:.0f}</span><span class="s1">(</span><span class="si">{:2.0f}</span><span class="s1">)&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
-</span><span id="L-668"><a href="#L-668"><span class="linenos"> 668</span></a>
-</span><span id="L-669"><a href="#L-669"><span class="linenos"> 669</span></a>    <span class="c1"># Overload comparisons</span>
-</span><span id="L-670"><a href="#L-670"><span class="linenos"> 670</span></a>    <span class="k">def</span> <span class="fm">__lt__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-671"><a href="#L-671"><span class="linenos"> 671</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&lt;</span> <span class="n">other</span>
-</span><span id="L-672"><a href="#L-672"><span class="linenos"> 672</span></a>
-</span><span id="L-673"><a href="#L-673"><span class="linenos"> 673</span></a>    <span class="k">def</span> <span class="fm">__le__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-674"><a href="#L-674"><span class="linenos"> 674</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&lt;=</span> <span class="n">other</span>
-</span><span id="L-675"><a href="#L-675"><span class="linenos"> 675</span></a>
-</span><span id="L-676"><a href="#L-676"><span class="linenos"> 676</span></a>    <span class="k">def</span> <span class="fm">__gt__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-677"><a href="#L-677"><span class="linenos"> 677</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&gt;</span> <span class="n">other</span>
-</span><span id="L-678"><a href="#L-678"><span class="linenos"> 678</span></a>
-</span><span id="L-679"><a href="#L-679"><span class="linenos"> 679</span></a>    <span class="k">def</span> <span class="fm">__ge__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-680"><a href="#L-680"><span class="linenos"> 680</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&gt;=</span> <span class="n">other</span>
-</span><span id="L-681"><a href="#L-681"><span class="linenos"> 681</span></a>
-</span><span id="L-682"><a href="#L-682"><span class="linenos"> 682</span></a>    <span class="k">def</span> <span class="fm">__eq__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-683"><a href="#L-683"><span class="linenos"> 683</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">other</span><span class="p">)</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span>
-</span><span id="L-684"><a href="#L-684"><span class="linenos"> 684</span></a>
-</span><span id="L-685"><a href="#L-685"><span class="linenos"> 685</span></a>    <span class="k">def</span> <span class="fm">__ne__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-686"><a href="#L-686"><span class="linenos"> 686</span></a>        <span class="k">return</span> <span class="ow">not</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">other</span><span class="p">)</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span>
-</span><span id="L-687"><a href="#L-687"><span class="linenos"> 687</span></a>
-</span><span id="L-688"><a href="#L-688"><span class="linenos"> 688</span></a>    <span class="c1"># Overload math operations</span>
-</span><span id="L-689"><a href="#L-689"><span class="linenos"> 689</span></a>    <span class="k">def</span> <span class="fm">__add__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-690"><a href="#L-690"><span class="linenos"> 690</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-691"><a href="#L-691"><span class="linenos"> 691</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="L-692"><a href="#L-692"><span class="linenos"> 692</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-693"><a href="#L-693"><span class="linenos"> 693</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-694"><a href="#L-694"><span class="linenos"> 694</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">+</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="L-695"><a href="#L-695"><span class="linenos"> 695</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
-</span><span id="L-696"><a href="#L-696"><span class="linenos"> 696</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
-</span><span id="L-697"><a href="#L-697"><span class="linenos"> 697</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-698"><a href="#L-698"><span class="linenos"> 698</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-699"><a href="#L-699"><span class="linenos"> 699</span></a>
-</span><span id="L-700"><a href="#L-700"><span class="linenos"> 700</span></a>    <span class="k">def</span> <span class="fm">__radd__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-701"><a href="#L-701"><span class="linenos"> 701</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
-</span><span id="L-702"><a href="#L-702"><span class="linenos"> 702</span></a>
-</span><span id="L-703"><a href="#L-703"><span class="linenos"> 703</span></a>    <span class="k">def</span> <span class="fm">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-704"><a href="#L-704"><span class="linenos"> 704</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-705"><a href="#L-705"><span class="linenos"> 705</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">y</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">])</span>
-</span><span id="L-706"><a href="#L-706"><span class="linenos"> 706</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-707"><a href="#L-707"><span class="linenos"> 707</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-708"><a href="#L-708"><span class="linenos"> 708</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">*</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="L-709"><a href="#L-709"><span class="linenos"> 709</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="nb">complex</span><span class="p">):</span>
-</span><span id="L-710"><a href="#L-710"><span class="linenos"> 710</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span> <span class="o">*</span> <span class="n">y</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">y</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="L-711"><a href="#L-711"><span class="linenos"> 711</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
-</span><span id="L-712"><a href="#L-712"><span class="linenos"> 712</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
-</span><span id="L-713"><a href="#L-713"><span class="linenos"> 713</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-714"><a href="#L-714"><span class="linenos"> 714</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">y</span><span class="p">])</span>
-</span><span id="L-715"><a href="#L-715"><span class="linenos"> 715</span></a>
-</span><span id="L-716"><a href="#L-716"><span class="linenos"> 716</span></a>    <span class="k">def</span> <span class="fm">__rmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-717"><a href="#L-717"><span class="linenos"> 717</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">y</span>
-</span><span id="L-718"><a href="#L-718"><span class="linenos"> 718</span></a>
-</span><span id="L-719"><a href="#L-719"><span class="linenos"> 719</span></a>    <span class="k">def</span> <span class="fm">__sub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-720"><a href="#L-720"><span class="linenos"> 720</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-721"><a href="#L-721"><span class="linenos"> 721</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-722"><a href="#L-722"><span class="linenos"> 722</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-723"><a href="#L-723"><span class="linenos"> 723</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-724"><a href="#L-724"><span class="linenos"> 724</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">-</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="L-725"><a href="#L-725"><span class="linenos"> 725</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
-</span><span id="L-726"><a href="#L-726"><span class="linenos"> 726</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
-</span><span id="L-727"><a href="#L-727"><span class="linenos"> 727</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-728"><a href="#L-728"><span class="linenos"> 728</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="L-729"><a href="#L-729"><span class="linenos"> 729</span></a>
-</span><span id="L-730"><a href="#L-730"><span class="linenos"> 730</span></a>    <span class="k">def</span> <span class="fm">__rsub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-731"><a href="#L-731"><span class="linenos"> 731</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">y</span><span class="p">)</span>
-</span><span id="L-732"><a href="#L-732"><span class="linenos"> 732</span></a>
-</span><span id="L-733"><a href="#L-733"><span class="linenos"> 733</span></a>    <span class="k">def</span> <span class="fm">__pos__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-734"><a href="#L-734"><span class="linenos"> 734</span></a>        <span class="k">return</span> <span class="bp">self</span>
-</span><span id="L-735"><a href="#L-735"><span class="linenos"> 735</span></a>
-</span><span id="L-736"><a href="#L-736"><span class="linenos"> 736</span></a>    <span class="k">def</span> <span class="fm">__neg__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-737"><a href="#L-737"><span class="linenos"> 737</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
-</span><span id="L-738"><a href="#L-738"><span class="linenos"> 738</span></a>
-</span><span id="L-739"><a href="#L-739"><span class="linenos"> 739</span></a>    <span class="k">def</span> <span class="fm">__truediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-740"><a href="#L-740"><span class="linenos"> 740</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-741"><a href="#L-741"><span class="linenos"> 741</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">/</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="L-742"><a href="#L-742"><span class="linenos"> 742</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-743"><a href="#L-743"><span class="linenos"> 743</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-744"><a href="#L-744"><span class="linenos"> 744</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">/</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="L-745"><a href="#L-745"><span class="linenos"> 745</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
-</span><span id="L-746"><a href="#L-746"><span class="linenos"> 746</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
-</span><span id="L-747"><a href="#L-747"><span class="linenos"> 747</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-748"><a href="#L-748"><span class="linenos"> 748</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="L-749"><a href="#L-749"><span class="linenos"> 749</span></a>
-</span><span id="L-750"><a href="#L-750"><span class="linenos"> 750</span></a>    <span class="k">def</span> <span class="fm">__rtruediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-751"><a href="#L-751"><span class="linenos"> 751</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-752"><a href="#L-752"><span class="linenos"> 752</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="n">y</span><span class="p">,</span> <span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="L-753"><a href="#L-753"><span class="linenos"> 753</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-754"><a href="#L-754"><span class="linenos"> 754</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-755"><a href="#L-755"><span class="linenos"> 755</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span> <span class="o">/</span> <span class="bp">self</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="L-756"><a href="#L-756"><span class="linenos"> 756</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
-</span><span id="L-757"><a href="#L-757"><span class="linenos"> 757</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
-</span><span id="L-758"><a href="#L-758"><span class="linenos"> 758</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-759"><a href="#L-759"><span class="linenos"> 759</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">y</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="o">-</span><span class="n">y</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="L-760"><a href="#L-760"><span class="linenos"> 760</span></a>
-</span><span id="L-761"><a href="#L-761"><span class="linenos"> 761</span></a>    <span class="k">def</span> <span class="fm">__pow__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-762"><a href="#L-762"><span class="linenos"> 762</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-763"><a href="#L-763"><span class="linenos"> 763</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">**</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="L-764"><a href="#L-764"><span class="linenos"> 764</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-765"><a href="#L-765"><span class="linenos"> 765</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">**</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="L-766"><a href="#L-766"><span class="linenos"> 766</span></a>
-</span><span id="L-767"><a href="#L-767"><span class="linenos"> 767</span></a>    <span class="k">def</span> <span class="fm">__rpow__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-768"><a href="#L-768"><span class="linenos"> 768</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-769"><a href="#L-769"><span class="linenos"> 769</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">**</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="n">y</span><span class="p">,</span> <span class="bp">self</span><span class="p">])</span>
-</span><span id="L-770"><a href="#L-770"><span class="linenos"> 770</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-771"><a href="#L-771"><span class="linenos"> 771</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">y</span> <span class="o">**</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="L-772"><a href="#L-772"><span class="linenos"> 772</span></a>
-</span><span id="L-773"><a href="#L-773"><span class="linenos"> 773</span></a>    <span class="k">def</span> <span class="fm">__abs__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-774"><a href="#L-774"><span class="linenos"> 774</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="L-775"><a href="#L-775"><span class="linenos"> 775</span></a>
-</span><span id="L-776"><a href="#L-776"><span class="linenos"> 776</span></a>    <span class="c1"># Overload numpy functions</span>
-</span><span id="L-777"><a href="#L-777"><span class="linenos"> 777</span></a>    <span class="k">def</span> <span class="nf">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-778"><a href="#L-778"><span class="linenos"> 778</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="L-779"><a href="#L-779"><span class="linenos"> 779</span></a>
-</span><span id="L-780"><a href="#L-780"><span class="linenos"> 780</span></a>    <span class="k">def</span> <span class="nf">log</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-781"><a href="#L-781"><span class="linenos"> 781</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">])</span>
-</span><span id="L-782"><a href="#L-782"><span class="linenos"> 782</span></a>
-</span><span id="L-783"><a href="#L-783"><span class="linenos"> 783</span></a>    <span class="k">def</span> <span class="nf">exp</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-784"><a href="#L-784"><span class="linenos"> 784</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="L-785"><a href="#L-785"><span class="linenos"> 785</span></a>
-</span><span id="L-786"><a href="#L-786"><span class="linenos"> 786</span></a>    <span class="k">def</span> <span class="nf">sin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-787"><a href="#L-787"><span class="linenos"> 787</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="L-788"><a href="#L-788"><span class="linenos"> 788</span></a>
-</span><span id="L-789"><a href="#L-789"><span class="linenos"> 789</span></a>    <span class="k">def</span> <span class="nf">cos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-790"><a href="#L-790"><span class="linenos"> 790</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="L-791"><a href="#L-791"><span class="linenos"> 791</span></a>
-</span><span id="L-792"><a href="#L-792"><span class="linenos"> 792</span></a>    <span class="k">def</span> <span class="nf">tan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-793"><a href="#L-793"><span class="linenos"> 793</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">tan</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="L-794"><a href="#L-794"><span class="linenos"> 794</span></a>
-</span><span id="L-795"><a href="#L-795"><span class="linenos"> 795</span></a>    <span class="k">def</span> <span class="nf">arcsin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-796"><a href="#L-796"><span class="linenos"> 796</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arcsin</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="L-797"><a href="#L-797"><span class="linenos"> 797</span></a>
-</span><span id="L-798"><a href="#L-798"><span class="linenos"> 798</span></a>    <span class="k">def</span> <span class="nf">arccos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-799"><a href="#L-799"><span class="linenos"> 799</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arccos</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="L-800"><a href="#L-800"><span class="linenos"> 800</span></a>
-</span><span id="L-801"><a href="#L-801"><span class="linenos"> 801</span></a>    <span class="k">def</span> <span class="nf">arctan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-802"><a href="#L-802"><span class="linenos"> 802</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arctan</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="L-803"><a href="#L-803"><span class="linenos"> 803</span></a>
-</span><span id="L-804"><a href="#L-804"><span class="linenos"> 804</span></a>    <span class="k">def</span> <span class="nf">sinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-805"><a href="#L-805"><span class="linenos"> 805</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="L-806"><a href="#L-806"><span class="linenos"> 806</span></a>
-</span><span id="L-807"><a href="#L-807"><span class="linenos"> 807</span></a>    <span class="k">def</span> <span class="nf">cosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-808"><a href="#L-808"><span class="linenos"> 808</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="L-809"><a href="#L-809"><span class="linenos"> 809</span></a>
-</span><span id="L-810"><a href="#L-810"><span class="linenos"> 810</span></a>    <span class="k">def</span> <span class="nf">tanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-811"><a href="#L-811"><span class="linenos"> 811</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">tanh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="L-812"><a href="#L-812"><span class="linenos"> 812</span></a>
-</span><span id="L-813"><a href="#L-813"><span class="linenos"> 813</span></a>    <span class="k">def</span> <span class="nf">arcsinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-814"><a href="#L-814"><span class="linenos"> 814</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arcsinh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="L-815"><a href="#L-815"><span class="linenos"> 815</span></a>
-</span><span id="L-816"><a href="#L-816"><span class="linenos"> 816</span></a>    <span class="k">def</span> <span class="nf">arccosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-817"><a href="#L-817"><span class="linenos"> 817</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arccosh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="L-818"><a href="#L-818"><span class="linenos"> 818</span></a>
-</span><span id="L-819"><a href="#L-819"><span class="linenos"> 819</span></a>    <span class="k">def</span> <span class="nf">arctanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-820"><a href="#L-820"><span class="linenos"> 820</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arctanh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="L-821"><a href="#L-821"><span class="linenos"> 821</span></a>
+</span><span id="L-12"><a href="#L-12"><span class="linenos">  12</span></a>
+</span><span id="L-13"><a href="#L-13"><span class="linenos">  13</span></a><span class="k">class</span> <span class="nc">Obs</span><span class="p">:</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos">  14</span></a>    <span class="sd">&quot;&quot;&quot;Class for a general observable.</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos">  15</span></a>
+</span><span id="L-16"><a href="#L-16"><span class="linenos">  16</span></a><span class="sd">    Instances of Obs are the basic objects of a pyerrors error analysis.</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos">  17</span></a><span class="sd">    They are initialized with a list which contains arrays of samples for</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos">  18</span></a><span class="sd">    different ensembles/replica and another list of same length which contains</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos">  19</span></a><span class="sd">    the names of the ensembles/replica. Mathematical operations can be</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos">  20</span></a><span class="sd">    performed on instances. The result is another instance of Obs. The error of</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos">  21</span></a><span class="sd">    an instance can be computed with the gamma_method. Also contains additional</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos">  22</span></a><span class="sd">    methods for output and visualization of the error calculation.</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos">  23</span></a>
+</span><span id="L-24"><a href="#L-24"><span class="linenos">  24</span></a><span class="sd">    Attributes</span>
+</span><span id="L-25"><a href="#L-25"><span class="linenos">  25</span></a><span class="sd">    ----------</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos">  26</span></a><span class="sd">    S_global : float</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos">  27</span></a><span class="sd">        Standard value for S (default 2.0)</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos">  28</span></a><span class="sd">    S_dict : dict</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos">  29</span></a><span class="sd">        Dictionary for S values. If an entry for a given ensemble</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos">  30</span></a><span class="sd">        exists this overwrites the standard value for that ensemble.</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos">  31</span></a><span class="sd">    tau_exp_global : float</span>
+</span><span id="L-32"><a href="#L-32"><span class="linenos">  32</span></a><span class="sd">        Standard value for tau_exp (default 0.0)</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos">  33</span></a><span class="sd">    tau_exp_dict : dict</span>
+</span><span id="L-34"><a href="#L-34"><span class="linenos">  34</span></a><span class="sd">        Dictionary for tau_exp values. If an entry for a given ensemble exists</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos">  35</span></a><span class="sd">        this overwrites the standard value for that ensemble.</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos">  36</span></a><span class="sd">    N_sigma_global : float</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos">  37</span></a><span class="sd">        Standard value for N_sigma (default 1.0)</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos">  38</span></a><span class="sd">    N_sigma_dict : dict</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos">  39</span></a><span class="sd">        Dictionary for N_sigma values. If an entry for a given ensemble exists</span>
+</span><span id="L-40"><a href="#L-40"><span class="linenos">  40</span></a><span class="sd">        this overwrites the standard value for that ensemble.</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos">  41</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-42"><a href="#L-42"><span class="linenos">  42</span></a>    <span class="vm">__slots__</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">,</span> <span class="s1">&#39;shape&#39;</span><span class="p">,</span> <span class="s1">&#39;r_values&#39;</span><span class="p">,</span> <span class="s1">&#39;deltas&#39;</span><span class="p">,</span> <span class="s1">&#39;N&#39;</span><span class="p">,</span> <span class="s1">&#39;_value&#39;</span><span class="p">,</span> <span class="s1">&#39;_dvalue&#39;</span><span class="p">,</span>
+</span><span id="L-43"><a href="#L-43"><span class="linenos">  43</span></a>                 <span class="s1">&#39;ddvalue&#39;</span><span class="p">,</span> <span class="s1">&#39;reweighted&#39;</span><span class="p">,</span> <span class="s1">&#39;S&#39;</span><span class="p">,</span> <span class="s1">&#39;tau_exp&#39;</span><span class="p">,</span> <span class="s1">&#39;N_sigma&#39;</span><span class="p">,</span>
+</span><span id="L-44"><a href="#L-44"><span class="linenos">  44</span></a>                 <span class="s1">&#39;e_dvalue&#39;</span><span class="p">,</span> <span class="s1">&#39;e_ddvalue&#39;</span><span class="p">,</span> <span class="s1">&#39;e_tauint&#39;</span><span class="p">,</span> <span class="s1">&#39;e_dtauint&#39;</span><span class="p">,</span>
+</span><span id="L-45"><a href="#L-45"><span class="linenos">  45</span></a>                 <span class="s1">&#39;e_windowsize&#39;</span><span class="p">,</span> <span class="s1">&#39;e_rho&#39;</span><span class="p">,</span> <span class="s1">&#39;e_drho&#39;</span><span class="p">,</span> <span class="s1">&#39;e_n_tauint&#39;</span><span class="p">,</span> <span class="s1">&#39;e_n_dtauint&#39;</span><span class="p">,</span>
+</span><span id="L-46"><a href="#L-46"><span class="linenos">  46</span></a>                 <span class="s1">&#39;idl&#39;</span><span class="p">,</span> <span class="s1">&#39;is_merged&#39;</span><span class="p">,</span> <span class="s1">&#39;tag&#39;</span><span class="p">,</span> <span class="s1">&#39;_covobs&#39;</span><span class="p">,</span> <span class="s1">&#39;__dict__&#39;</span><span class="p">]</span>
+</span><span id="L-47"><a href="#L-47"><span class="linenos">  47</span></a>
+</span><span id="L-48"><a href="#L-48"><span class="linenos">  48</span></a>    <span class="n">S_global</span> <span class="o">=</span> <span class="mf">2.0</span>
+</span><span id="L-49"><a href="#L-49"><span class="linenos">  49</span></a>    <span class="n">S_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-50"><a href="#L-50"><span class="linenos">  50</span></a>    <span class="n">tau_exp_global</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-51"><a href="#L-51"><span class="linenos">  51</span></a>    <span class="n">tau_exp_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-52"><a href="#L-52"><span class="linenos">  52</span></a>    <span class="n">N_sigma_global</span> <span class="o">=</span> <span class="mf">1.0</span>
+</span><span id="L-53"><a href="#L-53"><span class="linenos">  53</span></a>    <span class="n">N_sigma_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-54"><a href="#L-54"><span class="linenos">  54</span></a>    <span class="n">filter_eps</span> <span class="o">=</span> <span class="mf">1e-10</span>
+</span><span id="L-55"><a href="#L-55"><span class="linenos">  55</span></a>
+</span><span id="L-56"><a href="#L-56"><span class="linenos">  56</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-57"><a href="#L-57"><span class="linenos">  57</span></a>        <span class="sd">&quot;&quot;&quot; Initialize Obs object.</span>
+</span><span id="L-58"><a href="#L-58"><span class="linenos">  58</span></a>
+</span><span id="L-59"><a href="#L-59"><span class="linenos">  59</span></a><span class="sd">        Parameters</span>
+</span><span id="L-60"><a href="#L-60"><span class="linenos">  60</span></a><span class="sd">        ----------</span>
+</span><span id="L-61"><a href="#L-61"><span class="linenos">  61</span></a><span class="sd">        samples : list</span>
+</span><span id="L-62"><a href="#L-62"><span class="linenos">  62</span></a><span class="sd">            list of numpy arrays containing the Monte Carlo samples</span>
+</span><span id="L-63"><a href="#L-63"><span class="linenos">  63</span></a><span class="sd">        names : list</span>
+</span><span id="L-64"><a href="#L-64"><span class="linenos">  64</span></a><span class="sd">            list of strings labeling the individual samples</span>
+</span><span id="L-65"><a href="#L-65"><span class="linenos">  65</span></a><span class="sd">        idl : list, optional</span>
+</span><span id="L-66"><a href="#L-66"><span class="linenos">  66</span></a><span class="sd">            list of ranges or lists on which the samples are defined</span>
+</span><span id="L-67"><a href="#L-67"><span class="linenos">  67</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-68"><a href="#L-68"><span class="linenos">  68</span></a>
+</span><span id="L-69"><a href="#L-69"><span class="linenos">  69</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">and</span> <span class="nb">len</span><span class="p">(</span><span class="n">samples</span><span class="p">):</span>
+</span><span id="L-70"><a href="#L-70"><span class="linenos">  70</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">):</span>
+</span><span id="L-71"><a href="#L-71"><span class="linenos">  71</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of samples and names incompatible.&#39;</span><span class="p">)</span>
+</span><span id="L-72"><a href="#L-72"><span class="linenos">  72</span></a>            <span class="k">if</span> <span class="n">idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-73"><a href="#L-73"><span class="linenos">  73</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">):</span>
+</span><span id="L-74"><a href="#L-74"><span class="linenos">  74</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of idl incompatible with samples and names.&#39;</span><span class="p">)</span>
+</span><span id="L-75"><a href="#L-75"><span class="linenos">  75</span></a>            <span class="n">name_length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
+</span><span id="L-76"><a href="#L-76"><span class="linenos">  76</span></a>            <span class="k">if</span> <span class="n">name_length</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-77"><a href="#L-77"><span class="linenos">  77</span></a>                <span class="k">if</span> <span class="n">name_length</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">names</span><span class="p">)):</span>
+</span><span id="L-78"><a href="#L-78"><span class="linenos">  78</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;names are not unique.&#39;</span><span class="p">)</span>
+</span><span id="L-79"><a href="#L-79"><span class="linenos">  79</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="nb">str</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">names</span><span class="p">):</span>
+</span><span id="L-80"><a href="#L-80"><span class="linenos">  80</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;All names have to be strings.&#39;</span><span class="p">)</span>
+</span><span id="L-81"><a href="#L-81"><span class="linenos">  81</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-82"><a href="#L-82"><span class="linenos">  82</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="L-83"><a href="#L-83"><span class="linenos">  83</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;All names have to be strings.&#39;</span><span class="p">)</span>
+</span><span id="L-84"><a href="#L-84"><span class="linenos">  84</span></a>            <span class="k">if</span> <span class="nb">min</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">samples</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mi">4</span><span class="p">:</span>
+</span><span id="L-85"><a href="#L-85"><span class="linenos">  85</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Samples have to have at least 5 entries.&#39;</span><span class="p">)</span>
+</span><span id="L-86"><a href="#L-86"><span class="linenos">  86</span></a>
+</span><span id="L-87"><a href="#L-87"><span class="linenos">  87</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
+</span><span id="L-88"><a href="#L-88"><span class="linenos">  88</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">shape</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-89"><a href="#L-89"><span class="linenos">  89</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-90"><a href="#L-90"><span class="linenos">  90</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-91"><a href="#L-91"><span class="linenos">  91</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-92"><a href="#L-92"><span class="linenos">  92</span></a>
+</span><span id="L-93"><a href="#L-93"><span class="linenos">  93</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-94"><a href="#L-94"><span class="linenos">  94</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-95"><a href="#L-95"><span class="linenos">  95</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-96"><a href="#L-96"><span class="linenos">  96</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-97"><a href="#L-97"><span class="linenos">  97</span></a>        <span class="k">if</span> <span class="n">idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-98"><a href="#L-98"><span class="linenos">  98</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">idx</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="p">)):</span>
+</span><span id="L-99"><a href="#L-99"><span class="linenos">  99</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="L-100"><a href="#L-100"><span class="linenos"> 100</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">idx</span>
+</span><span id="L-101"><a href="#L-101"><span class="linenos"> 101</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="p">(</span><span class="nb">list</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)):</span>
+</span><span id="L-102"><a href="#L-102"><span class="linenos"> 102</span></a>                    <span class="n">dc</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">idx</span><span class="p">))</span>
+</span><span id="L-103"><a href="#L-103"><span class="linenos"> 103</span></a>                    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">dc</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">):</span>
+</span><span id="L-104"><a href="#L-104"><span class="linenos"> 104</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsorted idx for idl[</span><span class="si">%s</span><span class="s2">]&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
+</span><span id="L-105"><a href="#L-105"><span class="linenos"> 105</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">dc</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-106"><a href="#L-106"><span class="linenos"> 106</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">idx</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">idx</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-107"><a href="#L-107"><span class="linenos"> 107</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-108"><a href="#L-108"><span class="linenos"> 108</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
+</span><span id="L-109"><a href="#L-109"><span class="linenos"> 109</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-110"><a href="#L-110"><span class="linenos"> 110</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;incompatible type for idl[</span><span class="si">%s</span><span class="s1">].&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
+</span><span id="L-111"><a href="#L-111"><span class="linenos"> 111</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-112"><a href="#L-112"><span class="linenos"> 112</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">)):</span>
+</span><span id="L-113"><a href="#L-113"><span class="linenos"> 113</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-114"><a href="#L-114"><span class="linenos"> 114</span></a>
+</span><span id="L-115"><a href="#L-115"><span class="linenos"> 115</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-116"><a href="#L-116"><span class="linenos"> 116</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span><span class="p">,</span> <span class="n">mean</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">))):</span>
+</span><span id="L-117"><a href="#L-117"><span class="linenos"> 117</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="L-118"><a href="#L-118"><span class="linenos"> 118</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-119"><a href="#L-119"><span class="linenos"> 119</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">mean</span>
+</span><span id="L-120"><a href="#L-120"><span class="linenos"> 120</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">sample</span>
+</span><span id="L-121"><a href="#L-121"><span class="linenos"> 121</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-122"><a href="#L-122"><span class="linenos"> 122</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">)):</span>
+</span><span id="L-123"><a href="#L-123"><span class="linenos"> 123</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="L-124"><a href="#L-124"><span class="linenos"> 124</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-125"><a href="#L-125"><span class="linenos"> 125</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="L-126"><a href="#L-126"><span class="linenos"> 126</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Incompatible samples and idx for </span><span class="si">%s</span><span class="s1">: </span><span class="si">%d</span><span class="s1"> vs. </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
+</span><span id="L-127"><a href="#L-127"><span class="linenos"> 127</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span>
+</span><span id="L-128"><a href="#L-128"><span class="linenos"> 128</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">sample</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-129"><a href="#L-129"><span class="linenos"> 129</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-130"><a href="#L-130"><span class="linenos"> 130</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">/=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span>
+</span><span id="L-131"><a href="#L-131"><span class="linenos"> 131</span></a>
+</span><span id="L-132"><a href="#L-132"><span class="linenos"> 132</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-133"><a href="#L-133"><span class="linenos"> 133</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-134"><a href="#L-134"><span class="linenos"> 134</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-135"><a href="#L-135"><span class="linenos"> 135</span></a>
+</span><span id="L-136"><a href="#L-136"><span class="linenos"> 136</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-137"><a href="#L-137"><span class="linenos"> 137</span></a>
+</span><span id="L-138"><a href="#L-138"><span class="linenos"> 138</span></a>    <span class="nd">@property</span>
+</span><span id="L-139"><a href="#L-139"><span class="linenos"> 139</span></a>    <span class="k">def</span> <span class="nf">value</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-140"><a href="#L-140"><span class="linenos"> 140</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_value</span>
+</span><span id="L-141"><a href="#L-141"><span class="linenos"> 141</span></a>
+</span><span id="L-142"><a href="#L-142"><span class="linenos"> 142</span></a>    <span class="nd">@property</span>
+</span><span id="L-143"><a href="#L-143"><span class="linenos"> 143</span></a>    <span class="k">def</span> <span class="nf">dvalue</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-144"><a href="#L-144"><span class="linenos"> 144</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
+</span><span id="L-145"><a href="#L-145"><span class="linenos"> 145</span></a>
+</span><span id="L-146"><a href="#L-146"><span class="linenos"> 146</span></a>    <span class="nd">@property</span>
+</span><span id="L-147"><a href="#L-147"><span class="linenos"> 147</span></a>    <span class="k">def</span> <span class="nf">e_names</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-148"><a href="#L-148"><span class="linenos"> 148</span></a>        <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">]))</span>
+</span><span id="L-149"><a href="#L-149"><span class="linenos"> 149</span></a>
+</span><span id="L-150"><a href="#L-150"><span class="linenos"> 150</span></a>    <span class="nd">@property</span>
+</span><span id="L-151"><a href="#L-151"><span class="linenos"> 151</span></a>    <span class="k">def</span> <span class="nf">cov_names</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-152"><a href="#L-152"><span class="linenos"> 152</span></a>        <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">()]))</span>
+</span><span id="L-153"><a href="#L-153"><span class="linenos"> 153</span></a>
+</span><span id="L-154"><a href="#L-154"><span class="linenos"> 154</span></a>    <span class="nd">@property</span>
+</span><span id="L-155"><a href="#L-155"><span class="linenos"> 155</span></a>    <span class="k">def</span> <span class="nf">mc_names</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-156"><a href="#L-156"><span class="linenos"> 156</span></a>        <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">not</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">]))</span>
+</span><span id="L-157"><a href="#L-157"><span class="linenos"> 157</span></a>
+</span><span id="L-158"><a href="#L-158"><span class="linenos"> 158</span></a>    <span class="nd">@property</span>
+</span><span id="L-159"><a href="#L-159"><span class="linenos"> 159</span></a>    <span class="k">def</span> <span class="nf">e_content</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-160"><a href="#L-160"><span class="linenos"> 160</span></a>        <span class="n">res</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-161"><a href="#L-161"><span class="linenos"> 161</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
+</span><span id="L-162"><a href="#L-162"><span class="linenos"> 162</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">))</span>
+</span><span id="L-163"><a href="#L-163"><span class="linenos"> 163</span></a>            <span class="k">if</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
+</span><span id="L-164"><a href="#L-164"><span class="linenos"> 164</span></a>                <span class="n">res</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">e_name</span><span class="p">)</span>
+</span><span id="L-165"><a href="#L-165"><span class="linenos"> 165</span></a>        <span class="k">return</span> <span class="n">res</span>
+</span><span id="L-166"><a href="#L-166"><span class="linenos"> 166</span></a>
+</span><span id="L-167"><a href="#L-167"><span class="linenos"> 167</span></a>    <span class="nd">@property</span>
+</span><span id="L-168"><a href="#L-168"><span class="linenos"> 168</span></a>    <span class="k">def</span> <span class="nf">covobs</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-169"><a href="#L-169"><span class="linenos"> 169</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_covobs</span>
+</span><span id="L-170"><a href="#L-170"><span class="linenos"> 170</span></a>
+</span><span id="L-171"><a href="#L-171"><span class="linenos"> 171</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-172"><a href="#L-172"><span class="linenos"> 172</span></a>        <span class="sd">&quot;&quot;&quot;Estimate the error and related properties of the Obs.</span>
+</span><span id="L-173"><a href="#L-173"><span class="linenos"> 173</span></a>
+</span><span id="L-174"><a href="#L-174"><span class="linenos"> 174</span></a><span class="sd">        Parameters</span>
+</span><span id="L-175"><a href="#L-175"><span class="linenos"> 175</span></a><span class="sd">        ----------</span>
+</span><span id="L-176"><a href="#L-176"><span class="linenos"> 176</span></a><span class="sd">        S : float</span>
+</span><span id="L-177"><a href="#L-177"><span class="linenos"> 177</span></a><span class="sd">            specifies a custom value for the parameter S (default 2.0).</span>
+</span><span id="L-178"><a href="#L-178"><span class="linenos"> 178</span></a><span class="sd">            If set to 0 it is assumed that the data exhibits no</span>
+</span><span id="L-179"><a href="#L-179"><span class="linenos"> 179</span></a><span class="sd">            autocorrelation. In this case the error estimates coincides</span>
+</span><span id="L-180"><a href="#L-180"><span class="linenos"> 180</span></a><span class="sd">            with the sample standard error.</span>
+</span><span id="L-181"><a href="#L-181"><span class="linenos"> 181</span></a><span class="sd">        tau_exp : float</span>
+</span><span id="L-182"><a href="#L-182"><span class="linenos"> 182</span></a><span class="sd">            positive value triggers the critical slowing down analysis</span>
+</span><span id="L-183"><a href="#L-183"><span class="linenos"> 183</span></a><span class="sd">            (default 0.0).</span>
+</span><span id="L-184"><a href="#L-184"><span class="linenos"> 184</span></a><span class="sd">        N_sigma : float</span>
+</span><span id="L-185"><a href="#L-185"><span class="linenos"> 185</span></a><span class="sd">            number of standard deviations from zero until the tail is</span>
+</span><span id="L-186"><a href="#L-186"><span class="linenos"> 186</span></a><span class="sd">            attached to the autocorrelation function (default 1).</span>
+</span><span id="L-187"><a href="#L-187"><span class="linenos"> 187</span></a><span class="sd">        fft : bool</span>
+</span><span id="L-188"><a href="#L-188"><span class="linenos"> 188</span></a><span class="sd">            determines whether the fft algorithm is used for the computation</span>
+</span><span id="L-189"><a href="#L-189"><span class="linenos"> 189</span></a><span class="sd">            of the autocorrelation function (default True)</span>
+</span><span id="L-190"><a href="#L-190"><span class="linenos"> 190</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-191"><a href="#L-191"><span class="linenos"> 191</span></a>
+</span><span id="L-192"><a href="#L-192"><span class="linenos"> 192</span></a>        <span class="n">e_content</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_content</span>
+</span><span id="L-193"><a href="#L-193"><span class="linenos"> 193</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-194"><a href="#L-194"><span class="linenos"> 194</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-195"><a href="#L-195"><span class="linenos"> 195</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-196"><a href="#L-196"><span class="linenos"> 196</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-197"><a href="#L-197"><span class="linenos"> 197</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-198"><a href="#L-198"><span class="linenos"> 198</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-199"><a href="#L-199"><span class="linenos"> 199</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-200"><a href="#L-200"><span class="linenos"> 200</span></a>        <span class="n">e_gamma</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-201"><a href="#L-201"><span class="linenos"> 201</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-202"><a href="#L-202"><span class="linenos"> 202</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-203"><a href="#L-203"><span class="linenos"> 203</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-204"><a href="#L-204"><span class="linenos"> 204</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-205"><a href="#L-205"><span class="linenos"> 205</span></a>
+</span><span id="L-206"><a href="#L-206"><span class="linenos"> 206</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">S</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-207"><a href="#L-207"><span class="linenos"> 207</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-208"><a href="#L-208"><span class="linenos"> 208</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-209"><a href="#L-209"><span class="linenos"> 209</span></a>
+</span><span id="L-210"><a href="#L-210"><span class="linenos"> 210</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;fft&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">False</span><span class="p">:</span>
+</span><span id="L-211"><a href="#L-211"><span class="linenos"> 211</span></a>            <span class="n">fft</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="L-212"><a href="#L-212"><span class="linenos"> 212</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-213"><a href="#L-213"><span class="linenos"> 213</span></a>            <span class="n">fft</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="L-214"><a href="#L-214"><span class="linenos"> 214</span></a>
+</span><span id="L-215"><a href="#L-215"><span class="linenos"> 215</span></a>        <span class="k">def</span> <span class="nf">_parse_kwarg</span><span class="p">(</span><span class="n">kwarg_name</span><span class="p">):</span>
+</span><span id="L-216"><a href="#L-216"><span class="linenos"> 216</span></a>            <span class="k">if</span> <span class="n">kwarg_name</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-217"><a href="#L-217"><span class="linenos"> 217</span></a>                <span class="n">tmp</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">kwarg_name</span><span class="p">)</span>
+</span><span id="L-218"><a href="#L-218"><span class="linenos"> 218</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
+</span><span id="L-219"><a href="#L-219"><span class="linenos"> 219</span></a>                    <span class="k">if</span> <span class="n">tmp</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-220"><a href="#L-220"><span class="linenos"> 220</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39; has to be larger or equal to 0.&#39;</span><span class="p">)</span>
+</span><span id="L-221"><a href="#L-221"><span class="linenos"> 221</span></a>                    <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
+</span><span id="L-222"><a href="#L-222"><span class="linenos"> 222</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">tmp</span>
+</span><span id="L-223"><a href="#L-223"><span class="linenos"> 223</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-224"><a href="#L-224"><span class="linenos"> 224</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39; is not in proper format.&#39;</span><span class="p">)</span>
+</span><span id="L-225"><a href="#L-225"><span class="linenos"> 225</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-226"><a href="#L-226"><span class="linenos"> 226</span></a>                <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
+</span><span id="L-227"><a href="#L-227"><span class="linenos"> 227</span></a>                    <span class="k">if</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_dict&#39;</span><span class="p">):</span>
+</span><span id="L-228"><a href="#L-228"><span class="linenos"> 228</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_dict&#39;</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span>
+</span><span id="L-229"><a href="#L-229"><span class="linenos"> 229</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-230"><a href="#L-230"><span class="linenos"> 230</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_global&#39;</span><span class="p">)</span>
+</span><span id="L-231"><a href="#L-231"><span class="linenos"> 231</span></a>
+</span><span id="L-232"><a href="#L-232"><span class="linenos"> 232</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;S&#39;</span><span class="p">)</span>
+</span><span id="L-233"><a href="#L-233"><span class="linenos"> 233</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;tau_exp&#39;</span><span class="p">)</span>
+</span><span id="L-234"><a href="#L-234"><span class="linenos"> 234</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;N_sigma&#39;</span><span class="p">)</span>
+</span><span id="L-235"><a href="#L-235"><span class="linenos"> 235</span></a>
+</span><span id="L-236"><a href="#L-236"><span class="linenos"> 236</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="L-237"><a href="#L-237"><span class="linenos"> 237</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-238"><a href="#L-238"><span class="linenos"> 238</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="L-239"><a href="#L-239"><span class="linenos"> 239</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="L-240"><a href="#L-240"><span class="linenos"> 240</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
+</span><span id="L-241"><a href="#L-241"><span class="linenos"> 241</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-242"><a href="#L-242"><span class="linenos"> 242</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-243"><a href="#L-243"><span class="linenos"> 243</span></a>
+</span><span id="L-244"><a href="#L-244"><span class="linenos"> 244</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]])</span>
+</span><span id="L-245"><a href="#L-245"><span class="linenos"> 245</span></a>            <span class="n">w_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span> <span class="o">//</span> <span class="mi">2</span>
+</span><span id="L-246"><a href="#L-246"><span class="linenos"> 246</span></a>            <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="L-247"><a href="#L-247"><span class="linenos"> 247</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="L-248"><a href="#L-248"><span class="linenos"> 248</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="L-249"><a href="#L-249"><span class="linenos"> 249</span></a>
+</span><span id="L-250"><a href="#L-250"><span class="linenos"> 250</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="L-251"><a href="#L-251"><span class="linenos"> 251</span></a>                <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_calc_gamma</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">)</span>
+</span><span id="L-252"><a href="#L-252"><span class="linenos"> 252</span></a>
+</span><span id="L-253"><a href="#L-253"><span class="linenos"> 253</span></a>            <span class="n">gamma_div</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="L-254"><a href="#L-254"><span class="linenos"> 254</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="L-255"><a href="#L-255"><span class="linenos"> 255</span></a>                <span class="n">gamma_div</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_calc_gamma</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">])),</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">)</span>
+</span><span id="L-256"><a href="#L-256"><span class="linenos"> 256</span></a>            <span class="n">gamma_div</span><span class="p">[</span><span class="n">gamma_div</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.0</span>
+</span><span id="L-257"><a href="#L-257"><span class="linenos"> 257</span></a>            <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">/=</span> <span class="n">gamma_div</span><span class="p">[:</span><span class="n">w_max</span><span class="p">]</span>
+</span><span id="L-258"><a href="#L-258"><span class="linenos"> 258</span></a>
+</span><span id="L-259"><a href="#L-259"><span class="linenos"> 259</span></a>            <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span> <span class="o">&lt;</span> <span class="mi">10</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="nb">float</span><span class="p">)</span><span class="o">.</span><span class="n">tiny</span><span class="p">:</span>  <span class="c1"># Prevent division by zero</span>
+</span><span id="L-260"><a href="#L-260"><span class="linenos"> 260</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span>
+</span><span id="L-261"><a href="#L-261"><span class="linenos"> 261</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-262"><a href="#L-262"><span class="linenos"> 262</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-263"><a href="#L-263"><span class="linenos"> 263</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-264"><a href="#L-264"><span class="linenos"> 264</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-265"><a href="#L-265"><span class="linenos"> 265</span></a>                <span class="k">continue</span>
+</span><span id="L-266"><a href="#L-266"><span class="linenos"> 266</span></a>
+</span><span id="L-267"><a href="#L-267"><span class="linenos"> 267</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="n">w_max</span><span class="p">]</span> <span class="o">/</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-268"><a href="#L-268"><span class="linenos"> 268</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">cumsum</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(([</span><span class="mf">0.5</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:])))</span>
+</span><span id="L-269"><a href="#L-269"><span class="linenos"> 269</span></a>            <span class="c1"># Make sure no entry of tauint is smaller than 0.5</span>
+</span><span id="L-270"><a href="#L-270"><span class="linenos"> 270</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="mf">0.5</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span>
+</span><span id="L-271"><a href="#L-271"><span class="linenos"> 271</span></a>            <span class="c1"># hep-lat/0306017 eq. (42)</span>
+</span><span id="L-272"><a href="#L-272"><span class="linenos"> 272</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span> <span class="o">+</span> <span class="mf">0.5</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="L-273"><a href="#L-273"><span class="linenos"> 273</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-274"><a href="#L-274"><span class="linenos"> 274</span></a>
+</span><span id="L-275"><a href="#L-275"><span class="linenos"> 275</span></a>            <span class="k">def</span> <span class="nf">_compute_drho</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+</span><span id="L-276"><a href="#L-276"><span class="linenos"> 276</span></a>                <span class="n">tmp</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span><span class="n">w_max</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">::</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:</span><span class="n">w_max</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">i</span><span class="p">]])</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:</span><span class="n">w_max</span> <span class="o">-</span> <span class="n">i</span><span class="p">]</span>
+</span><span id="L-277"><a href="#L-277"><span class="linenos"> 277</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">tmp</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="L-278"><a href="#L-278"><span class="linenos"> 278</span></a>
+</span><span id="L-279"><a href="#L-279"><span class="linenos"> 279</span></a>            <span class="n">_compute_drho</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="L-280"><a href="#L-280"><span class="linenos"> 280</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-281"><a href="#L-281"><span class="linenos"> 281</span></a>                <span class="n">texp</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span>
+</span><span id="L-282"><a href="#L-282"><span class="linenos"> 282</span></a>                <span class="c1"># Critical slowing down analysis</span>
+</span><span id="L-283"><a href="#L-283"><span class="linenos"> 283</span></a>                <span class="k">if</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">&lt;=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-284"><a href="#L-284"><span class="linenos"> 284</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Need at least 8 samples for tau_exp error analysis&quot;</span><span class="p">)</span>
+</span><span id="L-285"><a href="#L-285"><span class="linenos"> 285</span></a>                <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="L-286"><a href="#L-286"><span class="linenos"> 286</span></a>                    <span class="n">_compute_drho</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-287"><a href="#L-287"><span class="linenos"> 287</span></a>                    <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">])</span> <span class="o">&lt;</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="L-288"><a href="#L-288"><span class="linenos"> 288</span></a>                        <span class="c1"># Bias correction hep-lat/0306017 eq. (49) included</span>
+</span><span id="L-289"><a href="#L-289"><span class="linenos"> 289</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">+</span> <span class="n">texp</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span>  <span class="c1"># The absolute makes sure, that the tail contribution is always positive</span>
+</span><span id="L-290"><a href="#L-290"><span class="linenos"> 290</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">texp</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="L-291"><a href="#L-291"><span class="linenos"> 291</span></a>                        <span class="c1"># Error of tau_exp neglected so far, missing term: self.e_rho[e_name][n + 1] ** 2 * d_tau_exp ** 2</span>
+</span><span id="L-292"><a href="#L-292"><span class="linenos"> 292</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="L-293"><a href="#L-293"><span class="linenos"> 293</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">n</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="L-294"><a href="#L-294"><span class="linenos"> 294</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">n</span>
+</span><span id="L-295"><a href="#L-295"><span class="linenos"> 295</span></a>                        <span class="k">break</span>
+</span><span id="L-296"><a href="#L-296"><span class="linenos"> 296</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-297"><a href="#L-297"><span class="linenos"> 297</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="L-298"><a href="#L-298"><span class="linenos"> 298</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span>
+</span><span id="L-299"><a href="#L-299"><span class="linenos"> 299</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-300"><a href="#L-300"><span class="linenos"> 300</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="p">(</span><span class="n">e_N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-301"><a href="#L-301"><span class="linenos"> 301</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="L-302"><a href="#L-302"><span class="linenos"> 302</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-303"><a href="#L-303"><span class="linenos"> 303</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-304"><a href="#L-304"><span class="linenos"> 304</span></a>                    <span class="c1"># Standard automatic windowing procedure</span>
+</span><span id="L-305"><a href="#L-305"><span class="linenos"> 305</span></a>                    <span class="n">tau</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">((</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-306"><a href="#L-306"><span class="linenos"> 306</span></a>                    <span class="n">g_w</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span> <span class="o">/</span> <span class="n">tau</span><span class="p">)</span> <span class="o">-</span> <span class="n">tau</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span> <span class="o">*</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="L-307"><a href="#L-307"><span class="linenos"> 307</span></a>                    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">):</span>
+</span><span id="L-308"><a href="#L-308"><span class="linenos"> 308</span></a>                        <span class="k">if</span> <span class="n">n</span> <span class="o">&lt;</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="L-309"><a href="#L-309"><span class="linenos"> 309</span></a>                            <span class="n">_compute_drho</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-310"><a href="#L-310"><span class="linenos"> 310</span></a>                        <span class="k">if</span> <span class="n">g_w</span><span class="p">[</span><span class="n">n</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">&lt;</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="n">w_max</span> <span class="o">-</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-311"><a href="#L-311"><span class="linenos"> 311</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>  <span class="c1"># Bias correction hep-lat/0306017 eq. (49)</span>
+</span><span id="L-312"><a href="#L-312"><span class="linenos"> 312</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span>
+</span><span id="L-313"><a href="#L-313"><span class="linenos"> 313</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="L-314"><a href="#L-314"><span class="linenos"> 314</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">n</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="L-315"><a href="#L-315"><span class="linenos"> 315</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">n</span>
+</span><span id="L-316"><a href="#L-316"><span class="linenos"> 316</span></a>                            <span class="k">break</span>
+</span><span id="L-317"><a href="#L-317"><span class="linenos"> 317</span></a>
+</span><span id="L-318"><a href="#L-318"><span class="linenos"> 318</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="L-319"><a href="#L-319"><span class="linenos"> 319</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">+=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="L-320"><a href="#L-320"><span class="linenos"> 320</span></a>
+</span><span id="L-321"><a href="#L-321"><span class="linenos"> 321</span></a>        <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="L-322"><a href="#L-322"><span class="linenos"> 322</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">errsq</span><span class="p">())</span>
+</span><span id="L-323"><a href="#L-323"><span class="linenos"> 323</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-324"><a href="#L-324"><span class="linenos"> 324</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">**</span><span class="mi">2</span>
+</span><span id="L-325"><a href="#L-325"><span class="linenos"> 325</span></a>
+</span><span id="L-326"><a href="#L-326"><span class="linenos"> 326</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
+</span><span id="L-327"><a href="#L-327"><span class="linenos"> 327</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="L-328"><a href="#L-328"><span class="linenos"> 328</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-329"><a href="#L-329"><span class="linenos"> 329</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-330"><a href="#L-330"><span class="linenos"> 330</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span><span class="p">)</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
+</span><span id="L-331"><a href="#L-331"><span class="linenos"> 331</span></a>        <span class="k">return</span>
+</span><span id="L-332"><a href="#L-332"><span class="linenos"> 332</span></a>
+</span><span id="L-333"><a href="#L-333"><span class="linenos"> 333</span></a>    <span class="k">def</span> <span class="nf">_calc_gamma</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">shape</span><span class="p">,</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">):</span>
+</span><span id="L-334"><a href="#L-334"><span class="linenos"> 334</span></a>        <span class="sd">&quot;&quot;&quot;Calculate Gamma_{AA} from the deltas, which are defined on idx.</span>
+</span><span id="L-335"><a href="#L-335"><span class="linenos"> 335</span></a><span class="sd">           idx is assumed to be a contiguous range (possibly with a stepsize != 1)</span>
+</span><span id="L-336"><a href="#L-336"><span class="linenos"> 336</span></a>
+</span><span id="L-337"><a href="#L-337"><span class="linenos"> 337</span></a><span class="sd">        Parameters</span>
+</span><span id="L-338"><a href="#L-338"><span class="linenos"> 338</span></a><span class="sd">        ----------</span>
+</span><span id="L-339"><a href="#L-339"><span class="linenos"> 339</span></a><span class="sd">        deltas : list</span>
+</span><span id="L-340"><a href="#L-340"><span class="linenos"> 340</span></a><span class="sd">            List of fluctuations</span>
+</span><span id="L-341"><a href="#L-341"><span class="linenos"> 341</span></a><span class="sd">        idx : list</span>
+</span><span id="L-342"><a href="#L-342"><span class="linenos"> 342</span></a><span class="sd">            List or range of configurations on which the deltas are defined.</span>
+</span><span id="L-343"><a href="#L-343"><span class="linenos"> 343</span></a><span class="sd">        shape : int</span>
+</span><span id="L-344"><a href="#L-344"><span class="linenos"> 344</span></a><span class="sd">            Number of configurations in idx.</span>
+</span><span id="L-345"><a href="#L-345"><span class="linenos"> 345</span></a><span class="sd">        w_max : int</span>
+</span><span id="L-346"><a href="#L-346"><span class="linenos"> 346</span></a><span class="sd">            Upper bound for the summation window.</span>
+</span><span id="L-347"><a href="#L-347"><span class="linenos"> 347</span></a><span class="sd">        fft : bool</span>
+</span><span id="L-348"><a href="#L-348"><span class="linenos"> 348</span></a><span class="sd">            determines whether the fft algorithm is used for the computation</span>
+</span><span id="L-349"><a href="#L-349"><span class="linenos"> 349</span></a><span class="sd">            of the autocorrelation function.</span>
+</span><span id="L-350"><a href="#L-350"><span class="linenos"> 350</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-351"><a href="#L-351"><span class="linenos"> 351</span></a>        <span class="n">gamma</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="L-352"><a href="#L-352"><span class="linenos"> 352</span></a>        <span class="n">deltas</span> <span class="o">=</span> <span class="n">_expand_deltas</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">shape</span><span class="p">)</span>
+</span><span id="L-353"><a href="#L-353"><span class="linenos"> 353</span></a>        <span class="n">new_shape</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span>
+</span><span id="L-354"><a href="#L-354"><span class="linenos"> 354</span></a>        <span class="k">if</span> <span class="n">fft</span><span class="p">:</span>
+</span><span id="L-355"><a href="#L-355"><span class="linenos"> 355</span></a>            <span class="n">max_gamma</span> <span class="o">=</span> <span class="nb">min</span><span class="p">(</span><span class="n">new_shape</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span>
+</span><span id="L-356"><a href="#L-356"><span class="linenos"> 356</span></a>            <span class="c1"># The padding for the fft has to be even</span>
+</span><span id="L-357"><a href="#L-357"><span class="linenos"> 357</span></a>            <span class="n">padding</span> <span class="o">=</span> <span class="n">new_shape</span> <span class="o">+</span> <span class="n">max_gamma</span> <span class="o">+</span> <span class="p">(</span><span class="n">new_shape</span> <span class="o">+</span> <span class="n">max_gamma</span><span class="p">)</span> <span class="o">%</span> <span class="mi">2</span>
+</span><span id="L-358"><a href="#L-358"><span class="linenos"> 358</span></a>            <span class="n">gamma</span><span class="p">[:</span><span class="n">max_gamma</span><span class="p">]</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">fft</span><span class="o">.</span><span class="n">irfft</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">fft</span><span class="o">.</span><span class="n">rfft</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">padding</span><span class="p">))</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)[:</span><span class="n">max_gamma</span><span class="p">]</span>
+</span><span id="L-359"><a href="#L-359"><span class="linenos"> 359</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-360"><a href="#L-360"><span class="linenos"> 360</span></a>            <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">w_max</span><span class="p">):</span>
+</span><span id="L-361"><a href="#L-361"><span class="linenos"> 361</span></a>                <span class="k">if</span> <span class="n">new_shape</span> <span class="o">-</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-362"><a href="#L-362"><span class="linenos"> 362</span></a>                    <span class="n">gamma</span><span class="p">[</span><span class="n">n</span><span class="p">]</span> <span class="o">+=</span> <span class="n">deltas</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span><span class="n">new_shape</span> <span class="o">-</span> <span class="n">n</span><span class="p">]</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">n</span><span class="p">:</span><span class="n">new_shape</span><span class="p">])</span>
+</span><span id="L-363"><a href="#L-363"><span class="linenos"> 363</span></a>
+</span><span id="L-364"><a href="#L-364"><span class="linenos"> 364</span></a>        <span class="k">return</span> <span class="n">gamma</span>
+</span><span id="L-365"><a href="#L-365"><span class="linenos"> 365</span></a>
+</span><span id="L-366"><a href="#L-366"><span class="linenos"> 366</span></a>    <span class="k">def</span> <span class="nf">details</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">ens_content</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="L-367"><a href="#L-367"><span class="linenos"> 367</span></a>        <span class="sd">&quot;&quot;&quot;Output detailed properties of the Obs.</span>
+</span><span id="L-368"><a href="#L-368"><span class="linenos"> 368</span></a>
+</span><span id="L-369"><a href="#L-369"><span class="linenos"> 369</span></a><span class="sd">        Parameters</span>
+</span><span id="L-370"><a href="#L-370"><span class="linenos"> 370</span></a><span class="sd">        ----------</span>
+</span><span id="L-371"><a href="#L-371"><span class="linenos"> 371</span></a><span class="sd">        ens_content : bool</span>
+</span><span id="L-372"><a href="#L-372"><span class="linenos"> 372</span></a><span class="sd">            print details about the ensembles and replica if true.</span>
+</span><span id="L-373"><a href="#L-373"><span class="linenos"> 373</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-374"><a href="#L-374"><span class="linenos"> 374</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-375"><a href="#L-375"><span class="linenos"> 375</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Description:&quot;</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
+</span><span id="L-376"><a href="#L-376"><span class="linenos"> 376</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="L-377"><a href="#L-377"><span class="linenos"> 377</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Result</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">))</span>
+</span><span id="L-378"><a href="#L-378"><span class="linenos"> 378</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-379"><a href="#L-379"><span class="linenos"> 379</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="L-380"><a href="#L-380"><span class="linenos"> 380</span></a>                <span class="n">percentage</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">nan</span>
+</span><span id="L-381"><a href="#L-381"><span class="linenos"> 381</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-382"><a href="#L-382"><span class="linenos"> 382</span></a>                <span class="n">percentage</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">*</span> <span class="mi">100</span>
+</span><span id="L-383"><a href="#L-383"><span class="linenos"> 383</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Result</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> (</span><span class="si">%3.3f%%</span><span class="s1">)&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span><span class="p">,</span> <span class="n">percentage</span><span class="p">))</span>
+</span><span id="L-384"><a href="#L-384"><span class="linenos"> 384</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-385"><a href="#L-385"><span class="linenos"> 385</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; Ensemble errors:&#39;</span><span class="p">)</span>
+</span><span id="L-386"><a href="#L-386"><span class="linenos"> 386</span></a>            <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
+</span><span id="L-387"><a href="#L-387"><span class="linenos"> 387</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-388"><a href="#L-388"><span class="linenos"> 388</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="L-389"><a href="#L-389"><span class="linenos"> 389</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-390"><a href="#L-390"><span class="linenos"> 390</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; t_int</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> tau_exp = </span><span class="si">%3.2f</span><span class="s1">,  N_sigma = </span><span class="si">%1.0i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="L-391"><a href="#L-391"><span class="linenos"> 391</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-392"><a href="#L-392"><span class="linenos"> 392</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; t_int</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> S = </span><span class="si">%3.2f</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="L-393"><a href="#L-393"><span class="linenos"> 393</span></a>            <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="L-394"><a href="#L-394"><span class="linenos"> 394</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="L-395"><a href="#L-395"><span class="linenos"> 395</span></a>        <span class="k">if</span> <span class="n">ens_content</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-396"><a href="#L-396"><span class="linenos"> 396</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-397"><a href="#L-397"><span class="linenos"> 397</span></a>                <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="s1">&#39;samples in&#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">),</span> <span class="s1">&#39;ensemble:&#39;</span><span class="p">)</span>
+</span><span id="L-398"><a href="#L-398"><span class="linenos"> 398</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-399"><a href="#L-399"><span class="linenos"> 399</span></a>                <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="s1">&#39;samples in&#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">),</span> <span class="s1">&#39;ensembles:&#39;</span><span class="p">)</span>
+</span><span id="L-400"><a href="#L-400"><span class="linenos"> 400</span></a>            <span class="n">my_string_list</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-401"><a href="#L-401"><span class="linenos"> 401</span></a>            <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">items</span><span class="p">()):</span>
+</span><span id="L-402"><a href="#L-402"><span class="linenos"> 402</span></a>                <span class="k">if</span> <span class="n">key</span> <span class="ow">not</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="p">:</span>
+</span><span id="L-403"><a href="#L-403"><span class="linenos"> 403</span></a>                    <span class="n">my_string</span> <span class="o">=</span> <span class="s1">&#39;  &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Ensemble &#39;&quot;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
+</span><span id="L-404"><a href="#L-404"><span class="linenos"> 404</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">value</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-405"><a href="#L-405"><span class="linenos"> 405</span></a>                        <span class="n">my_string</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39;: </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="si">}</span><span class="s1"> configurations&#39;</span>
+</span><span id="L-406"><a href="#L-406"><span class="linenos"> 406</span></a>                        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]],</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="L-407"><a href="#L-407"><span class="linenos"> 407</span></a>                            <span class="n">my_string</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39; (from </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">start</span><span class="si">}</span><span class="s1"> to </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="sa">f</span><span class="s1">&#39; in steps of </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">step</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;)&#39;</span>
+</span><span id="L-408"><a href="#L-408"><span class="linenos"> 408</span></a>                        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-409"><a href="#L-409"><span class="linenos"> 409</span></a>                            <span class="n">my_string</span> <span class="o">+=</span> <span class="s1">&#39; (irregular range)&#39;</span>
+</span><span id="L-410"><a href="#L-410"><span class="linenos"> 410</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-411"><a href="#L-411"><span class="linenos"> 411</span></a>                        <span class="n">sublist</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-412"><a href="#L-412"><span class="linenos"> 412</span></a>                        <span class="k">for</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">value</span><span class="p">:</span>
+</span><span id="L-413"><a href="#L-413"><span class="linenos"> 413</span></a>                            <span class="n">my_substring</span> <span class="o">=</span> <span class="s1">&#39;    &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Replicum &#39;&quot;</span> <span class="o">+</span> <span class="n">v</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">key</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
+</span><span id="L-414"><a href="#L-414"><span class="linenos"> 414</span></a>                            <span class="n">my_substring</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39;: </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="si">}</span><span class="s1"> configurations&#39;</span>
+</span><span id="L-415"><a href="#L-415"><span class="linenos"> 415</span></a>                            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">],</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="L-416"><a href="#L-416"><span class="linenos"> 416</span></a>                                <span class="n">my_substring</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39; (from </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">start</span><span class="si">}</span><span class="s1"> to </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="sa">f</span><span class="s1">&#39; in steps of </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">step</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;)&#39;</span>
+</span><span id="L-417"><a href="#L-417"><span class="linenos"> 417</span></a>                            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-418"><a href="#L-418"><span class="linenos"> 418</span></a>                                <span class="n">my_substring</span> <span class="o">+=</span> <span class="s1">&#39; (irregular range)&#39;</span>
+</span><span id="L-419"><a href="#L-419"><span class="linenos"> 419</span></a>                            <span class="n">sublist</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">my_substring</span><span class="p">)</span>
+</span><span id="L-420"><a href="#L-420"><span class="linenos"> 420</span></a>
+</span><span id="L-421"><a href="#L-421"><span class="linenos"> 421</span></a>                        <span class="n">my_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sublist</span><span class="p">)</span>
+</span><span id="L-422"><a href="#L-422"><span class="linenos"> 422</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-423"><a href="#L-423"><span class="linenos"> 423</span></a>                    <span class="n">my_string</span> <span class="o">=</span> <span class="s1">&#39;  &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Covobs   &#39;&quot;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
+</span><span id="L-424"><a href="#L-424"><span class="linenos"> 424</span></a>                <span class="n">my_string_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">my_string</span><span class="p">)</span>
+</span><span id="L-425"><a href="#L-425"><span class="linenos"> 425</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">my_string_list</span><span class="p">))</span>
+</span><span id="L-426"><a href="#L-426"><span class="linenos"> 426</span></a>
+</span><span id="L-427"><a href="#L-427"><span class="linenos"> 427</span></a>    <span class="k">def</span> <span class="nf">is_zero_within_error</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">sigma</span><span class="o">=</span><span class="mi">1</span><span class="p">):</span>
+</span><span id="L-428"><a href="#L-428"><span class="linenos"> 428</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether the observable is zero within &#39;sigma&#39; standard errors.</span>
+</span><span id="L-429"><a href="#L-429"><span class="linenos"> 429</span></a>
+</span><span id="L-430"><a href="#L-430"><span class="linenos"> 430</span></a><span class="sd">        Parameters</span>
+</span><span id="L-431"><a href="#L-431"><span class="linenos"> 431</span></a><span class="sd">        ----------</span>
+</span><span id="L-432"><a href="#L-432"><span class="linenos"> 432</span></a><span class="sd">        sigma : int</span>
+</span><span id="L-433"><a href="#L-433"><span class="linenos"> 433</span></a><span class="sd">            Number of standard errors used for the check.</span>
+</span><span id="L-434"><a href="#L-434"><span class="linenos"> 434</span></a>
+</span><span id="L-435"><a href="#L-435"><span class="linenos"> 435</span></a><span class="sd">        Works only properly when the gamma method was run.</span>
+</span><span id="L-436"><a href="#L-436"><span class="linenos"> 436</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-437"><a href="#L-437"><span class="linenos"> 437</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span> <span class="ow">or</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="n">sigma</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
+</span><span id="L-438"><a href="#L-438"><span class="linenos"> 438</span></a>
+</span><span id="L-439"><a href="#L-439"><span class="linenos"> 439</span></a>    <span class="k">def</span> <span class="nf">is_zero</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">atol</span><span class="o">=</span><span class="mf">1e-10</span><span class="p">):</span>
+</span><span id="L-440"><a href="#L-440"><span class="linenos"> 440</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether the observable is zero within a given tolerance.</span>
+</span><span id="L-441"><a href="#L-441"><span class="linenos"> 441</span></a>
+</span><span id="L-442"><a href="#L-442"><span class="linenos"> 442</span></a><span class="sd">        Parameters</span>
+</span><span id="L-443"><a href="#L-443"><span class="linenos"> 443</span></a><span class="sd">        ----------</span>
+</span><span id="L-444"><a href="#L-444"><span class="linenos"> 444</span></a><span class="sd">        atol : float</span>
+</span><span id="L-445"><a href="#L-445"><span class="linenos"> 445</span></a><span class="sd">            Absolute tolerance (for details see numpy documentation).</span>
+</span><span id="L-446"><a href="#L-446"><span class="linenos"> 446</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-447"><a href="#L-447"><span class="linenos"> 447</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">delta</span><span class="p">,</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="k">for</span> <span class="n">delta</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">values</span><span class="p">())</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">delta</span><span class="o">.</span><span class="n">errsq</span><span class="p">(),</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="k">for</span> <span class="n">delta</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">values</span><span class="p">())</span>
+</span><span id="L-448"><a href="#L-448"><span class="linenos"> 448</span></a>
+</span><span id="L-449"><a href="#L-449"><span class="linenos"> 449</span></a>    <span class="k">def</span> <span class="nf">plot_tauint</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-450"><a href="#L-450"><span class="linenos"> 450</span></a>        <span class="sd">&quot;&quot;&quot;Plot integrated autocorrelation time for each ensemble.</span>
+</span><span id="L-451"><a href="#L-451"><span class="linenos"> 451</span></a>
+</span><span id="L-452"><a href="#L-452"><span class="linenos"> 452</span></a><span class="sd">        Parameters</span>
+</span><span id="L-453"><a href="#L-453"><span class="linenos"> 453</span></a><span class="sd">        ----------</span>
+</span><span id="L-454"><a href="#L-454"><span class="linenos"> 454</span></a><span class="sd">        save : str</span>
+</span><span id="L-455"><a href="#L-455"><span class="linenos"> 455</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
+</span><span id="L-456"><a href="#L-456"><span class="linenos"> 456</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-457"><a href="#L-457"><span class="linenos"> 457</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="L-458"><a href="#L-458"><span class="linenos"> 458</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="L-459"><a href="#L-459"><span class="linenos"> 459</span></a>
+</span><span id="L-460"><a href="#L-460"><span class="linenos"> 460</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="L-461"><a href="#L-461"><span class="linenos"> 461</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="L-462"><a href="#L-462"><span class="linenos"> 462</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$W$&#39;</span><span class="p">)</span>
+</span><span id="L-463"><a href="#L-463"><span class="linenos"> 463</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$\tau_\mathrm</span><span class="si">{int}</span><span class="s1">$&#39;</span><span class="p">)</span>
+</span><span id="L-464"><a href="#L-464"><span class="linenos"> 464</span></a>            <span class="n">length</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="L-465"><a href="#L-465"><span class="linenos"> 465</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-466"><a href="#L-466"><span class="linenos"> 466</span></a>                <span class="n">base</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]]</span>
+</span><span id="L-467"><a href="#L-467"><span class="linenos"> 467</span></a>                <span class="n">x_help</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span>
+</span><span id="L-468"><a href="#L-468"><span class="linenos"> 468</span></a>                <span class="n">y_help</span> <span class="o">=</span> <span class="p">(</span><span class="n">x_help</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">x_help</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)))</span> <span class="o">+</span> <span class="n">base</span>
+</span><span id="L-469"><a href="#L-469"><span class="linenos"> 469</span></a>                <span class="n">x_arr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span>
+</span><span id="L-470"><a href="#L-470"><span class="linenos"> 470</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_arr</span><span class="p">,</span> <span class="n">y_help</span><span class="p">,</span> <span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="L-471"><a href="#L-471"><span class="linenos"> 471</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span>
+</span><span id="L-472"><a href="#L-472"><span class="linenos"> 472</span></a>                             <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">,</span> <span class="n">mfc</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;axes.facecolor&#39;</span><span class="p">])</span>
+</span><span id="L-473"><a href="#L-473"><span class="linenos"> 473</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mf">1.5</span>
+</span><span id="L-474"><a href="#L-474"><span class="linenos"> 474</span></a>                <span class="n">label</span> <span class="o">=</span> <span class="n">e_name</span> <span class="o">+</span> <span class="sa">r</span><span class="s1">&#39;, $\tau_\mathrm</span><span class="si">{exp}</span><span class="s1">$=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">))</span>
+</span><span id="L-475"><a href="#L-475"><span class="linenos"> 475</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-476"><a href="#L-476"><span class="linenos"> 476</span></a>                <span class="n">label</span> <span class="o">=</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;, S=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">))</span>
+</span><span id="L-477"><a href="#L-477"><span class="linenos"> 477</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="mf">10.5</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
+</span><span id="L-478"><a href="#L-478"><span class="linenos"> 478</span></a>
+</span><span id="L-479"><a href="#L-479"><span class="linenos"> 479</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">length</span><span class="p">)[:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="n">label</span><span class="p">)</span>
+</span><span id="L-480"><a href="#L-480"><span class="linenos"> 480</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">)</span>
+</span><span id="L-481"><a href="#L-481"><span class="linenos"> 481</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
+</span><span id="L-482"><a href="#L-482"><span class="linenos"> 482</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">)</span>
+</span><span id="L-483"><a href="#L-483"><span class="linenos"> 483</span></a>            <span class="n">ylim</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">()</span>
+</span><span id="L-484"><a href="#L-484"><span class="linenos"> 484</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">(</span><span class="n">bottom</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="nb">max</span><span class="p">(</span><span class="mf">1.0</span><span class="p">,</span> <span class="n">ylim</span><span class="p">[</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-485"><a href="#L-485"><span class="linenos"> 485</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="L-486"><a href="#L-486"><span class="linenos"> 486</span></a>            <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
+</span><span id="L-487"><a href="#L-487"><span class="linenos"> 487</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span> <span class="o">+</span> <span class="s2">&quot;_&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
+</span><span id="L-488"><a href="#L-488"><span class="linenos"> 488</span></a>
+</span><span id="L-489"><a href="#L-489"><span class="linenos"> 489</span></a>    <span class="k">def</span> <span class="nf">plot_rho</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-490"><a href="#L-490"><span class="linenos"> 490</span></a>        <span class="sd">&quot;&quot;&quot;Plot normalized autocorrelation function time for each ensemble.</span>
+</span><span id="L-491"><a href="#L-491"><span class="linenos"> 491</span></a>
+</span><span id="L-492"><a href="#L-492"><span class="linenos"> 492</span></a><span class="sd">        Parameters</span>
+</span><span id="L-493"><a href="#L-493"><span class="linenos"> 493</span></a><span class="sd">        ----------</span>
+</span><span id="L-494"><a href="#L-494"><span class="linenos"> 494</span></a><span class="sd">        save : str</span>
+</span><span id="L-495"><a href="#L-495"><span class="linenos"> 495</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
+</span><span id="L-496"><a href="#L-496"><span class="linenos"> 496</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-497"><a href="#L-497"><span class="linenos"> 497</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="L-498"><a href="#L-498"><span class="linenos"> 498</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="L-499"><a href="#L-499"><span class="linenos"> 499</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="L-500"><a href="#L-500"><span class="linenos"> 500</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="L-501"><a href="#L-501"><span class="linenos"> 501</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;W&#39;</span><span class="p">)</span>
+</span><span id="L-502"><a href="#L-502"><span class="linenos"> 502</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;rho&#39;</span><span class="p">)</span>
+</span><span id="L-503"><a href="#L-503"><span class="linenos"> 503</span></a>            <span class="n">length</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="L-504"><a href="#L-504"><span class="linenos"> 504</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">length</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="n">length</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:],</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
+</span><span id="L-505"><a href="#L-505"><span class="linenos"> 505</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.25</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="L-506"><a href="#L-506"><span class="linenos"> 506</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-507"><a href="#L-507"><span class="linenos"> 507</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span>
+</span><span id="L-508"><a href="#L-508"><span class="linenos"> 508</span></a>                         <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="mi">0</span><span class="p">],</span> <span class="s1">&#39;k-&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="L-509"><a href="#L-509"><span class="linenos"> 509</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mf">1.5</span>
+</span><span id="L-510"><a href="#L-510"><span class="linenos"> 510</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Rho &#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="sa">r</span><span class="s1">&#39;, tau\_exp=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">)))</span>
+</span><span id="L-511"><a href="#L-511"><span class="linenos"> 511</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-512"><a href="#L-512"><span class="linenos"> 512</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="mf">10.5</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
+</span><span id="L-513"><a href="#L-513"><span class="linenos"> 513</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Rho &#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;, S=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">)))</span>
+</span><span id="L-514"><a href="#L-514"><span class="linenos"> 514</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">([</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="s1">&#39;k--&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="L-515"><a href="#L-515"><span class="linenos"> 515</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">)</span>
+</span><span id="L-516"><a href="#L-516"><span class="linenos"> 516</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="L-517"><a href="#L-517"><span class="linenos"> 517</span></a>            <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
+</span><span id="L-518"><a href="#L-518"><span class="linenos"> 518</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span> <span class="o">+</span> <span class="s2">&quot;_&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
+</span><span id="L-519"><a href="#L-519"><span class="linenos"> 519</span></a>
+</span><span id="L-520"><a href="#L-520"><span class="linenos"> 520</span></a>    <span class="k">def</span> <span class="nf">plot_rep_dist</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-521"><a href="#L-521"><span class="linenos"> 521</span></a>        <span class="sd">&quot;&quot;&quot;Plot replica distribution for each ensemble with more than one replicum.&quot;&quot;&quot;</span>
+</span><span id="L-522"><a href="#L-522"><span class="linenos"> 522</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="L-523"><a href="#L-523"><span class="linenos"> 523</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="L-524"><a href="#L-524"><span class="linenos"> 524</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="L-525"><a href="#L-525"><span class="linenos"> 525</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-526"><a href="#L-526"><span class="linenos"> 526</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;No replica distribution for a single replicum (&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;)&#39;</span><span class="p">)</span>
+</span><span id="L-527"><a href="#L-527"><span class="linenos"> 527</span></a>                <span class="k">continue</span>
+</span><span id="L-528"><a href="#L-528"><span class="linenos"> 528</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-529"><a href="#L-529"><span class="linenos"> 529</span></a>            <span class="n">sub_r_mean</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-530"><a href="#L-530"><span class="linenos"> 530</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
+</span><span id="L-531"><a href="#L-531"><span class="linenos"> 531</span></a>                <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
+</span><span id="L-532"><a href="#L-532"><span class="linenos"> 532</span></a>                <span class="n">sub_r_mean</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span>
+</span><span id="L-533"><a href="#L-533"><span class="linenos"> 533</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span>
+</span><span id="L-534"><a href="#L-534"><span class="linenos"> 534</span></a>            <span class="n">sub_r_mean</span> <span class="o">/=</span> <span class="n">e_N</span>
+</span><span id="L-535"><a href="#L-535"><span class="linenos"> 535</span></a>            <span class="n">arr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="L-536"><a href="#L-536"><span class="linenos"> 536</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
+</span><span id="L-537"><a href="#L-537"><span class="linenos"> 537</span></a>                <span class="n">arr</span><span class="p">[</span><span class="n">r</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">-</span> <span class="n">sub_r_mean</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">e_N</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-538"><a href="#L-538"><span class="linenos"> 538</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">hist</span><span class="p">(</span><span class="n">arr</span><span class="p">,</span> <span class="n">rwidth</span><span class="o">=</span><span class="mf">0.8</span><span class="p">,</span> <span class="n">bins</span><span class="o">=</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="L-539"><a href="#L-539"><span class="linenos"> 539</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Replica distribution&#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39; (mean=0, var=1)&#39;</span><span class="p">)</span>
+</span><span id="L-540"><a href="#L-540"><span class="linenos"> 540</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="L-541"><a href="#L-541"><span class="linenos"> 541</span></a>
+</span><span id="L-542"><a href="#L-542"><span class="linenos"> 542</span></a>    <span class="k">def</span> <span class="nf">plot_history</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">expand</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="L-543"><a href="#L-543"><span class="linenos"> 543</span></a>        <span class="sd">&quot;&quot;&quot;Plot derived Monte Carlo history for each ensemble</span>
+</span><span id="L-544"><a href="#L-544"><span class="linenos"> 544</span></a>
+</span><span id="L-545"><a href="#L-545"><span class="linenos"> 545</span></a><span class="sd">        Parameters</span>
+</span><span id="L-546"><a href="#L-546"><span class="linenos"> 546</span></a><span class="sd">        ----------</span>
+</span><span id="L-547"><a href="#L-547"><span class="linenos"> 547</span></a><span class="sd">        expand : bool</span>
+</span><span id="L-548"><a href="#L-548"><span class="linenos"> 548</span></a><span class="sd">            show expanded history for irregular Monte Carlo chains (default: True).</span>
+</span><span id="L-549"><a href="#L-549"><span class="linenos"> 549</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-550"><a href="#L-550"><span class="linenos"> 550</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="L-551"><a href="#L-551"><span class="linenos"> 551</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="L-552"><a href="#L-552"><span class="linenos"> 552</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-553"><a href="#L-553"><span class="linenos"> 553</span></a>            <span class="n">tmp</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-554"><a href="#L-554"><span class="linenos"> 554</span></a>            <span class="n">tmp_expanded</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-555"><a href="#L-555"><span class="linenos"> 555</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
+</span><span id="L-556"><a href="#L-556"><span class="linenos"> 556</span></a>                <span class="n">tmp</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
+</span><span id="L-557"><a href="#L-557"><span class="linenos"> 557</span></a>                <span class="k">if</span> <span class="n">expand</span><span class="p">:</span>
+</span><span id="L-558"><a href="#L-558"><span class="linenos"> 558</span></a>                    <span class="n">tmp_expanded</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_expand_deltas</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]),</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
+</span><span id="L-559"><a href="#L-559"><span class="linenos"> 559</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp_expanded</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-560"><a href="#L-560"><span class="linenos"> 560</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-561"><a href="#L-561"><span class="linenos"> 561</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="L-562"><a href="#L-562"><span class="linenos"> 562</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span>
+</span><span id="L-563"><a href="#L-563"><span class="linenos"> 563</span></a>            <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">e_N</span><span class="p">)</span>
+</span><span id="L-564"><a href="#L-564"><span class="linenos"> 564</span></a>            <span class="n">y_test</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="L-565"><a href="#L-565"><span class="linenos"> 565</span></a>            <span class="k">if</span> <span class="n">expand</span><span class="p">:</span>
+</span><span id="L-566"><a href="#L-566"><span class="linenos"> 566</span></a>                <span class="n">y</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">tmp_expanded</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="L-567"><a href="#L-567"><span class="linenos"> 567</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-568"><a href="#L-568"><span class="linenos"> 568</span></a>                <span class="n">y</span> <span class="o">=</span> <span class="n">y_test</span>
+</span><span id="L-569"><a href="#L-569"><span class="linenos"> 569</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;.&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">3</span><span class="p">)</span>
+</span><span id="L-570"><a href="#L-570"><span class="linenos"> 570</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">e_N</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
+</span><span id="L-571"><a href="#L-571"><span class="linenos"> 571</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">e_name</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">skew: </span><span class="si">{</span><span class="n">skew</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1"> (p=</span><span class="si">{</span><span class="n">skewtest</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="o">.</span><span class="n">pvalue</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1">), kurtosis: </span><span class="si">{</span><span class="n">kurtosis</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1"> (p=</span><span class="si">{</span><span class="n">kurtosistest</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="o">.</span><span class="n">pvalue</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1">)&#39;</span><span class="p">)</span>
+</span><span id="L-572"><a href="#L-572"><span class="linenos"> 572</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="L-573"><a href="#L-573"><span class="linenos"> 573</span></a>
+</span><span id="L-574"><a href="#L-574"><span class="linenos"> 574</span></a>    <span class="k">def</span> <span class="nf">plot_piechart</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-575"><a href="#L-575"><span class="linenos"> 575</span></a>        <span class="sd">&quot;&quot;&quot;Plot piechart which shows the fractional contribution of each</span>
+</span><span id="L-576"><a href="#L-576"><span class="linenos"> 576</span></a><span class="sd">        ensemble to the error and returns a dictionary containing the fractions.</span>
+</span><span id="L-577"><a href="#L-577"><span class="linenos"> 577</span></a>
+</span><span id="L-578"><a href="#L-578"><span class="linenos"> 578</span></a><span class="sd">        Parameters</span>
+</span><span id="L-579"><a href="#L-579"><span class="linenos"> 579</span></a><span class="sd">        ----------</span>
+</span><span id="L-580"><a href="#L-580"><span class="linenos"> 580</span></a><span class="sd">        save : str</span>
+</span><span id="L-581"><a href="#L-581"><span class="linenos"> 581</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
+</span><span id="L-582"><a href="#L-582"><span class="linenos"> 582</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-583"><a href="#L-583"><span class="linenos"> 583</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="L-584"><a href="#L-584"><span class="linenos"> 584</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="L-585"><a href="#L-585"><span class="linenos"> 585</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">,</span> <span class="n">atol</span><span class="o">=</span><span class="mf">1e-15</span><span class="p">):</span>
+</span><span id="L-586"><a href="#L-586"><span class="linenos"> 586</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error is 0.0&#39;</span><span class="p">)</span>
+</span><span id="L-587"><a href="#L-587"><span class="linenos"> 587</span></a>        <span class="n">labels</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_names</span>
+</span><span id="L-588"><a href="#L-588"><span class="linenos"> 588</span></a>        <span class="n">sizes</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">labels</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="L-589"><a href="#L-589"><span class="linenos"> 589</span></a>        <span class="n">fig1</span><span class="p">,</span> <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplots</span><span class="p">()</span>
+</span><span id="L-590"><a href="#L-590"><span class="linenos"> 590</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">pie</span><span class="p">(</span><span class="n">sizes</span><span class="p">,</span> <span class="n">labels</span><span class="o">=</span><span class="n">labels</span><span class="p">,</span> <span class="n">startangle</span><span class="o">=</span><span class="mi">90</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="L-591"><a href="#L-591"><span class="linenos"> 591</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">axis</span><span class="p">(</span><span class="s1">&#39;equal&#39;</span><span class="p">)</span>
+</span><span id="L-592"><a href="#L-592"><span class="linenos"> 592</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="L-593"><a href="#L-593"><span class="linenos"> 593</span></a>        <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
+</span><span id="L-594"><a href="#L-594"><span class="linenos"> 594</span></a>            <span class="n">fig1</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span><span class="p">)</span>
+</span><span id="L-595"><a href="#L-595"><span class="linenos"> 595</span></a>
+</span><span id="L-596"><a href="#L-596"><span class="linenos"> 596</span></a>        <span class="k">return</span> <span class="nb">dict</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">,</span> <span class="n">sizes</span><span class="p">))</span>
+</span><span id="L-597"><a href="#L-597"><span class="linenos"> 597</span></a>
+</span><span id="L-598"><a href="#L-598"><span class="linenos"> 598</span></a>    <span class="k">def</span> <span class="nf">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="n">datatype</span><span class="o">=</span><span class="s2">&quot;json.gz&quot;</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s2">&quot;&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-599"><a href="#L-599"><span class="linenos"> 599</span></a>        <span class="sd">&quot;&quot;&quot;Dump the Obs to a file &#39;name&#39; of chosen format.</span>
+</span><span id="L-600"><a href="#L-600"><span class="linenos"> 600</span></a>
+</span><span id="L-601"><a href="#L-601"><span class="linenos"> 601</span></a><span class="sd">        Parameters</span>
+</span><span id="L-602"><a href="#L-602"><span class="linenos"> 602</span></a><span class="sd">        ----------</span>
+</span><span id="L-603"><a href="#L-603"><span class="linenos"> 603</span></a><span class="sd">        filename : str</span>
+</span><span id="L-604"><a href="#L-604"><span class="linenos"> 604</span></a><span class="sd">            name of the file to be saved.</span>
+</span><span id="L-605"><a href="#L-605"><span class="linenos"> 605</span></a><span class="sd">        datatype : str</span>
+</span><span id="L-606"><a href="#L-606"><span class="linenos"> 606</span></a><span class="sd">            Format of the exported file. Supported formats include</span>
+</span><span id="L-607"><a href="#L-607"><span class="linenos"> 607</span></a><span class="sd">            &quot;json.gz&quot; and &quot;pickle&quot;</span>
+</span><span id="L-608"><a href="#L-608"><span class="linenos"> 608</span></a><span class="sd">        description : str</span>
+</span><span id="L-609"><a href="#L-609"><span class="linenos"> 609</span></a><span class="sd">            Description for output file, only relevant for json.gz format.</span>
+</span><span id="L-610"><a href="#L-610"><span class="linenos"> 610</span></a><span class="sd">        path : str</span>
+</span><span id="L-611"><a href="#L-611"><span class="linenos"> 611</span></a><span class="sd">            specifies a custom path for the file (default &#39;.&#39;)</span>
+</span><span id="L-612"><a href="#L-612"><span class="linenos"> 612</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-613"><a href="#L-613"><span class="linenos"> 613</span></a>        <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-614"><a href="#L-614"><span class="linenos"> 614</span></a>            <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">filename</span>
+</span><span id="L-615"><a href="#L-615"><span class="linenos"> 615</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-616"><a href="#L-616"><span class="linenos"> 616</span></a>            <span class="n">file_name</span> <span class="o">=</span> <span class="n">filename</span>
+</span><span id="L-617"><a href="#L-617"><span class="linenos"> 617</span></a>
+</span><span id="L-618"><a href="#L-618"><span class="linenos"> 618</span></a>        <span class="k">if</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;json.gz&quot;</span><span class="p">:</span>
+</span><span id="L-619"><a href="#L-619"><span class="linenos"> 619</span></a>            <span class="kn">from</span> <span class="nn">.input.json</span> <span class="kn">import</span> <span class="n">dump_to_json</span>
+</span><span id="L-620"><a href="#L-620"><span class="linenos"> 620</span></a>            <span class="n">dump_to_json</span><span class="p">([</span><span class="bp">self</span><span class="p">],</span> <span class="n">file_name</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="n">description</span><span class="p">)</span>
+</span><span id="L-621"><a href="#L-621"><span class="linenos"> 621</span></a>        <span class="k">elif</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;pickle&quot;</span><span class="p">:</span>
+</span><span id="L-622"><a href="#L-622"><span class="linenos"> 622</span></a>            <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">file_name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fb</span><span class="p">:</span>
+</span><span id="L-623"><a href="#L-623"><span class="linenos"> 623</span></a>                <span class="n">pickle</span><span class="o">.</span><span class="n">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">fb</span><span class="p">)</span>
+</span><span id="L-624"><a href="#L-624"><span class="linenos"> 624</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-625"><a href="#L-625"><span class="linenos"> 625</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown datatype &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">datatype</span><span class="p">))</span>
+</span><span id="L-626"><a href="#L-626"><span class="linenos"> 626</span></a>
+</span><span id="L-627"><a href="#L-627"><span class="linenos"> 627</span></a>    <span class="k">def</span> <span class="nf">export_jackknife</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-628"><a href="#L-628"><span class="linenos"> 628</span></a>        <span class="sd">&quot;&quot;&quot;Export jackknife samples from the Obs</span>
+</span><span id="L-629"><a href="#L-629"><span class="linenos"> 629</span></a>
+</span><span id="L-630"><a href="#L-630"><span class="linenos"> 630</span></a><span class="sd">        Returns</span>
+</span><span id="L-631"><a href="#L-631"><span class="linenos"> 631</span></a><span class="sd">        -------</span>
+</span><span id="L-632"><a href="#L-632"><span class="linenos"> 632</span></a><span class="sd">        numpy.ndarray</span>
+</span><span id="L-633"><a href="#L-633"><span class="linenos"> 633</span></a><span class="sd">            Returns a numpy array of length N + 1 where N is the number of samples</span>
+</span><span id="L-634"><a href="#L-634"><span class="linenos"> 634</span></a><span class="sd">            for the given ensemble and replicum. The zeroth entry of the array contains</span>
+</span><span id="L-635"><a href="#L-635"><span class="linenos"> 635</span></a><span class="sd">            the mean value of the Obs, entries 1 to N contain the N jackknife samples</span>
+</span><span id="L-636"><a href="#L-636"><span class="linenos"> 636</span></a><span class="sd">            derived from the Obs. The current implementation only works for observables</span>
+</span><span id="L-637"><a href="#L-637"><span class="linenos"> 637</span></a><span class="sd">            defined on exactly one ensemble and replicum. The derived jackknife samples</span>
+</span><span id="L-638"><a href="#L-638"><span class="linenos"> 638</span></a><span class="sd">            should agree with samples from a full jackknife analysis up to O(1/N).</span>
+</span><span id="L-639"><a href="#L-639"><span class="linenos"> 639</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-640"><a href="#L-640"><span class="linenos"> 640</span></a>
+</span><span id="L-641"><a href="#L-641"><span class="linenos"> 641</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-642"><a href="#L-642"><span class="linenos"> 642</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;export_jackknife&#39; is only implemented for Obs defined on one ensemble and replicum.&quot;</span><span class="p">)</span>
+</span><span id="L-643"><a href="#L-643"><span class="linenos"> 643</span></a>
+</span><span id="L-644"><a href="#L-644"><span class="linenos"> 644</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-645"><a href="#L-645"><span class="linenos"> 645</span></a>        <span class="n">full_data</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-646"><a href="#L-646"><span class="linenos"> 646</span></a>        <span class="n">n</span> <span class="o">=</span> <span class="n">full_data</span><span class="o">.</span><span class="n">size</span>
+</span><span id="L-647"><a href="#L-647"><span class="linenos"> 647</span></a>        <span class="n">mean</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span>
+</span><span id="L-648"><a href="#L-648"><span class="linenos"> 648</span></a>        <span class="n">tmp_jacks</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-649"><a href="#L-649"><span class="linenos"> 649</span></a>        <span class="n">tmp_jacks</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="n">mean</span>
+</span><span id="L-650"><a href="#L-650"><span class="linenos"> 650</span></a>        <span class="n">tmp_jacks</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="o">=</span> <span class="p">(</span><span class="n">n</span> <span class="o">*</span> <span class="n">mean</span> <span class="o">-</span> <span class="n">full_data</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">n</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-651"><a href="#L-651"><span class="linenos"> 651</span></a>        <span class="k">return</span> <span class="n">tmp_jacks</span>
+</span><span id="L-652"><a href="#L-652"><span class="linenos"> 652</span></a>
+</span><span id="L-653"><a href="#L-653"><span class="linenos"> 653</span></a>    <span class="k">def</span> <span class="fm">__float__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-654"><a href="#L-654"><span class="linenos"> 654</span></a>        <span class="k">return</span> <span class="nb">float</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
+</span><span id="L-655"><a href="#L-655"><span class="linenos"> 655</span></a>
+</span><span id="L-656"><a href="#L-656"><span class="linenos"> 656</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-657"><a href="#L-657"><span class="linenos"> 657</span></a>        <span class="k">return</span> <span class="s1">&#39;Obs[&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;]&#39;</span>
+</span><span id="L-658"><a href="#L-658"><span class="linenos"> 658</span></a>
+</span><span id="L-659"><a href="#L-659"><span class="linenos"> 659</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-660"><a href="#L-660"><span class="linenos"> 660</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="L-661"><a href="#L-661"><span class="linenos"> 661</span></a>            <span class="k">return</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
+</span><span id="L-662"><a href="#L-662"><span class="linenos"> 662</span></a>        <span class="n">fexp</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">floor</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">log10</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">))</span>
+</span><span id="L-663"><a href="#L-663"><span class="linenos"> 663</span></a>        <span class="k">if</span> <span class="n">fexp</span> <span class="o">&lt;</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="L-664"><a href="#L-664"><span class="linenos"> 664</span></a>            <span class="k">return</span> <span class="s1">&#39;{:</span><span class="si">{form}</span><span class="s1">}(</span><span class="si">{:2.0f}</span><span class="s1">)&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">*</span> <span class="mi">10</span> <span class="o">**</span> <span class="p">(</span><span class="o">-</span><span class="n">fexp</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">form</span><span class="o">=</span><span class="s1">&#39;.&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="o">-</span><span class="nb">int</span><span class="p">(</span><span class="n">fexp</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;f&#39;</span><span class="p">)</span>
+</span><span id="L-665"><a href="#L-665"><span class="linenos"> 665</span></a>        <span class="k">elif</span> <span class="n">fexp</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="L-666"><a href="#L-666"><span class="linenos"> 666</span></a>            <span class="k">return</span> <span class="s1">&#39;</span><span class="si">{:.1f}</span><span class="s1">(</span><span class="si">{:1.1f}</span><span class="s1">)&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
+</span><span id="L-667"><a href="#L-667"><span class="linenos"> 667</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-668"><a href="#L-668"><span class="linenos"> 668</span></a>            <span class="k">return</span> <span class="s1">&#39;</span><span class="si">{:.0f}</span><span class="s1">(</span><span class="si">{:2.0f}</span><span class="s1">)&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
+</span><span id="L-669"><a href="#L-669"><span class="linenos"> 669</span></a>
+</span><span id="L-670"><a href="#L-670"><span class="linenos"> 670</span></a>    <span class="c1"># Overload comparisons</span>
+</span><span id="L-671"><a href="#L-671"><span class="linenos"> 671</span></a>    <span class="k">def</span> <span class="fm">__lt__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-672"><a href="#L-672"><span class="linenos"> 672</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&lt;</span> <span class="n">other</span>
+</span><span id="L-673"><a href="#L-673"><span class="linenos"> 673</span></a>
+</span><span id="L-674"><a href="#L-674"><span class="linenos"> 674</span></a>    <span class="k">def</span> <span class="fm">__le__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-675"><a href="#L-675"><span class="linenos"> 675</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&lt;=</span> <span class="n">other</span>
+</span><span id="L-676"><a href="#L-676"><span class="linenos"> 676</span></a>
+</span><span id="L-677"><a href="#L-677"><span class="linenos"> 677</span></a>    <span class="k">def</span> <span class="fm">__gt__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-678"><a href="#L-678"><span class="linenos"> 678</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&gt;</span> <span class="n">other</span>
+</span><span id="L-679"><a href="#L-679"><span class="linenos"> 679</span></a>
+</span><span id="L-680"><a href="#L-680"><span class="linenos"> 680</span></a>    <span class="k">def</span> <span class="fm">__ge__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-681"><a href="#L-681"><span class="linenos"> 681</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&gt;=</span> <span class="n">other</span>
+</span><span id="L-682"><a href="#L-682"><span class="linenos"> 682</span></a>
+</span><span id="L-683"><a href="#L-683"><span class="linenos"> 683</span></a>    <span class="k">def</span> <span class="fm">__eq__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-684"><a href="#L-684"><span class="linenos"> 684</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">other</span><span class="p">)</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span>
+</span><span id="L-685"><a href="#L-685"><span class="linenos"> 685</span></a>
+</span><span id="L-686"><a href="#L-686"><span class="linenos"> 686</span></a>    <span class="k">def</span> <span class="fm">__ne__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-687"><a href="#L-687"><span class="linenos"> 687</span></a>        <span class="k">return</span> <span class="ow">not</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">other</span><span class="p">)</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span>
+</span><span id="L-688"><a href="#L-688"><span class="linenos"> 688</span></a>
+</span><span id="L-689"><a href="#L-689"><span class="linenos"> 689</span></a>    <span class="c1"># Overload math operations</span>
+</span><span id="L-690"><a href="#L-690"><span class="linenos"> 690</span></a>    <span class="k">def</span> <span class="fm">__add__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-691"><a href="#L-691"><span class="linenos"> 691</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-692"><a href="#L-692"><span class="linenos"> 692</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="L-693"><a href="#L-693"><span class="linenos"> 693</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-694"><a href="#L-694"><span class="linenos"> 694</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-695"><a href="#L-695"><span class="linenos"> 695</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">+</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="L-696"><a href="#L-696"><span class="linenos"> 696</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
+</span><span id="L-697"><a href="#L-697"><span class="linenos"> 697</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
+</span><span id="L-698"><a href="#L-698"><span class="linenos"> 698</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-699"><a href="#L-699"><span class="linenos"> 699</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-700"><a href="#L-700"><span class="linenos"> 700</span></a>
+</span><span id="L-701"><a href="#L-701"><span class="linenos"> 701</span></a>    <span class="k">def</span> <span class="fm">__radd__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-702"><a href="#L-702"><span class="linenos"> 702</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
+</span><span id="L-703"><a href="#L-703"><span class="linenos"> 703</span></a>
+</span><span id="L-704"><a href="#L-704"><span class="linenos"> 704</span></a>    <span class="k">def</span> <span class="fm">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-705"><a href="#L-705"><span class="linenos"> 705</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-706"><a href="#L-706"><span class="linenos"> 706</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">y</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">])</span>
+</span><span id="L-707"><a href="#L-707"><span class="linenos"> 707</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-708"><a href="#L-708"><span class="linenos"> 708</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-709"><a href="#L-709"><span class="linenos"> 709</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">*</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="L-710"><a href="#L-710"><span class="linenos"> 710</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="nb">complex</span><span class="p">):</span>
+</span><span id="L-711"><a href="#L-711"><span class="linenos"> 711</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span> <span class="o">*</span> <span class="n">y</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">y</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="L-712"><a href="#L-712"><span class="linenos"> 712</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
+</span><span id="L-713"><a href="#L-713"><span class="linenos"> 713</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
+</span><span id="L-714"><a href="#L-714"><span class="linenos"> 714</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-715"><a href="#L-715"><span class="linenos"> 715</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">y</span><span class="p">])</span>
+</span><span id="L-716"><a href="#L-716"><span class="linenos"> 716</span></a>
+</span><span id="L-717"><a href="#L-717"><span class="linenos"> 717</span></a>    <span class="k">def</span> <span class="fm">__rmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-718"><a href="#L-718"><span class="linenos"> 718</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">y</span>
+</span><span id="L-719"><a href="#L-719"><span class="linenos"> 719</span></a>
+</span><span id="L-720"><a href="#L-720"><span class="linenos"> 720</span></a>    <span class="k">def</span> <span class="fm">__sub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-721"><a href="#L-721"><span class="linenos"> 721</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-722"><a href="#L-722"><span class="linenos"> 722</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-723"><a href="#L-723"><span class="linenos"> 723</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-724"><a href="#L-724"><span class="linenos"> 724</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-725"><a href="#L-725"><span class="linenos"> 725</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">-</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="L-726"><a href="#L-726"><span class="linenos"> 726</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
+</span><span id="L-727"><a href="#L-727"><span class="linenos"> 727</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
+</span><span id="L-728"><a href="#L-728"><span class="linenos"> 728</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-729"><a href="#L-729"><span class="linenos"> 729</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="L-730"><a href="#L-730"><span class="linenos"> 730</span></a>
+</span><span id="L-731"><a href="#L-731"><span class="linenos"> 731</span></a>    <span class="k">def</span> <span class="fm">__rsub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-732"><a href="#L-732"><span class="linenos"> 732</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">y</span><span class="p">)</span>
+</span><span id="L-733"><a href="#L-733"><span class="linenos"> 733</span></a>
+</span><span id="L-734"><a href="#L-734"><span class="linenos"> 734</span></a>    <span class="k">def</span> <span class="fm">__pos__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-735"><a href="#L-735"><span class="linenos"> 735</span></a>        <span class="k">return</span> <span class="bp">self</span>
+</span><span id="L-736"><a href="#L-736"><span class="linenos"> 736</span></a>
+</span><span id="L-737"><a href="#L-737"><span class="linenos"> 737</span></a>    <span class="k">def</span> <span class="fm">__neg__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-738"><a href="#L-738"><span class="linenos"> 738</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
+</span><span id="L-739"><a href="#L-739"><span class="linenos"> 739</span></a>
+</span><span id="L-740"><a href="#L-740"><span class="linenos"> 740</span></a>    <span class="k">def</span> <span class="fm">__truediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-741"><a href="#L-741"><span class="linenos"> 741</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-742"><a href="#L-742"><span class="linenos"> 742</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">/</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="L-743"><a href="#L-743"><span class="linenos"> 743</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-744"><a href="#L-744"><span class="linenos"> 744</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-745"><a href="#L-745"><span class="linenos"> 745</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">/</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="L-746"><a href="#L-746"><span class="linenos"> 746</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
+</span><span id="L-747"><a href="#L-747"><span class="linenos"> 747</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
+</span><span id="L-748"><a href="#L-748"><span class="linenos"> 748</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-749"><a href="#L-749"><span class="linenos"> 749</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="L-750"><a href="#L-750"><span class="linenos"> 750</span></a>
+</span><span id="L-751"><a href="#L-751"><span class="linenos"> 751</span></a>    <span class="k">def</span> <span class="fm">__rtruediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-752"><a href="#L-752"><span class="linenos"> 752</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-753"><a href="#L-753"><span class="linenos"> 753</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="n">y</span><span class="p">,</span> <span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="L-754"><a href="#L-754"><span class="linenos"> 754</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-755"><a href="#L-755"><span class="linenos"> 755</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-756"><a href="#L-756"><span class="linenos"> 756</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span> <span class="o">/</span> <span class="bp">self</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="L-757"><a href="#L-757"><span class="linenos"> 757</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
+</span><span id="L-758"><a href="#L-758"><span class="linenos"> 758</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
+</span><span id="L-759"><a href="#L-759"><span class="linenos"> 759</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-760"><a href="#L-760"><span class="linenos"> 760</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">y</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="o">-</span><span class="n">y</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="L-761"><a href="#L-761"><span class="linenos"> 761</span></a>
+</span><span id="L-762"><a href="#L-762"><span class="linenos"> 762</span></a>    <span class="k">def</span> <span class="fm">__pow__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-763"><a href="#L-763"><span class="linenos"> 763</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-764"><a href="#L-764"><span class="linenos"> 764</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">**</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="L-765"><a href="#L-765"><span class="linenos"> 765</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-766"><a href="#L-766"><span class="linenos"> 766</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">**</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="L-767"><a href="#L-767"><span class="linenos"> 767</span></a>
+</span><span id="L-768"><a href="#L-768"><span class="linenos"> 768</span></a>    <span class="k">def</span> <span class="fm">__rpow__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-769"><a href="#L-769"><span class="linenos"> 769</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-770"><a href="#L-770"><span class="linenos"> 770</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">**</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="n">y</span><span class="p">,</span> <span class="bp">self</span><span class="p">])</span>
+</span><span id="L-771"><a href="#L-771"><span class="linenos"> 771</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-772"><a href="#L-772"><span class="linenos"> 772</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">y</span> <span class="o">**</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="L-773"><a href="#L-773"><span class="linenos"> 773</span></a>
+</span><span id="L-774"><a href="#L-774"><span class="linenos"> 774</span></a>    <span class="k">def</span> <span class="fm">__abs__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-775"><a href="#L-775"><span class="linenos"> 775</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="L-776"><a href="#L-776"><span class="linenos"> 776</span></a>
+</span><span id="L-777"><a href="#L-777"><span class="linenos"> 777</span></a>    <span class="c1"># Overload numpy functions</span>
+</span><span id="L-778"><a href="#L-778"><span class="linenos"> 778</span></a>    <span class="k">def</span> <span class="nf">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-779"><a href="#L-779"><span class="linenos"> 779</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="L-780"><a href="#L-780"><span class="linenos"> 780</span></a>
+</span><span id="L-781"><a href="#L-781"><span class="linenos"> 781</span></a>    <span class="k">def</span> <span class="nf">log</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-782"><a href="#L-782"><span class="linenos"> 782</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">])</span>
+</span><span id="L-783"><a href="#L-783"><span class="linenos"> 783</span></a>
+</span><span id="L-784"><a href="#L-784"><span class="linenos"> 784</span></a>    <span class="k">def</span> <span class="nf">exp</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-785"><a href="#L-785"><span class="linenos"> 785</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="L-786"><a href="#L-786"><span class="linenos"> 786</span></a>
+</span><span id="L-787"><a href="#L-787"><span class="linenos"> 787</span></a>    <span class="k">def</span> <span class="nf">sin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-788"><a href="#L-788"><span class="linenos"> 788</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="L-789"><a href="#L-789"><span class="linenos"> 789</span></a>
+</span><span id="L-790"><a href="#L-790"><span class="linenos"> 790</span></a>    <span class="k">def</span> <span class="nf">cos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-791"><a href="#L-791"><span class="linenos"> 791</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="L-792"><a href="#L-792"><span class="linenos"> 792</span></a>
+</span><span id="L-793"><a href="#L-793"><span class="linenos"> 793</span></a>    <span class="k">def</span> <span class="nf">tan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-794"><a href="#L-794"><span class="linenos"> 794</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">tan</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="L-795"><a href="#L-795"><span class="linenos"> 795</span></a>
+</span><span id="L-796"><a href="#L-796"><span class="linenos"> 796</span></a>    <span class="k">def</span> <span class="nf">arcsin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-797"><a href="#L-797"><span class="linenos"> 797</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arcsin</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="L-798"><a href="#L-798"><span class="linenos"> 798</span></a>
+</span><span id="L-799"><a href="#L-799"><span class="linenos"> 799</span></a>    <span class="k">def</span> <span class="nf">arccos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-800"><a href="#L-800"><span class="linenos"> 800</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arccos</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="L-801"><a href="#L-801"><span class="linenos"> 801</span></a>
+</span><span id="L-802"><a href="#L-802"><span class="linenos"> 802</span></a>    <span class="k">def</span> <span class="nf">arctan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-803"><a href="#L-803"><span class="linenos"> 803</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arctan</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="L-804"><a href="#L-804"><span class="linenos"> 804</span></a>
+</span><span id="L-805"><a href="#L-805"><span class="linenos"> 805</span></a>    <span class="k">def</span> <span class="nf">sinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-806"><a href="#L-806"><span class="linenos"> 806</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="L-807"><a href="#L-807"><span class="linenos"> 807</span></a>
+</span><span id="L-808"><a href="#L-808"><span class="linenos"> 808</span></a>    <span class="k">def</span> <span class="nf">cosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-809"><a href="#L-809"><span class="linenos"> 809</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="L-810"><a href="#L-810"><span class="linenos"> 810</span></a>
+</span><span id="L-811"><a href="#L-811"><span class="linenos"> 811</span></a>    <span class="k">def</span> <span class="nf">tanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-812"><a href="#L-812"><span class="linenos"> 812</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">tanh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="L-813"><a href="#L-813"><span class="linenos"> 813</span></a>
+</span><span id="L-814"><a href="#L-814"><span class="linenos"> 814</span></a>    <span class="k">def</span> <span class="nf">arcsinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-815"><a href="#L-815"><span class="linenos"> 815</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arcsinh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="L-816"><a href="#L-816"><span class="linenos"> 816</span></a>
+</span><span id="L-817"><a href="#L-817"><span class="linenos"> 817</span></a>    <span class="k">def</span> <span class="nf">arccosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-818"><a href="#L-818"><span class="linenos"> 818</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arccosh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="L-819"><a href="#L-819"><span class="linenos"> 819</span></a>
+</span><span id="L-820"><a href="#L-820"><span class="linenos"> 820</span></a>    <span class="k">def</span> <span class="nf">arctanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-821"><a href="#L-821"><span class="linenos"> 821</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arctanh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
 </span><span id="L-822"><a href="#L-822"><span class="linenos"> 822</span></a>
-</span><span id="L-823"><a href="#L-823"><span class="linenos"> 823</span></a><span class="k">class</span> <span class="nc">CObs</span><span class="p">:</span>
-</span><span id="L-824"><a href="#L-824"><span class="linenos"> 824</span></a>    <span class="sd">&quot;&quot;&quot;Class for a complex valued observable.&quot;&quot;&quot;</span>
-</span><span id="L-825"><a href="#L-825"><span class="linenos"> 825</span></a>    <span class="vm">__slots__</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;_real&#39;</span><span class="p">,</span> <span class="s1">&#39;_imag&#39;</span><span class="p">,</span> <span class="s1">&#39;tag&#39;</span><span class="p">]</span>
-</span><span id="L-826"><a href="#L-826"><span class="linenos"> 826</span></a>
-</span><span id="L-827"><a href="#L-827"><span class="linenos"> 827</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="o">=</span><span class="mf">0.0</span><span class="p">):</span>
-</span><span id="L-828"><a href="#L-828"><span class="linenos"> 828</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_real</span> <span class="o">=</span> <span class="n">real</span>
-</span><span id="L-829"><a href="#L-829"><span class="linenos"> 829</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_imag</span> <span class="o">=</span> <span class="n">imag</span>
-</span><span id="L-830"><a href="#L-830"><span class="linenos"> 830</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="L-831"><a href="#L-831"><span class="linenos"> 831</span></a>
-</span><span id="L-832"><a href="#L-832"><span class="linenos"> 832</span></a>    <span class="nd">@property</span>
-</span><span id="L-833"><a href="#L-833"><span class="linenos"> 833</span></a>    <span class="k">def</span> <span class="nf">real</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-834"><a href="#L-834"><span class="linenos"> 834</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_real</span>
-</span><span id="L-835"><a href="#L-835"><span class="linenos"> 835</span></a>
-</span><span id="L-836"><a href="#L-836"><span class="linenos"> 836</span></a>    <span class="nd">@property</span>
-</span><span id="L-837"><a href="#L-837"><span class="linenos"> 837</span></a>    <span class="k">def</span> <span class="nf">imag</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-838"><a href="#L-838"><span class="linenos"> 838</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_imag</span>
-</span><span id="L-839"><a href="#L-839"><span class="linenos"> 839</span></a>
-</span><span id="L-840"><a href="#L-840"><span class="linenos"> 840</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-841"><a href="#L-841"><span class="linenos"> 841</span></a>        <span class="sd">&quot;&quot;&quot;Executes the gamma_method for the real and the imaginary part.&quot;&quot;&quot;</span>
-</span><span id="L-842"><a href="#L-842"><span class="linenos"> 842</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-843"><a href="#L-843"><span class="linenos"> 843</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-844"><a href="#L-844"><span class="linenos"> 844</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="L-845"><a href="#L-845"><span class="linenos"> 845</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-846"><a href="#L-846"><span class="linenos"> 846</span></a>
-</span><span id="L-847"><a href="#L-847"><span class="linenos"> 847</span></a>    <span class="k">def</span> <span class="nf">is_zero</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-848"><a href="#L-848"><span class="linenos"> 848</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether both real and imaginary part are zero within machine precision.&quot;&quot;&quot;</span>
-</span><span id="L-849"><a href="#L-849"><span class="linenos"> 849</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">==</span> <span class="mf">0.0</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">==</span> <span class="mf">0.0</span>
-</span><span id="L-850"><a href="#L-850"><span class="linenos"> 850</span></a>
-</span><span id="L-851"><a href="#L-851"><span class="linenos"> 851</span></a>    <span class="k">def</span> <span class="nf">conjugate</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-852"><a href="#L-852"><span class="linenos"> 852</span></a>        <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="L-853"><a href="#L-853"><span class="linenos"> 853</span></a>
-</span><span id="L-854"><a href="#L-854"><span class="linenos"> 854</span></a>    <span class="k">def</span> <span class="fm">__add__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-855"><a href="#L-855"><span class="linenos"> 855</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-856"><a href="#L-856"><span class="linenos"> 856</span></a>            <span class="k">return</span> <span class="n">other</span> <span class="o">+</span> <span class="bp">self</span>
-</span><span id="L-857"><a href="#L-857"><span class="linenos"> 857</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
-</span><span id="L-858"><a href="#L-858"><span class="linenos"> 858</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span>
-</span><span id="L-859"><a href="#L-859"><span class="linenos"> 859</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">+</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="L-860"><a href="#L-860"><span class="linenos"> 860</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-861"><a href="#L-861"><span class="linenos"> 861</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="L-862"><a href="#L-862"><span class="linenos"> 862</span></a>
-</span><span id="L-863"><a href="#L-863"><span class="linenos"> 863</span></a>    <span class="k">def</span> <span class="fm">__radd__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="L-864"><a href="#L-864"><span class="linenos"> 864</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
-</span><span id="L-865"><a href="#L-865"><span class="linenos"> 865</span></a>
-</span><span id="L-866"><a href="#L-866"><span class="linenos"> 866</span></a>    <span class="k">def</span> <span class="fm">__sub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-867"><a href="#L-867"><span class="linenos"> 867</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-868"><a href="#L-868"><span class="linenos"> 868</span></a>            <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="n">other</span> <span class="o">-</span> <span class="bp">self</span><span class="p">)</span>
-</span><span id="L-869"><a href="#L-869"><span class="linenos"> 869</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
-</span><span id="L-870"><a href="#L-870"><span class="linenos"> 870</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">-</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="L-871"><a href="#L-871"><span class="linenos"> 871</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-872"><a href="#L-872"><span class="linenos"> 872</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="L-873"><a href="#L-873"><span class="linenos"> 873</span></a>
-</span><span id="L-874"><a href="#L-874"><span class="linenos"> 874</span></a>    <span class="k">def</span> <span class="fm">__rsub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-875"><a href="#L-875"><span class="linenos"> 875</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">other</span><span class="p">)</span>
-</span><span id="L-876"><a href="#L-876"><span class="linenos"> 876</span></a>
-</span><span id="L-877"><a href="#L-877"><span class="linenos"> 877</span></a>    <span class="k">def</span> <span class="fm">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-878"><a href="#L-878"><span class="linenos"> 878</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-879"><a href="#L-879"><span class="linenos"> 879</span></a>            <span class="k">return</span> <span class="n">other</span> <span class="o">*</span> <span class="bp">self</span>
-</span><span id="L-880"><a href="#L-880"><span class="linenos"> 880</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
-</span><span id="L-881"><a href="#L-881"><span class="linenos"> 881</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">]):</span>
-</span><span id="L-882"><a href="#L-882"><span class="linenos"> 882</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span>
-</span><span id="L-883"><a href="#L-883"><span class="linenos"> 883</span></a>                                               <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span>
-</span><span id="L-884"><a href="#L-884"><span class="linenos"> 884</span></a>                                               <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span><span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">]),</span>
-</span><span id="L-885"><a href="#L-885"><span class="linenos"> 885</span></a>                            <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span>
-</span><span id="L-886"><a href="#L-886"><span class="linenos"> 886</span></a>                                               <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span>
-</span><span id="L-887"><a href="#L-887"><span class="linenos"> 887</span></a>                                               <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">]))</span>
-</span><span id="L-888"><a href="#L-888"><span class="linenos"> 888</span></a>            <span class="k">elif</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-889"><a href="#L-889"><span class="linenos"> 889</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span>
-</span><span id="L-890"><a href="#L-890"><span class="linenos"> 890</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="L-891"><a href="#L-891"><span class="linenos"> 891</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-892"><a href="#L-892"><span class="linenos"> 892</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">)</span>
-</span><span id="L-893"><a href="#L-893"><span class="linenos"> 893</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-894"><a href="#L-894"><span class="linenos"> 894</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="p">)</span>
-</span><span id="L-895"><a href="#L-895"><span class="linenos"> 895</span></a>
-</span><span id="L-896"><a href="#L-896"><span class="linenos"> 896</span></a>    <span class="k">def</span> <span class="fm">__rmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-897"><a href="#L-897"><span class="linenos"> 897</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">other</span>
-</span><span id="L-898"><a href="#L-898"><span class="linenos"> 898</span></a>
-</span><span id="L-899"><a href="#L-899"><span class="linenos"> 899</span></a>    <span class="k">def</span> <span class="fm">__truediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-900"><a href="#L-900"><span class="linenos"> 900</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="L-901"><a href="#L-901"><span class="linenos"> 901</span></a>            <span class="k">return</span> <span class="mi">1</span> <span class="o">/</span> <span class="p">(</span><span class="n">other</span> <span class="o">/</span> <span class="bp">self</span><span class="p">)</span>
-</span><span id="L-902"><a href="#L-902"><span class="linenos"> 902</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
-</span><span id="L-903"><a href="#L-903"><span class="linenos"> 903</span></a>            <span class="n">r</span> <span class="o">=</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="L-904"><a href="#L-904"><span class="linenos"> 904</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">)</span>
-</span><span id="L-905"><a href="#L-905"><span class="linenos"> 905</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-906"><a href="#L-906"><span class="linenos"> 906</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">/</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">/</span> <span class="n">other</span><span class="p">)</span>
-</span><span id="L-907"><a href="#L-907"><span class="linenos"> 907</span></a>
-</span><span id="L-908"><a href="#L-908"><span class="linenos"> 908</span></a>    <span class="k">def</span> <span class="fm">__rtruediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-909"><a href="#L-909"><span class="linenos"> 909</span></a>        <span class="n">r</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="L-910"><a href="#L-910"><span class="linenos"> 910</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
-</span><span id="L-911"><a href="#L-911"><span class="linenos"> 911</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">)</span>
-</span><span id="L-912"><a href="#L-912"><span class="linenos"> 912</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-913"><a href="#L-913"><span class="linenos"> 913</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span> <span class="o">/</span> <span class="n">r</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span> <span class="o">/</span> <span class="n">r</span><span class="p">)</span>
-</span><span id="L-914"><a href="#L-914"><span class="linenos"> 914</span></a>
-</span><span id="L-915"><a href="#L-915"><span class="linenos"> 915</span></a>    <span class="k">def</span> <span class="fm">__abs__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-916"><a href="#L-916"><span class="linenos"> 916</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">**</span><span class="mi">2</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">**</span><span class="mi">2</span><span class="p">)</span>
-</span><span id="L-917"><a href="#L-917"><span class="linenos"> 917</span></a>
-</span><span id="L-918"><a href="#L-918"><span class="linenos"> 918</span></a>    <span class="k">def</span> <span class="fm">__pos__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-919"><a href="#L-919"><span class="linenos"> 919</span></a>        <span class="k">return</span> <span class="bp">self</span>
-</span><span id="L-920"><a href="#L-920"><span class="linenos"> 920</span></a>
-</span><span id="L-921"><a href="#L-921"><span class="linenos"> 921</span></a>    <span class="k">def</span> <span class="fm">__neg__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-922"><a href="#L-922"><span class="linenos"> 922</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
-</span><span id="L-923"><a href="#L-923"><span class="linenos"> 923</span></a>
-</span><span id="L-924"><a href="#L-924"><span class="linenos"> 924</span></a>    <span class="k">def</span> <span class="fm">__eq__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="L-925"><a href="#L-925"><span class="linenos"> 925</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">==</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">==</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span>
-</span><span id="L-926"><a href="#L-926"><span class="linenos"> 926</span></a>
-</span><span id="L-927"><a href="#L-927"><span class="linenos"> 927</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-928"><a href="#L-928"><span class="linenos"> 928</span></a>        <span class="k">return</span> <span class="s1">&#39;(&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">)</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">&gt;=</span> <span class="mf">0.0</span><span class="p">)</span> <span class="o">*</span> <span class="s1">&#39;+&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;j)&#39;</span>
-</span><span id="L-929"><a href="#L-929"><span class="linenos"> 929</span></a>
-</span><span id="L-930"><a href="#L-930"><span class="linenos"> 930</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="L-931"><a href="#L-931"><span class="linenos"> 931</span></a>        <span class="k">return</span> <span class="s1">&#39;CObs[&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;]&#39;</span>
-</span><span id="L-932"><a href="#L-932"><span class="linenos"> 932</span></a>
+</span><span id="L-823"><a href="#L-823"><span class="linenos"> 823</span></a>
+</span><span id="L-824"><a href="#L-824"><span class="linenos"> 824</span></a><span class="k">class</span> <span class="nc">CObs</span><span class="p">:</span>
+</span><span id="L-825"><a href="#L-825"><span class="linenos"> 825</span></a>    <span class="sd">&quot;&quot;&quot;Class for a complex valued observable.&quot;&quot;&quot;</span>
+</span><span id="L-826"><a href="#L-826"><span class="linenos"> 826</span></a>    <span class="vm">__slots__</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;_real&#39;</span><span class="p">,</span> <span class="s1">&#39;_imag&#39;</span><span class="p">,</span> <span class="s1">&#39;tag&#39;</span><span class="p">]</span>
+</span><span id="L-827"><a href="#L-827"><span class="linenos"> 827</span></a>
+</span><span id="L-828"><a href="#L-828"><span class="linenos"> 828</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="o">=</span><span class="mf">0.0</span><span class="p">):</span>
+</span><span id="L-829"><a href="#L-829"><span class="linenos"> 829</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_real</span> <span class="o">=</span> <span class="n">real</span>
+</span><span id="L-830"><a href="#L-830"><span class="linenos"> 830</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_imag</span> <span class="o">=</span> <span class="n">imag</span>
+</span><span id="L-831"><a href="#L-831"><span class="linenos"> 831</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="L-832"><a href="#L-832"><span class="linenos"> 832</span></a>
+</span><span id="L-833"><a href="#L-833"><span class="linenos"> 833</span></a>    <span class="nd">@property</span>
+</span><span id="L-834"><a href="#L-834"><span class="linenos"> 834</span></a>    <span class="k">def</span> <span class="nf">real</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-835"><a href="#L-835"><span class="linenos"> 835</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_real</span>
+</span><span id="L-836"><a href="#L-836"><span class="linenos"> 836</span></a>
+</span><span id="L-837"><a href="#L-837"><span class="linenos"> 837</span></a>    <span class="nd">@property</span>
+</span><span id="L-838"><a href="#L-838"><span class="linenos"> 838</span></a>    <span class="k">def</span> <span class="nf">imag</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-839"><a href="#L-839"><span class="linenos"> 839</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_imag</span>
+</span><span id="L-840"><a href="#L-840"><span class="linenos"> 840</span></a>
+</span><span id="L-841"><a href="#L-841"><span class="linenos"> 841</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-842"><a href="#L-842"><span class="linenos"> 842</span></a>        <span class="sd">&quot;&quot;&quot;Executes the gamma_method for the real and the imaginary part.&quot;&quot;&quot;</span>
+</span><span id="L-843"><a href="#L-843"><span class="linenos"> 843</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-844"><a href="#L-844"><span class="linenos"> 844</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-845"><a href="#L-845"><span class="linenos"> 845</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="L-846"><a href="#L-846"><span class="linenos"> 846</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-847"><a href="#L-847"><span class="linenos"> 847</span></a>
+</span><span id="L-848"><a href="#L-848"><span class="linenos"> 848</span></a>    <span class="k">def</span> <span class="nf">is_zero</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-849"><a href="#L-849"><span class="linenos"> 849</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether both real and imaginary part are zero within machine precision.&quot;&quot;&quot;</span>
+</span><span id="L-850"><a href="#L-850"><span class="linenos"> 850</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">==</span> <span class="mf">0.0</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">==</span> <span class="mf">0.0</span>
+</span><span id="L-851"><a href="#L-851"><span class="linenos"> 851</span></a>
+</span><span id="L-852"><a href="#L-852"><span class="linenos"> 852</span></a>    <span class="k">def</span> <span class="nf">conjugate</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-853"><a href="#L-853"><span class="linenos"> 853</span></a>        <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="L-854"><a href="#L-854"><span class="linenos"> 854</span></a>
+</span><span id="L-855"><a href="#L-855"><span class="linenos"> 855</span></a>    <span class="k">def</span> <span class="fm">__add__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-856"><a href="#L-856"><span class="linenos"> 856</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-857"><a href="#L-857"><span class="linenos"> 857</span></a>            <span class="k">return</span> <span class="n">other</span> <span class="o">+</span> <span class="bp">self</span>
+</span><span id="L-858"><a href="#L-858"><span class="linenos"> 858</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
+</span><span id="L-859"><a href="#L-859"><span class="linenos"> 859</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span>
+</span><span id="L-860"><a href="#L-860"><span class="linenos"> 860</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">+</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="L-861"><a href="#L-861"><span class="linenos"> 861</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-862"><a href="#L-862"><span class="linenos"> 862</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="L-863"><a href="#L-863"><span class="linenos"> 863</span></a>
+</span><span id="L-864"><a href="#L-864"><span class="linenos"> 864</span></a>    <span class="k">def</span> <span class="fm">__radd__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="L-865"><a href="#L-865"><span class="linenos"> 865</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
+</span><span id="L-866"><a href="#L-866"><span class="linenos"> 866</span></a>
+</span><span id="L-867"><a href="#L-867"><span class="linenos"> 867</span></a>    <span class="k">def</span> <span class="fm">__sub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-868"><a href="#L-868"><span class="linenos"> 868</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-869"><a href="#L-869"><span class="linenos"> 869</span></a>            <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="n">other</span> <span class="o">-</span> <span class="bp">self</span><span class="p">)</span>
+</span><span id="L-870"><a href="#L-870"><span class="linenos"> 870</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
+</span><span id="L-871"><a href="#L-871"><span class="linenos"> 871</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">-</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="L-872"><a href="#L-872"><span class="linenos"> 872</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-873"><a href="#L-873"><span class="linenos"> 873</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="L-874"><a href="#L-874"><span class="linenos"> 874</span></a>
+</span><span id="L-875"><a href="#L-875"><span class="linenos"> 875</span></a>    <span class="k">def</span> <span class="fm">__rsub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-876"><a href="#L-876"><span class="linenos"> 876</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">other</span><span class="p">)</span>
+</span><span id="L-877"><a href="#L-877"><span class="linenos"> 877</span></a>
+</span><span id="L-878"><a href="#L-878"><span class="linenos"> 878</span></a>    <span class="k">def</span> <span class="fm">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-879"><a href="#L-879"><span class="linenos"> 879</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-880"><a href="#L-880"><span class="linenos"> 880</span></a>            <span class="k">return</span> <span class="n">other</span> <span class="o">*</span> <span class="bp">self</span>
+</span><span id="L-881"><a href="#L-881"><span class="linenos"> 881</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
+</span><span id="L-882"><a href="#L-882"><span class="linenos"> 882</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">]):</span>
+</span><span id="L-883"><a href="#L-883"><span class="linenos"> 883</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span>
+</span><span id="L-884"><a href="#L-884"><span class="linenos"> 884</span></a>                                               <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span>
+</span><span id="L-885"><a href="#L-885"><span class="linenos"> 885</span></a>                                               <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span><span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">]),</span>
+</span><span id="L-886"><a href="#L-886"><span class="linenos"> 886</span></a>                            <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span>
+</span><span id="L-887"><a href="#L-887"><span class="linenos"> 887</span></a>                                               <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span>
+</span><span id="L-888"><a href="#L-888"><span class="linenos"> 888</span></a>                                               <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">]))</span>
+</span><span id="L-889"><a href="#L-889"><span class="linenos"> 889</span></a>            <span class="k">elif</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-890"><a href="#L-890"><span class="linenos"> 890</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span>
+</span><span id="L-891"><a href="#L-891"><span class="linenos"> 891</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="L-892"><a href="#L-892"><span class="linenos"> 892</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-893"><a href="#L-893"><span class="linenos"> 893</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">)</span>
+</span><span id="L-894"><a href="#L-894"><span class="linenos"> 894</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-895"><a href="#L-895"><span class="linenos"> 895</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="p">)</span>
+</span><span id="L-896"><a href="#L-896"><span class="linenos"> 896</span></a>
+</span><span id="L-897"><a href="#L-897"><span class="linenos"> 897</span></a>    <span class="k">def</span> <span class="fm">__rmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-898"><a href="#L-898"><span class="linenos"> 898</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">other</span>
+</span><span id="L-899"><a href="#L-899"><span class="linenos"> 899</span></a>
+</span><span id="L-900"><a href="#L-900"><span class="linenos"> 900</span></a>    <span class="k">def</span> <span class="fm">__truediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-901"><a href="#L-901"><span class="linenos"> 901</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="L-902"><a href="#L-902"><span class="linenos"> 902</span></a>            <span class="k">return</span> <span class="mi">1</span> <span class="o">/</span> <span class="p">(</span><span class="n">other</span> <span class="o">/</span> <span class="bp">self</span><span class="p">)</span>
+</span><span id="L-903"><a href="#L-903"><span class="linenos"> 903</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
+</span><span id="L-904"><a href="#L-904"><span class="linenos"> 904</span></a>            <span class="n">r</span> <span class="o">=</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="L-905"><a href="#L-905"><span class="linenos"> 905</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">)</span>
+</span><span id="L-906"><a href="#L-906"><span class="linenos"> 906</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-907"><a href="#L-907"><span class="linenos"> 907</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">/</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">/</span> <span class="n">other</span><span class="p">)</span>
+</span><span id="L-908"><a href="#L-908"><span class="linenos"> 908</span></a>
+</span><span id="L-909"><a href="#L-909"><span class="linenos"> 909</span></a>    <span class="k">def</span> <span class="fm">__rtruediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-910"><a href="#L-910"><span class="linenos"> 910</span></a>        <span class="n">r</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="L-911"><a href="#L-911"><span class="linenos"> 911</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
+</span><span id="L-912"><a href="#L-912"><span class="linenos"> 912</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">)</span>
+</span><span id="L-913"><a href="#L-913"><span class="linenos"> 913</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-914"><a href="#L-914"><span class="linenos"> 914</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span> <span class="o">/</span> <span class="n">r</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span> <span class="o">/</span> <span class="n">r</span><span class="p">)</span>
+</span><span id="L-915"><a href="#L-915"><span class="linenos"> 915</span></a>
+</span><span id="L-916"><a href="#L-916"><span class="linenos"> 916</span></a>    <span class="k">def</span> <span class="fm">__abs__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-917"><a href="#L-917"><span class="linenos"> 917</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">**</span><span class="mi">2</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">**</span><span class="mi">2</span><span class="p">)</span>
+</span><span id="L-918"><a href="#L-918"><span class="linenos"> 918</span></a>
+</span><span id="L-919"><a href="#L-919"><span class="linenos"> 919</span></a>    <span class="k">def</span> <span class="fm">__pos__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-920"><a href="#L-920"><span class="linenos"> 920</span></a>        <span class="k">return</span> <span class="bp">self</span>
+</span><span id="L-921"><a href="#L-921"><span class="linenos"> 921</span></a>
+</span><span id="L-922"><a href="#L-922"><span class="linenos"> 922</span></a>    <span class="k">def</span> <span class="fm">__neg__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-923"><a href="#L-923"><span class="linenos"> 923</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
+</span><span id="L-924"><a href="#L-924"><span class="linenos"> 924</span></a>
+</span><span id="L-925"><a href="#L-925"><span class="linenos"> 925</span></a>    <span class="k">def</span> <span class="fm">__eq__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="L-926"><a href="#L-926"><span class="linenos"> 926</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">==</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">==</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span>
+</span><span id="L-927"><a href="#L-927"><span class="linenos"> 927</span></a>
+</span><span id="L-928"><a href="#L-928"><span class="linenos"> 928</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-929"><a href="#L-929"><span class="linenos"> 929</span></a>        <span class="k">return</span> <span class="s1">&#39;(&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">)</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">&gt;=</span> <span class="mf">0.0</span><span class="p">)</span> <span class="o">*</span> <span class="s1">&#39;+&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;j)&#39;</span>
+</span><span id="L-930"><a href="#L-930"><span class="linenos"> 930</span></a>
+</span><span id="L-931"><a href="#L-931"><span class="linenos"> 931</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="L-932"><a href="#L-932"><span class="linenos"> 932</span></a>        <span class="k">return</span> <span class="s1">&#39;CObs[&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;]&#39;</span>
 </span><span id="L-933"><a href="#L-933"><span class="linenos"> 933</span></a>
-</span><span id="L-934"><a href="#L-934"><span class="linenos"> 934</span></a><span class="k">def</span> <span class="nf">_expand_deltas</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">shape</span><span class="p">):</span>
-</span><span id="L-935"><a href="#L-935"><span class="linenos"> 935</span></a>    <span class="sd">&quot;&quot;&quot;Expand deltas defined on idx to a regular, contiguous range, where holes are filled by 0.</span>
-</span><span id="L-936"><a href="#L-936"><span class="linenos"> 936</span></a><span class="sd">       If idx is of type range, the deltas are not changed</span>
-</span><span id="L-937"><a href="#L-937"><span class="linenos"> 937</span></a>
-</span><span id="L-938"><a href="#L-938"><span class="linenos"> 938</span></a><span class="sd">    Parameters</span>
-</span><span id="L-939"><a href="#L-939"><span class="linenos"> 939</span></a><span class="sd">    ----------</span>
-</span><span id="L-940"><a href="#L-940"><span class="linenos"> 940</span></a><span class="sd">    deltas : list</span>
-</span><span id="L-941"><a href="#L-941"><span class="linenos"> 941</span></a><span class="sd">        List of fluctuations</span>
-</span><span id="L-942"><a href="#L-942"><span class="linenos"> 942</span></a><span class="sd">    idx : list</span>
-</span><span id="L-943"><a href="#L-943"><span class="linenos"> 943</span></a><span class="sd">        List or range of configs on which the deltas are defined, has to be sorted in ascending order.</span>
-</span><span id="L-944"><a href="#L-944"><span class="linenos"> 944</span></a><span class="sd">    shape : int</span>
-</span><span id="L-945"><a href="#L-945"><span class="linenos"> 945</span></a><span class="sd">        Number of configs in idx.</span>
-</span><span id="L-946"><a href="#L-946"><span class="linenos"> 946</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-947"><a href="#L-947"><span class="linenos"> 947</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="L-948"><a href="#L-948"><span class="linenos"> 948</span></a>        <span class="k">return</span> <span class="n">deltas</span>
-</span><span id="L-949"><a href="#L-949"><span class="linenos"> 949</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-950"><a href="#L-950"><span class="linenos"> 950</span></a>        <span class="n">ret</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">idx</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">idx</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-951"><a href="#L-951"><span class="linenos"> 951</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">shape</span><span class="p">):</span>
-</span><span id="L-952"><a href="#L-952"><span class="linenos"> 952</span></a>            <span class="n">ret</span><span class="p">[</span><span class="n">idx</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">-</span> <span class="n">idx</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span> <span class="o">=</span> <span class="n">deltas</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="L-953"><a href="#L-953"><span class="linenos"> 953</span></a>        <span class="k">return</span> <span class="n">ret</span>
-</span><span id="L-954"><a href="#L-954"><span class="linenos"> 954</span></a>
+</span><span id="L-934"><a href="#L-934"><span class="linenos"> 934</span></a>
+</span><span id="L-935"><a href="#L-935"><span class="linenos"> 935</span></a><span class="k">def</span> <span class="nf">_expand_deltas</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">shape</span><span class="p">):</span>
+</span><span id="L-936"><a href="#L-936"><span class="linenos"> 936</span></a>    <span class="sd">&quot;&quot;&quot;Expand deltas defined on idx to a regular, contiguous range, where holes are filled by 0.</span>
+</span><span id="L-937"><a href="#L-937"><span class="linenos"> 937</span></a><span class="sd">       If idx is of type range, the deltas are not changed</span>
+</span><span id="L-938"><a href="#L-938"><span class="linenos"> 938</span></a>
+</span><span id="L-939"><a href="#L-939"><span class="linenos"> 939</span></a><span class="sd">    Parameters</span>
+</span><span id="L-940"><a href="#L-940"><span class="linenos"> 940</span></a><span class="sd">    ----------</span>
+</span><span id="L-941"><a href="#L-941"><span class="linenos"> 941</span></a><span class="sd">    deltas : list</span>
+</span><span id="L-942"><a href="#L-942"><span class="linenos"> 942</span></a><span class="sd">        List of fluctuations</span>
+</span><span id="L-943"><a href="#L-943"><span class="linenos"> 943</span></a><span class="sd">    idx : list</span>
+</span><span id="L-944"><a href="#L-944"><span class="linenos"> 944</span></a><span class="sd">        List or range of configs on which the deltas are defined, has to be sorted in ascending order.</span>
+</span><span id="L-945"><a href="#L-945"><span class="linenos"> 945</span></a><span class="sd">    shape : int</span>
+</span><span id="L-946"><a href="#L-946"><span class="linenos"> 946</span></a><span class="sd">        Number of configs in idx.</span>
+</span><span id="L-947"><a href="#L-947"><span class="linenos"> 947</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-948"><a href="#L-948"><span class="linenos"> 948</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="L-949"><a href="#L-949"><span class="linenos"> 949</span></a>        <span class="k">return</span> <span class="n">deltas</span>
+</span><span id="L-950"><a href="#L-950"><span class="linenos"> 950</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-951"><a href="#L-951"><span class="linenos"> 951</span></a>        <span class="n">ret</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">idx</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">idx</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-952"><a href="#L-952"><span class="linenos"> 952</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">shape</span><span class="p">):</span>
+</span><span id="L-953"><a href="#L-953"><span class="linenos"> 953</span></a>            <span class="n">ret</span><span class="p">[</span><span class="n">idx</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">-</span> <span class="n">idx</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span> <span class="o">=</span> <span class="n">deltas</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="L-954"><a href="#L-954"><span class="linenos"> 954</span></a>        <span class="k">return</span> <span class="n">ret</span>
 </span><span id="L-955"><a href="#L-955"><span class="linenos"> 955</span></a>
-</span><span id="L-956"><a href="#L-956"><span class="linenos"> 956</span></a><span class="k">def</span> <span class="nf">_merge_idx</span><span class="p">(</span><span class="n">idl</span><span class="p">):</span>
-</span><span id="L-957"><a href="#L-957"><span class="linenos"> 957</span></a>    <span class="sd">&quot;&quot;&quot;Returns the union of all lists in idl as sorted list</span>
-</span><span id="L-958"><a href="#L-958"><span class="linenos"> 958</span></a>
-</span><span id="L-959"><a href="#L-959"><span class="linenos"> 959</span></a><span class="sd">    Parameters</span>
-</span><span id="L-960"><a href="#L-960"><span class="linenos"> 960</span></a><span class="sd">    ----------</span>
-</span><span id="L-961"><a href="#L-961"><span class="linenos"> 961</span></a><span class="sd">    idl : list</span>
-</span><span id="L-962"><a href="#L-962"><span class="linenos"> 962</span></a><span class="sd">        List of lists or ranges.</span>
-</span><span id="L-963"><a href="#L-963"><span class="linenos"> 963</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-964"><a href="#L-964"><span class="linenos"> 964</span></a>
-</span><span id="L-965"><a href="#L-965"><span class="linenos"> 965</span></a>    <span class="c1"># Use groupby to efficiently check whether all elements of idl are identical</span>
-</span><span id="L-966"><a href="#L-966"><span class="linenos"> 966</span></a>    <span class="k">try</span><span class="p">:</span>
-</span><span id="L-967"><a href="#L-967"><span class="linenos"> 967</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">groupby</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span>
-</span><span id="L-968"><a href="#L-968"><span class="linenos"> 968</span></a>        <span class="k">if</span> <span class="nb">next</span><span class="p">(</span><span class="n">g</span><span class="p">,</span> <span class="kc">True</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">next</span><span class="p">(</span><span class="n">g</span><span class="p">,</span> <span class="kc">False</span><span class="p">):</span>
-</span><span id="L-969"><a href="#L-969"><span class="linenos"> 969</span></a>            <span class="k">return</span> <span class="n">idl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-970"><a href="#L-970"><span class="linenos"> 970</span></a>    <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
-</span><span id="L-971"><a href="#L-971"><span class="linenos"> 971</span></a>        <span class="k">pass</span>
-</span><span id="L-972"><a href="#L-972"><span class="linenos"> 972</span></a>
-</span><span id="L-973"><a href="#L-973"><span class="linenos"> 973</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">([</span><span class="nb">type</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span> <span class="ow">is</span> <span class="nb">range</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">]):</span>
-</span><span id="L-974"><a href="#L-974"><span class="linenos"> 974</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">idx</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">]))</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-975"><a href="#L-975"><span class="linenos"> 975</span></a>            <span class="n">idstart</span> <span class="o">=</span> <span class="nb">min</span><span class="p">([</span><span class="n">idx</span><span class="o">.</span><span class="n">start</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">])</span>
-</span><span id="L-976"><a href="#L-976"><span class="linenos"> 976</span></a>            <span class="n">idstop</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([</span><span class="n">idx</span><span class="o">.</span><span class="n">stop</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">])</span>
-</span><span id="L-977"><a href="#L-977"><span class="linenos"> 977</span></a>            <span class="n">idstep</span> <span class="o">=</span> <span class="nb">min</span><span class="p">([</span><span class="n">idx</span><span class="o">.</span><span class="n">step</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">])</span>
-</span><span id="L-978"><a href="#L-978"><span class="linenos"> 978</span></a>            <span class="k">return</span> <span class="nb">range</span><span class="p">(</span><span class="n">idstart</span><span class="p">,</span> <span class="n">idstop</span><span class="p">,</span> <span class="n">idstep</span><span class="p">)</span>
-</span><span id="L-979"><a href="#L-979"><span class="linenos"> 979</span></a>
-</span><span id="L-980"><a href="#L-980"><span class="linenos"> 980</span></a>    <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">()</span><span class="o">.</span><span class="n">union</span><span class="p">(</span><span class="o">*</span><span class="n">idl</span><span class="p">))</span>
-</span><span id="L-981"><a href="#L-981"><span class="linenos"> 981</span></a>
+</span><span id="L-956"><a href="#L-956"><span class="linenos"> 956</span></a>
+</span><span id="L-957"><a href="#L-957"><span class="linenos"> 957</span></a><span class="k">def</span> <span class="nf">_merge_idx</span><span class="p">(</span><span class="n">idl</span><span class="p">):</span>
+</span><span id="L-958"><a href="#L-958"><span class="linenos"> 958</span></a>    <span class="sd">&quot;&quot;&quot;Returns the union of all lists in idl as sorted list</span>
+</span><span id="L-959"><a href="#L-959"><span class="linenos"> 959</span></a>
+</span><span id="L-960"><a href="#L-960"><span class="linenos"> 960</span></a><span class="sd">    Parameters</span>
+</span><span id="L-961"><a href="#L-961"><span class="linenos"> 961</span></a><span class="sd">    ----------</span>
+</span><span id="L-962"><a href="#L-962"><span class="linenos"> 962</span></a><span class="sd">    idl : list</span>
+</span><span id="L-963"><a href="#L-963"><span class="linenos"> 963</span></a><span class="sd">        List of lists or ranges.</span>
+</span><span id="L-964"><a href="#L-964"><span class="linenos"> 964</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-965"><a href="#L-965"><span class="linenos"> 965</span></a>
+</span><span id="L-966"><a href="#L-966"><span class="linenos"> 966</span></a>    <span class="c1"># Use groupby to efficiently check whether all elements of idl are identical</span>
+</span><span id="L-967"><a href="#L-967"><span class="linenos"> 967</span></a>    <span class="k">try</span><span class="p">:</span>
+</span><span id="L-968"><a href="#L-968"><span class="linenos"> 968</span></a>        <span class="n">g</span> <span class="o">=</span> <span class="n">groupby</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span>
+</span><span id="L-969"><a href="#L-969"><span class="linenos"> 969</span></a>        <span class="k">if</span> <span class="nb">next</span><span class="p">(</span><span class="n">g</span><span class="p">,</span> <span class="kc">True</span><span class="p">)</span> <span class="ow">and</span> <span class="ow">not</span> <span class="nb">next</span><span class="p">(</span><span class="n">g</span><span class="p">,</span> <span class="kc">False</span><span class="p">):</span>
+</span><span id="L-970"><a href="#L-970"><span class="linenos"> 970</span></a>            <span class="k">return</span> <span class="n">idl</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-971"><a href="#L-971"><span class="linenos"> 971</span></a>    <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
+</span><span id="L-972"><a href="#L-972"><span class="linenos"> 972</span></a>        <span class="k">pass</span>
+</span><span id="L-973"><a href="#L-973"><span class="linenos"> 973</span></a>
+</span><span id="L-974"><a href="#L-974"><span class="linenos"> 974</span></a>    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">([</span><span class="nb">type</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span> <span class="ow">is</span> <span class="nb">range</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">]):</span>
+</span><span id="L-975"><a href="#L-975"><span class="linenos"> 975</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">idx</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">]))</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-976"><a href="#L-976"><span class="linenos"> 976</span></a>            <span class="n">idstart</span> <span class="o">=</span> <span class="nb">min</span><span class="p">([</span><span class="n">idx</span><span class="o">.</span><span class="n">start</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">])</span>
+</span><span id="L-977"><a href="#L-977"><span class="linenos"> 977</span></a>            <span class="n">idstop</span> <span class="o">=</span> <span class="nb">max</span><span class="p">([</span><span class="n">idx</span><span class="o">.</span><span class="n">stop</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">])</span>
+</span><span id="L-978"><a href="#L-978"><span class="linenos"> 978</span></a>            <span class="n">idstep</span> <span class="o">=</span> <span class="nb">min</span><span class="p">([</span><span class="n">idx</span><span class="o">.</span><span class="n">step</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="n">idl</span><span class="p">])</span>
+</span><span id="L-979"><a href="#L-979"><span class="linenos"> 979</span></a>            <span class="k">return</span> <span class="nb">range</span><span class="p">(</span><span class="n">idstart</span><span class="p">,</span> <span class="n">idstop</span><span class="p">,</span> <span class="n">idstep</span><span class="p">)</span>
+</span><span id="L-980"><a href="#L-980"><span class="linenos"> 980</span></a>
+</span><span id="L-981"><a href="#L-981"><span class="linenos"> 981</span></a>    <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">()</span><span class="o">.</span><span class="n">union</span><span class="p">(</span><span class="o">*</span><span class="n">idl</span><span class="p">))</span>
 </span><span id="L-982"><a href="#L-982"><span class="linenos"> 982</span></a>
-</span><span id="L-983"><a href="#L-983"><span class="linenos"> 983</span></a><span class="k">def</span> <span class="nf">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">shape</span><span class="p">,</span> <span class="n">new_idx</span><span class="p">):</span>
-</span><span id="L-984"><a href="#L-984"><span class="linenos"> 984</span></a>    <span class="sd">&quot;&quot;&quot;Expand deltas defined on idx to the list of configs that is defined by new_idx.</span>
-</span><span id="L-985"><a href="#L-985"><span class="linenos"> 985</span></a><span class="sd">       New, empty entries are filled by 0. If idx and new_idx are of type range, the smallest</span>
-</span><span id="L-986"><a href="#L-986"><span class="linenos"> 986</span></a><span class="sd">       common divisor of the step sizes is used as new step size.</span>
-</span><span id="L-987"><a href="#L-987"><span class="linenos"> 987</span></a>
-</span><span id="L-988"><a href="#L-988"><span class="linenos"> 988</span></a><span class="sd">    Parameters</span>
-</span><span id="L-989"><a href="#L-989"><span class="linenos"> 989</span></a><span class="sd">    ----------</span>
-</span><span id="L-990"><a href="#L-990"><span class="linenos"> 990</span></a><span class="sd">    deltas : list</span>
-</span><span id="L-991"><a href="#L-991"><span class="linenos"> 991</span></a><span class="sd">        List of fluctuations</span>
-</span><span id="L-992"><a href="#L-992"><span class="linenos"> 992</span></a><span class="sd">    idx : list</span>
-</span><span id="L-993"><a href="#L-993"><span class="linenos"> 993</span></a><span class="sd">        List or range of configs on which the deltas are defined.</span>
-</span><span id="L-994"><a href="#L-994"><span class="linenos"> 994</span></a><span class="sd">        Has to be a subset of new_idx and has to be sorted in ascending order.</span>
-</span><span id="L-995"><a href="#L-995"><span class="linenos"> 995</span></a><span class="sd">    shape : list</span>
-</span><span id="L-996"><a href="#L-996"><span class="linenos"> 996</span></a><span class="sd">        Number of configs in idx.</span>
-</span><span id="L-997"><a href="#L-997"><span class="linenos"> 997</span></a><span class="sd">    new_idx : list</span>
-</span><span id="L-998"><a href="#L-998"><span class="linenos"> 998</span></a><span class="sd">        List of configs that defines the new range, has to be sorted in ascending order.</span>
-</span><span id="L-999"><a href="#L-999"><span class="linenos"> 999</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-1000"><a href="#L-1000"><span class="linenos">1000</span></a>
-</span><span id="L-1001"><a href="#L-1001"><span class="linenos">1001</span></a>    <span class="k">if</span> <span class="nb">type</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span> <span class="ow">is</span> <span class="nb">range</span> <span class="ow">and</span> <span class="nb">type</span><span class="p">(</span><span class="n">new_idx</span><span class="p">)</span> <span class="ow">is</span> <span class="nb">range</span><span class="p">:</span>
-</span><span id="L-1002"><a href="#L-1002"><span class="linenos">1002</span></a>        <span class="k">if</span> <span class="n">idx</span> <span class="o">==</span> <span class="n">new_idx</span><span class="p">:</span>
-</span><span id="L-1003"><a href="#L-1003"><span class="linenos">1003</span></a>            <span class="k">return</span> <span class="n">deltas</span>
-</span><span id="L-1004"><a href="#L-1004"><span class="linenos">1004</span></a>    <span class="n">ret</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">new_idx</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">new_idx</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="L-1005"><a href="#L-1005"><span class="linenos">1005</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">shape</span><span class="p">):</span>
-</span><span id="L-1006"><a href="#L-1006"><span class="linenos">1006</span></a>        <span class="n">ret</span><span class="p">[</span><span class="n">idx</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">-</span> <span class="n">new_idx</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span> <span class="o">=</span> <span class="n">deltas</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
-</span><span id="L-1007"><a href="#L-1007"><span class="linenos">1007</span></a>    <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">ret</span><span class="p">[</span><span class="n">new_idx</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">-</span> <span class="n">new_idx</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">new_idx</span><span class="p">))])</span>
-</span><span id="L-1008"><a href="#L-1008"><span class="linenos">1008</span></a>
+</span><span id="L-983"><a href="#L-983"><span class="linenos"> 983</span></a>
+</span><span id="L-984"><a href="#L-984"><span class="linenos"> 984</span></a><span class="k">def</span> <span class="nf">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">shape</span><span class="p">,</span> <span class="n">new_idx</span><span class="p">):</span>
+</span><span id="L-985"><a href="#L-985"><span class="linenos"> 985</span></a>    <span class="sd">&quot;&quot;&quot;Expand deltas defined on idx to the list of configs that is defined by new_idx.</span>
+</span><span id="L-986"><a href="#L-986"><span class="linenos"> 986</span></a><span class="sd">       New, empty entries are filled by 0. If idx and new_idx are of type range, the smallest</span>
+</span><span id="L-987"><a href="#L-987"><span class="linenos"> 987</span></a><span class="sd">       common divisor of the step sizes is used as new step size.</span>
+</span><span id="L-988"><a href="#L-988"><span class="linenos"> 988</span></a>
+</span><span id="L-989"><a href="#L-989"><span class="linenos"> 989</span></a><span class="sd">    Parameters</span>
+</span><span id="L-990"><a href="#L-990"><span class="linenos"> 990</span></a><span class="sd">    ----------</span>
+</span><span id="L-991"><a href="#L-991"><span class="linenos"> 991</span></a><span class="sd">    deltas : list</span>
+</span><span id="L-992"><a href="#L-992"><span class="linenos"> 992</span></a><span class="sd">        List of fluctuations</span>
+</span><span id="L-993"><a href="#L-993"><span class="linenos"> 993</span></a><span class="sd">    idx : list</span>
+</span><span id="L-994"><a href="#L-994"><span class="linenos"> 994</span></a><span class="sd">        List or range of configs on which the deltas are defined.</span>
+</span><span id="L-995"><a href="#L-995"><span class="linenos"> 995</span></a><span class="sd">        Has to be a subset of new_idx and has to be sorted in ascending order.</span>
+</span><span id="L-996"><a href="#L-996"><span class="linenos"> 996</span></a><span class="sd">    shape : list</span>
+</span><span id="L-997"><a href="#L-997"><span class="linenos"> 997</span></a><span class="sd">        Number of configs in idx.</span>
+</span><span id="L-998"><a href="#L-998"><span class="linenos"> 998</span></a><span class="sd">    new_idx : list</span>
+</span><span id="L-999"><a href="#L-999"><span class="linenos"> 999</span></a><span class="sd">        List of configs that defines the new range, has to be sorted in ascending order.</span>
+</span><span id="L-1000"><a href="#L-1000"><span class="linenos">1000</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-1001"><a href="#L-1001"><span class="linenos">1001</span></a>
+</span><span id="L-1002"><a href="#L-1002"><span class="linenos">1002</span></a>    <span class="k">if</span> <span class="nb">type</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span> <span class="ow">is</span> <span class="nb">range</span> <span class="ow">and</span> <span class="nb">type</span><span class="p">(</span><span class="n">new_idx</span><span class="p">)</span> <span class="ow">is</span> <span class="nb">range</span><span class="p">:</span>
+</span><span id="L-1003"><a href="#L-1003"><span class="linenos">1003</span></a>        <span class="k">if</span> <span class="n">idx</span> <span class="o">==</span> <span class="n">new_idx</span><span class="p">:</span>
+</span><span id="L-1004"><a href="#L-1004"><span class="linenos">1004</span></a>            <span class="k">return</span> <span class="n">deltas</span>
+</span><span id="L-1005"><a href="#L-1005"><span class="linenos">1005</span></a>    <span class="n">ret</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">new_idx</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">new_idx</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="L-1006"><a href="#L-1006"><span class="linenos">1006</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">shape</span><span class="p">):</span>
+</span><span id="L-1007"><a href="#L-1007"><span class="linenos">1007</span></a>        <span class="n">ret</span><span class="p">[</span><span class="n">idx</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">-</span> <span class="n">new_idx</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span> <span class="o">=</span> <span class="n">deltas</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
+</span><span id="L-1008"><a href="#L-1008"><span class="linenos">1008</span></a>    <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">ret</span><span class="p">[</span><span class="n">new_idx</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">-</span> <span class="n">new_idx</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">new_idx</span><span class="p">))])</span>
 </span><span id="L-1009"><a href="#L-1009"><span class="linenos">1009</span></a>
-</span><span id="L-1010"><a href="#L-1010"><span class="linenos">1010</span></a><span class="k">def</span> <span class="nf">_filter_zeroes</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">eps</span><span class="o">=</span><span class="n">Obs</span><span class="o">.</span><span class="n">filter_eps</span><span class="p">):</span>
-</span><span id="L-1011"><a href="#L-1011"><span class="linenos">1011</span></a>    <span class="sd">&quot;&quot;&quot;Filter out all configurations with vanishing fluctuation such that they do not</span>
-</span><span id="L-1012"><a href="#L-1012"><span class="linenos">1012</span></a><span class="sd">       contribute to the error estimate anymore. Returns the new deltas and</span>
-</span><span id="L-1013"><a href="#L-1013"><span class="linenos">1013</span></a><span class="sd">       idx according to the filtering.</span>
-</span><span id="L-1014"><a href="#L-1014"><span class="linenos">1014</span></a><span class="sd">       A fluctuation is considered to be vanishing, if it is smaller than eps times</span>
-</span><span id="L-1015"><a href="#L-1015"><span class="linenos">1015</span></a><span class="sd">       the mean of the absolute values of all deltas in one list.</span>
-</span><span id="L-1016"><a href="#L-1016"><span class="linenos">1016</span></a>
-</span><span id="L-1017"><a href="#L-1017"><span class="linenos">1017</span></a><span class="sd">    Parameters</span>
-</span><span id="L-1018"><a href="#L-1018"><span class="linenos">1018</span></a><span class="sd">    ----------</span>
-</span><span id="L-1019"><a href="#L-1019"><span class="linenos">1019</span></a><span class="sd">    deltas : list</span>
-</span><span id="L-1020"><a href="#L-1020"><span class="linenos">1020</span></a><span class="sd">        List of fluctuations</span>
-</span><span id="L-1021"><a href="#L-1021"><span class="linenos">1021</span></a><span class="sd">    idx : list</span>
-</span><span id="L-1022"><a href="#L-1022"><span class="linenos">1022</span></a><span class="sd">        List or ranges of configs on which the deltas are defined.</span>
-</span><span id="L-1023"><a href="#L-1023"><span class="linenos">1023</span></a><span class="sd">    eps : float</span>
-</span><span id="L-1024"><a href="#L-1024"><span class="linenos">1024</span></a><span class="sd">        Prefactor that enters the filter criterion.</span>
-</span><span id="L-1025"><a href="#L-1025"><span class="linenos">1025</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-1026"><a href="#L-1026"><span class="linenos">1026</span></a>    <span class="n">new_deltas</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1027"><a href="#L-1027"><span class="linenos">1027</span></a>    <span class="n">new_idx</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1028"><a href="#L-1028"><span class="linenos">1028</span></a>    <span class="n">maxd</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">fabs</span><span class="p">(</span><span class="n">deltas</span><span class="p">))</span>
-</span><span id="L-1029"><a href="#L-1029"><span class="linenos">1029</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">)):</span>
-</span><span id="L-1030"><a href="#L-1030"><span class="linenos">1030</span></a>        <span class="k">if</span> <span class="nb">abs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">&gt;</span> <span class="n">eps</span> <span class="o">*</span> <span class="n">maxd</span><span class="p">:</span>
-</span><span id="L-1031"><a href="#L-1031"><span class="linenos">1031</span></a>            <span class="n">new_deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
-</span><span id="L-1032"><a href="#L-1032"><span class="linenos">1032</span></a>            <span class="n">new_idx</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">idx</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
-</span><span id="L-1033"><a href="#L-1033"><span class="linenos">1033</span></a>    <span class="k">if</span> <span class="n">new_idx</span><span class="p">:</span>
-</span><span id="L-1034"><a href="#L-1034"><span class="linenos">1034</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">new_deltas</span><span class="p">),</span> <span class="n">new_idx</span>
-</span><span id="L-1035"><a href="#L-1035"><span class="linenos">1035</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1036"><a href="#L-1036"><span class="linenos">1036</span></a>        <span class="k">return</span> <span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span>
-</span><span id="L-1037"><a href="#L-1037"><span class="linenos">1037</span></a>
+</span><span id="L-1010"><a href="#L-1010"><span class="linenos">1010</span></a>
+</span><span id="L-1011"><a href="#L-1011"><span class="linenos">1011</span></a><span class="k">def</span> <span class="nf">_filter_zeroes</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">eps</span><span class="o">=</span><span class="n">Obs</span><span class="o">.</span><span class="n">filter_eps</span><span class="p">):</span>
+</span><span id="L-1012"><a href="#L-1012"><span class="linenos">1012</span></a>    <span class="sd">&quot;&quot;&quot;Filter out all configurations with vanishing fluctuation such that they do not</span>
+</span><span id="L-1013"><a href="#L-1013"><span class="linenos">1013</span></a><span class="sd">       contribute to the error estimate anymore. Returns the new deltas and</span>
+</span><span id="L-1014"><a href="#L-1014"><span class="linenos">1014</span></a><span class="sd">       idx according to the filtering.</span>
+</span><span id="L-1015"><a href="#L-1015"><span class="linenos">1015</span></a><span class="sd">       A fluctuation is considered to be vanishing, if it is smaller than eps times</span>
+</span><span id="L-1016"><a href="#L-1016"><span class="linenos">1016</span></a><span class="sd">       the mean of the absolute values of all deltas in one list.</span>
+</span><span id="L-1017"><a href="#L-1017"><span class="linenos">1017</span></a>
+</span><span id="L-1018"><a href="#L-1018"><span class="linenos">1018</span></a><span class="sd">    Parameters</span>
+</span><span id="L-1019"><a href="#L-1019"><span class="linenos">1019</span></a><span class="sd">    ----------</span>
+</span><span id="L-1020"><a href="#L-1020"><span class="linenos">1020</span></a><span class="sd">    deltas : list</span>
+</span><span id="L-1021"><a href="#L-1021"><span class="linenos">1021</span></a><span class="sd">        List of fluctuations</span>
+</span><span id="L-1022"><a href="#L-1022"><span class="linenos">1022</span></a><span class="sd">    idx : list</span>
+</span><span id="L-1023"><a href="#L-1023"><span class="linenos">1023</span></a><span class="sd">        List or ranges of configs on which the deltas are defined.</span>
+</span><span id="L-1024"><a href="#L-1024"><span class="linenos">1024</span></a><span class="sd">    eps : float</span>
+</span><span id="L-1025"><a href="#L-1025"><span class="linenos">1025</span></a><span class="sd">        Prefactor that enters the filter criterion.</span>
+</span><span id="L-1026"><a href="#L-1026"><span class="linenos">1026</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-1027"><a href="#L-1027"><span class="linenos">1027</span></a>    <span class="n">new_deltas</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1028"><a href="#L-1028"><span class="linenos">1028</span></a>    <span class="n">new_idx</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1029"><a href="#L-1029"><span class="linenos">1029</span></a>    <span class="n">maxd</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">fabs</span><span class="p">(</span><span class="n">deltas</span><span class="p">))</span>
+</span><span id="L-1030"><a href="#L-1030"><span class="linenos">1030</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">)):</span>
+</span><span id="L-1031"><a href="#L-1031"><span class="linenos">1031</span></a>        <span class="k">if</span> <span class="nb">abs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">i</span><span class="p">])</span> <span class="o">&gt;</span> <span class="n">eps</span> <span class="o">*</span> <span class="n">maxd</span><span class="p">:</span>
+</span><span id="L-1032"><a href="#L-1032"><span class="linenos">1032</span></a>            <span class="n">new_deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-1033"><a href="#L-1033"><span class="linenos">1033</span></a>            <span class="n">new_idx</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">idx</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
+</span><span id="L-1034"><a href="#L-1034"><span class="linenos">1034</span></a>    <span class="k">if</span> <span class="n">new_idx</span><span class="p">:</span>
+</span><span id="L-1035"><a href="#L-1035"><span class="linenos">1035</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">new_deltas</span><span class="p">),</span> <span class="n">new_idx</span>
+</span><span id="L-1036"><a href="#L-1036"><span class="linenos">1036</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1037"><a href="#L-1037"><span class="linenos">1037</span></a>        <span class="k">return</span> <span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span>
 </span><span id="L-1038"><a href="#L-1038"><span class="linenos">1038</span></a>
-</span><span id="L-1039"><a href="#L-1039"><span class="linenos">1039</span></a><span class="k">def</span> <span class="nf">derived_observable</span><span class="p">(</span><span class="n">func</span><span class="p">,</span> <span class="n">data</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-1040"><a href="#L-1040"><span class="linenos">1040</span></a>    <span class="sd">&quot;&quot;&quot;Construct a derived Obs according to func(data, **kwargs) using automatic differentiation.</span>
-</span><span id="L-1041"><a href="#L-1041"><span class="linenos">1041</span></a>
-</span><span id="L-1042"><a href="#L-1042"><span class="linenos">1042</span></a><span class="sd">    Parameters</span>
-</span><span id="L-1043"><a href="#L-1043"><span class="linenos">1043</span></a><span class="sd">    ----------</span>
-</span><span id="L-1044"><a href="#L-1044"><span class="linenos">1044</span></a><span class="sd">    func : object</span>
-</span><span id="L-1045"><a href="#L-1045"><span class="linenos">1045</span></a><span class="sd">        arbitrary function of the form func(data, **kwargs). For the</span>
-</span><span id="L-1046"><a href="#L-1046"><span class="linenos">1046</span></a><span class="sd">        automatic differentiation to work, all numpy functions have to have</span>
-</span><span id="L-1047"><a href="#L-1047"><span class="linenos">1047</span></a><span class="sd">        the autograd wrapper (use &#39;import autograd.numpy as anp&#39;).</span>
-</span><span id="L-1048"><a href="#L-1048"><span class="linenos">1048</span></a><span class="sd">    data : list</span>
-</span><span id="L-1049"><a href="#L-1049"><span class="linenos">1049</span></a><span class="sd">        list of Obs, e.g. [obs1, obs2, obs3].</span>
-</span><span id="L-1050"><a href="#L-1050"><span class="linenos">1050</span></a><span class="sd">    num_grad : bool</span>
-</span><span id="L-1051"><a href="#L-1051"><span class="linenos">1051</span></a><span class="sd">        if True, numerical derivatives are used instead of autograd</span>
-</span><span id="L-1052"><a href="#L-1052"><span class="linenos">1052</span></a><span class="sd">        (default False). To control the numerical differentiation the</span>
-</span><span id="L-1053"><a href="#L-1053"><span class="linenos">1053</span></a><span class="sd">        kwargs of numdifftools.step_generators.MaxStepGenerator</span>
-</span><span id="L-1054"><a href="#L-1054"><span class="linenos">1054</span></a><span class="sd">        can be used.</span>
-</span><span id="L-1055"><a href="#L-1055"><span class="linenos">1055</span></a><span class="sd">    man_grad : list</span>
-</span><span id="L-1056"><a href="#L-1056"><span class="linenos">1056</span></a><span class="sd">        manually supply a list or an array which contains the jacobian</span>
-</span><span id="L-1057"><a href="#L-1057"><span class="linenos">1057</span></a><span class="sd">        of func. Use cautiously, supplying the wrong derivative will</span>
-</span><span id="L-1058"><a href="#L-1058"><span class="linenos">1058</span></a><span class="sd">        not be intercepted.</span>
-</span><span id="L-1059"><a href="#L-1059"><span class="linenos">1059</span></a>
-</span><span id="L-1060"><a href="#L-1060"><span class="linenos">1060</span></a><span class="sd">    Notes</span>
-</span><span id="L-1061"><a href="#L-1061"><span class="linenos">1061</span></a><span class="sd">    -----</span>
-</span><span id="L-1062"><a href="#L-1062"><span class="linenos">1062</span></a><span class="sd">    For simple mathematical operations it can be practical to use anonymous</span>
-</span><span id="L-1063"><a href="#L-1063"><span class="linenos">1063</span></a><span class="sd">    functions. For the ratio of two observables one can e.g. use</span>
-</span><span id="L-1064"><a href="#L-1064"><span class="linenos">1064</span></a>
-</span><span id="L-1065"><a href="#L-1065"><span class="linenos">1065</span></a><span class="sd">    new_obs = derived_observable(lambda x: x[0] / x[1], [obs1, obs2])</span>
-</span><span id="L-1066"><a href="#L-1066"><span class="linenos">1066</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-1067"><a href="#L-1067"><span class="linenos">1067</span></a>
-</span><span id="L-1068"><a href="#L-1068"><span class="linenos">1068</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
-</span><span id="L-1069"><a href="#L-1069"><span class="linenos">1069</span></a>    <span class="n">raveled_data</span> <span class="o">=</span> <span class="n">data</span><span class="o">.</span><span class="n">ravel</span><span class="p">()</span>
-</span><span id="L-1070"><a href="#L-1070"><span class="linenos">1070</span></a>
-</span><span id="L-1071"><a href="#L-1071"><span class="linenos">1071</span></a>    <span class="c1"># Workaround for matrix operations containing non Obs data</span>
-</span><span id="L-1072"><a href="#L-1072"><span class="linenos">1072</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">):</span>
-</span><span id="L-1073"><a href="#L-1073"><span class="linenos">1073</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">)):</span>
-</span><span id="L-1074"><a href="#L-1074"><span class="linenos">1074</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
-</span><span id="L-1075"><a href="#L-1075"><span class="linenos">1075</span></a>                <span class="n">raveled_data</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">cov_Obs</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="mf">0.0</span><span class="p">,</span> <span class="s2">&quot;###dummy_covobs###&quot;</span><span class="p">)</span>
-</span><span id="L-1076"><a href="#L-1076"><span class="linenos">1076</span></a>
-</span><span id="L-1077"><a href="#L-1077"><span class="linenos">1077</span></a>    <span class="n">allcov</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-1078"><a href="#L-1078"><span class="linenos">1078</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">:</span>
-</span><span id="L-1079"><a href="#L-1079"><span class="linenos">1079</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="L-1080"><a href="#L-1080"><span class="linenos">1080</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">allcov</span><span class="p">:</span>
-</span><span id="L-1081"><a href="#L-1081"><span class="linenos">1081</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">):</span>
-</span><span id="L-1082"><a href="#L-1082"><span class="linenos">1082</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Inconsistent covariance matrices for </span><span class="si">%s</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
-</span><span id="L-1083"><a href="#L-1083"><span class="linenos">1083</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1084"><a href="#L-1084"><span class="linenos">1084</span></a>                <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span>
-</span><span id="L-1085"><a href="#L-1085"><span class="linenos">1085</span></a>
-</span><span id="L-1086"><a href="#L-1086"><span class="linenos">1086</span></a>    <span class="n">n_obs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">)</span>
-</span><span id="L-1087"><a href="#L-1087"><span class="linenos">1087</span></a>    <span class="n">new_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">y</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">]</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]))</span>
-</span><span id="L-1088"><a href="#L-1088"><span class="linenos">1088</span></a>    <span class="n">new_cov_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">y</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">]</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]))</span>
-</span><span id="L-1089"><a href="#L-1089"><span class="linenos">1089</span></a>    <span class="n">new_sample_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">new_names</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">(</span><span class="n">new_cov_names</span><span class="p">))</span>
-</span><span id="L-1090"><a href="#L-1090"><span class="linenos">1090</span></a>
-</span><span id="L-1091"><a href="#L-1091"><span class="linenos">1091</span></a>    <span class="n">is_merged</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">,</span> <span class="n">raveled_data</span><span class="p">)))</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">)</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">}</span>
-</span><span id="L-1092"><a href="#L-1092"><span class="linenos">1092</span></a>    <span class="n">reweighted</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">,</span> <span class="n">raveled_data</span><span class="p">)))</span> <span class="o">&gt;</span> <span class="mi">0</span>
-</span><span id="L-1093"><a href="#L-1093"><span class="linenos">1093</span></a>
-</span><span id="L-1094"><a href="#L-1094"><span class="linenos">1094</span></a>    <span class="k">if</span> <span class="n">data</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-1095"><a href="#L-1095"><span class="linenos">1095</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">data</span><span class="p">])</span>
-</span><span id="L-1096"><a href="#L-1096"><span class="linenos">1096</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1097"><a href="#L-1097"><span class="linenos">1097</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">value</span><span class="p">)(</span><span class="n">data</span><span class="p">)</span>
-</span><span id="L-1098"><a href="#L-1098"><span class="linenos">1098</span></a>
-</span><span id="L-1099"><a href="#L-1099"><span class="linenos">1099</span></a>    <span class="n">new_values</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-1100"><a href="#L-1100"><span class="linenos">1100</span></a>
-</span><span id="L-1101"><a href="#L-1101"><span class="linenos">1101</span></a>    <span class="n">multi</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">new_values</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">))</span>
-</span><span id="L-1102"><a href="#L-1102"><span class="linenos">1102</span></a>
-</span><span id="L-1103"><a href="#L-1103"><span class="linenos">1103</span></a>    <span class="n">new_r_values</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-1104"><a href="#L-1104"><span class="linenos">1104</span></a>    <span class="n">new_idl_d</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-1105"><a href="#L-1105"><span class="linenos">1105</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">:</span>
-</span><span id="L-1106"><a href="#L-1106"><span class="linenos">1106</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1107"><a href="#L-1107"><span class="linenos">1107</span></a>        <span class="n">tmp_values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">n_obs</span><span class="p">)</span>
-</span><span id="L-1108"><a href="#L-1108"><span class="linenos">1108</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">):</span>
-</span><span id="L-1109"><a href="#L-1109"><span class="linenos">1109</span></a>            <span class="n">tmp_values</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">item</span><span class="o">.</span><span class="n">r_values</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">item</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
-</span><span id="L-1110"><a href="#L-1110"><span class="linenos">1110</span></a>            <span class="n">tmp_idl</span> <span class="o">=</span> <span class="n">item</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="L-1111"><a href="#L-1111"><span class="linenos">1111</span></a>            <span class="k">if</span> <span class="n">tmp_idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-1112"><a href="#L-1112"><span class="linenos">1112</span></a>                <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_idl</span><span class="p">)</span>
-</span><span id="L-1113"><a href="#L-1113"><span class="linenos">1113</span></a>        <span class="k">if</span> <span class="n">multi</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-1114"><a href="#L-1114"><span class="linenos">1114</span></a>            <span class="n">tmp_values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">tmp_values</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">data</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
-</span><span id="L-1115"><a href="#L-1115"><span class="linenos">1115</span></a>        <span class="n">new_r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">tmp_values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-1116"><a href="#L-1116"><span class="linenos">1116</span></a>        <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">_merge_idx</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span>
-</span><span id="L-1117"><a href="#L-1117"><span class="linenos">1117</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">is_merged</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="L-1118"><a href="#L-1118"><span class="linenos">1118</span></a>            <span class="n">is_merged</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="mi">1</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="p">[</span><span class="o">*</span><span class="n">idl</span><span class="p">,</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]]])))</span>
-</span><span id="L-1119"><a href="#L-1119"><span class="linenos">1119</span></a>
-</span><span id="L-1120"><a href="#L-1120"><span class="linenos">1120</span></a>    <span class="k">if</span> <span class="s1">&#39;man_grad&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="L-1121"><a href="#L-1121"><span class="linenos">1121</span></a>        <span class="n">deriv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;man_grad&#39;</span><span class="p">))</span>
-</span><span id="L-1122"><a href="#L-1122"><span class="linenos">1122</span></a>        <span class="k">if</span> <span class="n">new_values</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="n">data</span><span class="o">.</span><span class="n">shape</span> <span class="o">!=</span> <span class="n">deriv</span><span class="o">.</span><span class="n">shape</span><span class="p">:</span>
-</span><span id="L-1123"><a href="#L-1123"><span class="linenos">1123</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Manual derivative does not have correct shape.&#39;</span><span class="p">)</span>
-</span><span id="L-1124"><a href="#L-1124"><span class="linenos">1124</span></a>    <span class="k">elif</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;num_grad&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-1125"><a href="#L-1125"><span class="linenos">1125</span></a>        <span class="k">if</span> <span class="n">multi</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-1126"><a href="#L-1126"><span class="linenos">1126</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Multi mode currently not supported for numerical derivative&#39;</span><span class="p">)</span>
-</span><span id="L-1127"><a href="#L-1127"><span class="linenos">1127</span></a>        <span class="n">options</span> <span class="o">=</span> <span class="p">{</span>
-</span><span id="L-1128"><a href="#L-1128"><span class="linenos">1128</span></a>            <span class="s1">&#39;base_step&#39;</span><span class="p">:</span> <span class="mf">0.1</span><span class="p">,</span>
-</span><span id="L-1129"><a href="#L-1129"><span class="linenos">1129</span></a>            <span class="s1">&#39;step_ratio&#39;</span><span class="p">:</span> <span class="mf">2.5</span><span class="p">}</span>
-</span><span id="L-1130"><a href="#L-1130"><span class="linenos">1130</span></a>        <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="n">options</span><span class="o">.</span><span class="n">keys</span><span class="p">():</span>
-</span><span id="L-1131"><a href="#L-1131"><span class="linenos">1131</span></a>            <span class="n">kwarg</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">)</span>
-</span><span id="L-1132"><a href="#L-1132"><span class="linenos">1132</span></a>            <span class="k">if</span> <span class="n">kwarg</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="L-1133"><a href="#L-1133"><span class="linenos">1133</span></a>                <span class="n">options</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">kwarg</span>
-</span><span id="L-1134"><a href="#L-1134"><span class="linenos">1134</span></a>        <span class="n">tmp_df</span> <span class="o">=</span> <span class="n">nd</span><span class="o">.</span><span class="n">Gradient</span><span class="p">(</span><span class="n">func</span><span class="p">,</span> <span class="n">order</span><span class="o">=</span><span class="mi">4</span><span class="p">,</span> <span class="o">**</span><span class="p">{</span><span class="n">k</span><span class="p">:</span> <span class="n">v</span> <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">options</span><span class="o">.</span><span class="n">items</span><span class="p">()</span> <span class="k">if</span> <span class="n">v</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">})(</span><span class="n">values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-1135"><a href="#L-1135"><span class="linenos">1135</span></a>        <span class="k">if</span> <span class="n">tmp_df</span><span class="o">.</span><span class="n">size</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-1136"><a href="#L-1136"><span class="linenos">1136</span></a>            <span class="n">deriv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">tmp_df</span><span class="o">.</span><span class="n">real</span><span class="p">])</span>
-</span><span id="L-1137"><a href="#L-1137"><span class="linenos">1137</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1138"><a href="#L-1138"><span class="linenos">1138</span></a>            <span class="n">deriv</span> <span class="o">=</span> <span class="n">tmp_df</span><span class="o">.</span><span class="n">real</span>
-</span><span id="L-1139"><a href="#L-1139"><span class="linenos">1139</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1140"><a href="#L-1140"><span class="linenos">1140</span></a>        <span class="n">deriv</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="L-1141"><a href="#L-1141"><span class="linenos">1141</span></a>
-</span><span id="L-1142"><a href="#L-1142"><span class="linenos">1142</span></a>    <span class="n">final_result</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">new_values</span><span class="o">.</span><span class="n">shape</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="L-1143"><a href="#L-1143"><span class="linenos">1143</span></a>
-</span><span id="L-1144"><a href="#L-1144"><span class="linenos">1144</span></a>    <span class="k">if</span> <span class="n">array_mode</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-1145"><a href="#L-1145"><span class="linenos">1145</span></a>
-</span><span id="L-1146"><a href="#L-1146"><span class="linenos">1146</span></a>        <span class="k">class</span> <span class="nc">_Zero_grad</span><span class="p">():</span>
-</span><span id="L-1147"><a href="#L-1147"><span class="linenos">1147</span></a>            <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">N</span><span class="p">):</span>
-</span><span id="L-1148"><a href="#L-1148"><span class="linenos">1148</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="L-1149"><a href="#L-1149"><span class="linenos">1149</span></a>
-</span><span id="L-1150"><a href="#L-1150"><span class="linenos">1150</span></a>        <span class="n">new_covobs_lengths</span> <span class="o">=</span> <span class="nb">dict</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">y</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">[[(</span><span class="n">n</span><span class="p">,</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">n</span><span class="p">]</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">]</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]))</span>
-</span><span id="L-1151"><a href="#L-1151"><span class="linenos">1151</span></a>        <span class="n">d_extracted</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-1152"><a href="#L-1152"><span class="linenos">1152</span></a>        <span class="n">g_extracted</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-1153"><a href="#L-1153"><span class="linenos">1153</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">:</span>
-</span><span id="L-1154"><a href="#L-1154"><span class="linenos">1154</span></a>            <span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1155"><a href="#L-1155"><span class="linenos">1155</span></a>            <span class="n">ens_length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="L-1156"><a href="#L-1156"><span class="linenos">1156</span></a>            <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
-</span><span id="L-1157"><a href="#L-1157"><span class="linenos">1157</span></a>                <span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">ens_length</span><span class="p">)),</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]),</span> <span class="n">o</span><span class="o">.</span><span class="n">shape</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">ens_length</span><span class="p">),</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">dat</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">prod</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span><span class="p">))])</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="p">(</span><span class="n">ens_length</span><span class="p">,</span> <span class="p">)))</span>
-</span><span id="L-1158"><a href="#L-1158"><span class="linenos">1158</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_cov_names</span><span class="p">:</span>
-</span><span id="L-1159"><a href="#L-1159"><span class="linenos">1159</span></a>            <span class="n">g_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1160"><a href="#L-1160"><span class="linenos">1160</span></a>            <span class="n">zero_grad</span> <span class="o">=</span> <span class="n">_Zero_grad</span><span class="p">(</span><span class="n">new_covobs_lengths</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="L-1161"><a href="#L-1161"><span class="linenos">1161</span></a>            <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
-</span><span id="L-1162"><a href="#L-1162"><span class="linenos">1162</span></a>                <span class="n">g_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">zero_grad</span><span class="p">)</span><span class="o">.</span><span class="n">grad</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">dat</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">prod</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span><span class="p">))])</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="p">(</span><span class="n">new_covobs_lengths</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="mi">1</span><span class="p">)))</span>
-</span><span id="L-1163"><a href="#L-1163"><span class="linenos">1163</span></a>
-</span><span id="L-1164"><a href="#L-1164"><span class="linenos">1164</span></a>    <span class="k">for</span> <span class="n">i_val</span><span class="p">,</span> <span class="n">new_val</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">new_values</span><span class="p">):</span>
-</span><span id="L-1165"><a href="#L-1165"><span class="linenos">1165</span></a>        <span class="n">new_deltas</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-1166"><a href="#L-1166"><span class="linenos">1166</span></a>        <span class="n">new_grad</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-1167"><a href="#L-1167"><span class="linenos">1167</span></a>        <span class="k">if</span> <span class="n">array_mode</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-1168"><a href="#L-1168"><span class="linenos">1168</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">:</span>
-</span><span id="L-1169"><a href="#L-1169"><span class="linenos">1169</span></a>                <span class="n">ens_length</span> <span class="o">=</span> <span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="L-1170"><a href="#L-1170"><span class="linenos">1170</span></a>                <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">ens_length</span><span class="p">)</span>
-</span><span id="L-1171"><a href="#L-1171"><span class="linenos">1171</span></a>                <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]):</span>
-</span><span id="L-1172"><a href="#L-1172"><span class="linenos">1172</span></a>                    <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">tensordot</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="p">(</span><span class="n">i_dat</span><span class="p">,</span> <span class="p">)],</span> <span class="n">dat</span><span class="p">)</span>
-</span><span id="L-1173"><a href="#L-1173"><span class="linenos">1173</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_cov_names</span><span class="p">:</span>
-</span><span id="L-1174"><a href="#L-1174"><span class="linenos">1174</span></a>                <span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-1175"><a href="#L-1175"><span class="linenos">1175</span></a>                <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">g_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]):</span>
-</span><span id="L-1176"><a href="#L-1176"><span class="linenos">1176</span></a>                    <span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">tensordot</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="p">(</span><span class="n">i_dat</span><span class="p">,</span> <span class="p">)],</span> <span class="n">dat</span><span class="p">)</span>
-</span><span id="L-1177"><a href="#L-1177"><span class="linenos">1177</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1178"><a href="#L-1178"><span class="linenos">1178</span></a>            <span class="k">for</span> <span class="n">j_obs</span><span class="p">,</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
-</span><span id="L-1179"><a href="#L-1179"><span class="linenos">1179</span></a>                <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
-</span><span id="L-1180"><a href="#L-1180"><span class="linenos">1180</span></a>                    <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="L-1181"><a href="#L-1181"><span class="linenos">1181</span></a>                        <span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">new_grad</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="n">j_obs</span><span class="p">]</span> <span class="o">*</span> <span class="n">obs</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span>
-</span><span id="L-1182"><a href="#L-1182"><span class="linenos">1182</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1183"><a href="#L-1183"><span class="linenos">1183</span></a>                        <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">new_deltas</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="n">j_obs</span><span class="p">]</span> <span class="o">*</span> <span class="n">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">obs</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">obs</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="L-1184"><a href="#L-1184"><span class="linenos">1184</span></a>
-</span><span id="L-1185"><a href="#L-1185"><span class="linenos">1185</span></a>        <span class="n">new_covobs</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">Covobs</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">name</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_grad</span><span class="p">}</span>
-</span><span id="L-1186"><a href="#L-1186"><span class="linenos">1186</span></a>
-</span><span id="L-1187"><a href="#L-1187"><span class="linenos">1187</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">new_covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span><span class="o">.</span><span class="n">isdisjoint</span><span class="p">(</span><span class="n">new_deltas</span><span class="o">.</span><span class="n">keys</span><span class="p">()):</span>
-</span><span id="L-1188"><a href="#L-1188"><span class="linenos">1188</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The same name has been used for deltas and covobs!&#39;</span><span class="p">)</span>
-</span><span id="L-1189"><a href="#L-1189"><span class="linenos">1189</span></a>        <span class="n">new_samples</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1190"><a href="#L-1190"><span class="linenos">1190</span></a>        <span class="n">new_means</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1191"><a href="#L-1191"><span class="linenos">1191</span></a>        <span class="n">new_idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1192"><a href="#L-1192"><span class="linenos">1192</span></a>        <span class="n">new_names_obs</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1193"><a href="#L-1193"><span class="linenos">1193</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_names</span><span class="p">:</span>
-</span><span id="L-1194"><a href="#L-1194"><span class="linenos">1194</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">new_covobs</span><span class="p">:</span>
-</span><span id="L-1195"><a href="#L-1195"><span class="linenos">1195</span></a>                <span class="k">if</span> <span class="n">is_merged</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="L-1196"><a href="#L-1196"><span class="linenos">1196</span></a>                    <span class="n">filtered_deltas</span><span class="p">,</span> <span class="n">filtered_idl_d</span> <span class="o">=</span> <span class="n">_filter_zeroes</span><span class="p">(</span><span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="L-1197"><a href="#L-1197"><span class="linenos">1197</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1198"><a href="#L-1198"><span class="linenos">1198</span></a>                    <span class="n">filtered_deltas</span> <span class="o">=</span> <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-1199"><a href="#L-1199"><span class="linenos">1199</span></a>                    <span class="n">filtered_idl_d</span> <span class="o">=</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="L-1200"><a href="#L-1200"><span class="linenos">1200</span></a>
-</span><span id="L-1201"><a href="#L-1201"><span class="linenos">1201</span></a>                <span class="n">new_samples</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">filtered_deltas</span><span class="p">)</span>
-</span><span id="L-1202"><a href="#L-1202"><span class="linenos">1202</span></a>                <span class="n">new_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">filtered_idl_d</span><span class="p">)</span>
-</span><span id="L-1203"><a href="#L-1203"><span class="linenos">1203</span></a>                <span class="n">new_means</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">new_r_values</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i_val</span><span class="p">])</span>
-</span><span id="L-1204"><a href="#L-1204"><span class="linenos">1204</span></a>                <span class="n">new_names_obs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="L-1205"><a href="#L-1205"><span class="linenos">1205</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="n">new_names_obs</span><span class="p">,</span> <span class="n">means</span><span class="o">=</span><span class="n">new_means</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">new_idl</span><span class="p">)</span>
-</span><span id="L-1206"><a href="#L-1206"><span class="linenos">1206</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_covobs</span><span class="p">:</span>
-</span><span id="L-1207"><a href="#L-1207"><span class="linenos">1207</span></a>            <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="L-1208"><a href="#L-1208"><span class="linenos">1208</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="n">new_covobs</span>
-</span><span id="L-1209"><a href="#L-1209"><span class="linenos">1209</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">new_val</span>
-</span><span id="L-1210"><a href="#L-1210"><span class="linenos">1210</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">is_merged</span>
-</span><span id="L-1211"><a href="#L-1211"><span class="linenos">1211</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">reweighted</span>
-</span><span id="L-1212"><a href="#L-1212"><span class="linenos">1212</span></a>
-</span><span id="L-1213"><a href="#L-1213"><span class="linenos">1213</span></a>    <span class="k">if</span> <span class="n">multi</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-1214"><a href="#L-1214"><span class="linenos">1214</span></a>        <span class="n">final_result</span> <span class="o">=</span> <span class="n">final_result</span><span class="o">.</span><span class="n">item</span><span class="p">()</span>
-</span><span id="L-1215"><a href="#L-1215"><span class="linenos">1215</span></a>
-</span><span id="L-1216"><a href="#L-1216"><span class="linenos">1216</span></a>    <span class="k">return</span> <span class="n">final_result</span>
-</span><span id="L-1217"><a href="#L-1217"><span class="linenos">1217</span></a>
+</span><span id="L-1039"><a href="#L-1039"><span class="linenos">1039</span></a>
+</span><span id="L-1040"><a href="#L-1040"><span class="linenos">1040</span></a><span class="k">def</span> <span class="nf">derived_observable</span><span class="p">(</span><span class="n">func</span><span class="p">,</span> <span class="n">data</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-1041"><a href="#L-1041"><span class="linenos">1041</span></a>    <span class="sd">&quot;&quot;&quot;Construct a derived Obs according to func(data, **kwargs) using automatic differentiation.</span>
+</span><span id="L-1042"><a href="#L-1042"><span class="linenos">1042</span></a>
+</span><span id="L-1043"><a href="#L-1043"><span class="linenos">1043</span></a><span class="sd">    Parameters</span>
+</span><span id="L-1044"><a href="#L-1044"><span class="linenos">1044</span></a><span class="sd">    ----------</span>
+</span><span id="L-1045"><a href="#L-1045"><span class="linenos">1045</span></a><span class="sd">    func : object</span>
+</span><span id="L-1046"><a href="#L-1046"><span class="linenos">1046</span></a><span class="sd">        arbitrary function of the form func(data, **kwargs). For the</span>
+</span><span id="L-1047"><a href="#L-1047"><span class="linenos">1047</span></a><span class="sd">        automatic differentiation to work, all numpy functions have to have</span>
+</span><span id="L-1048"><a href="#L-1048"><span class="linenos">1048</span></a><span class="sd">        the autograd wrapper (use &#39;import autograd.numpy as anp&#39;).</span>
+</span><span id="L-1049"><a href="#L-1049"><span class="linenos">1049</span></a><span class="sd">    data : list</span>
+</span><span id="L-1050"><a href="#L-1050"><span class="linenos">1050</span></a><span class="sd">        list of Obs, e.g. [obs1, obs2, obs3].</span>
+</span><span id="L-1051"><a href="#L-1051"><span class="linenos">1051</span></a><span class="sd">    num_grad : bool</span>
+</span><span id="L-1052"><a href="#L-1052"><span class="linenos">1052</span></a><span class="sd">        if True, numerical derivatives are used instead of autograd</span>
+</span><span id="L-1053"><a href="#L-1053"><span class="linenos">1053</span></a><span class="sd">        (default False). To control the numerical differentiation the</span>
+</span><span id="L-1054"><a href="#L-1054"><span class="linenos">1054</span></a><span class="sd">        kwargs of numdifftools.step_generators.MaxStepGenerator</span>
+</span><span id="L-1055"><a href="#L-1055"><span class="linenos">1055</span></a><span class="sd">        can be used.</span>
+</span><span id="L-1056"><a href="#L-1056"><span class="linenos">1056</span></a><span class="sd">    man_grad : list</span>
+</span><span id="L-1057"><a href="#L-1057"><span class="linenos">1057</span></a><span class="sd">        manually supply a list or an array which contains the jacobian</span>
+</span><span id="L-1058"><a href="#L-1058"><span class="linenos">1058</span></a><span class="sd">        of func. Use cautiously, supplying the wrong derivative will</span>
+</span><span id="L-1059"><a href="#L-1059"><span class="linenos">1059</span></a><span class="sd">        not be intercepted.</span>
+</span><span id="L-1060"><a href="#L-1060"><span class="linenos">1060</span></a>
+</span><span id="L-1061"><a href="#L-1061"><span class="linenos">1061</span></a><span class="sd">    Notes</span>
+</span><span id="L-1062"><a href="#L-1062"><span class="linenos">1062</span></a><span class="sd">    -----</span>
+</span><span id="L-1063"><a href="#L-1063"><span class="linenos">1063</span></a><span class="sd">    For simple mathematical operations it can be practical to use anonymous</span>
+</span><span id="L-1064"><a href="#L-1064"><span class="linenos">1064</span></a><span class="sd">    functions. For the ratio of two observables one can e.g. use</span>
+</span><span id="L-1065"><a href="#L-1065"><span class="linenos">1065</span></a>
+</span><span id="L-1066"><a href="#L-1066"><span class="linenos">1066</span></a><span class="sd">    new_obs = derived_observable(lambda x: x[0] / x[1], [obs1, obs2])</span>
+</span><span id="L-1067"><a href="#L-1067"><span class="linenos">1067</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-1068"><a href="#L-1068"><span class="linenos">1068</span></a>
+</span><span id="L-1069"><a href="#L-1069"><span class="linenos">1069</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
+</span><span id="L-1070"><a href="#L-1070"><span class="linenos">1070</span></a>    <span class="n">raveled_data</span> <span class="o">=</span> <span class="n">data</span><span class="o">.</span><span class="n">ravel</span><span class="p">()</span>
+</span><span id="L-1071"><a href="#L-1071"><span class="linenos">1071</span></a>
+</span><span id="L-1072"><a href="#L-1072"><span class="linenos">1072</span></a>    <span class="c1"># Workaround for matrix operations containing non Obs data</span>
+</span><span id="L-1073"><a href="#L-1073"><span class="linenos">1073</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">):</span>
+</span><span id="L-1074"><a href="#L-1074"><span class="linenos">1074</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">)):</span>
+</span><span id="L-1075"><a href="#L-1075"><span class="linenos">1075</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
+</span><span id="L-1076"><a href="#L-1076"><span class="linenos">1076</span></a>                <span class="n">raveled_data</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">cov_Obs</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="mf">0.0</span><span class="p">,</span> <span class="s2">&quot;###dummy_covobs###&quot;</span><span class="p">)</span>
+</span><span id="L-1077"><a href="#L-1077"><span class="linenos">1077</span></a>
+</span><span id="L-1078"><a href="#L-1078"><span class="linenos">1078</span></a>    <span class="n">allcov</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-1079"><a href="#L-1079"><span class="linenos">1079</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">:</span>
+</span><span id="L-1080"><a href="#L-1080"><span class="linenos">1080</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="L-1081"><a href="#L-1081"><span class="linenos">1081</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">allcov</span><span class="p">:</span>
+</span><span id="L-1082"><a href="#L-1082"><span class="linenos">1082</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">):</span>
+</span><span id="L-1083"><a href="#L-1083"><span class="linenos">1083</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Inconsistent covariance matrices for </span><span class="si">%s</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
+</span><span id="L-1084"><a href="#L-1084"><span class="linenos">1084</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1085"><a href="#L-1085"><span class="linenos">1085</span></a>                <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span>
+</span><span id="L-1086"><a href="#L-1086"><span class="linenos">1086</span></a>
+</span><span id="L-1087"><a href="#L-1087"><span class="linenos">1087</span></a>    <span class="n">n_obs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">)</span>
+</span><span id="L-1088"><a href="#L-1088"><span class="linenos">1088</span></a>    <span class="n">new_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">y</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">]</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]))</span>
+</span><span id="L-1089"><a href="#L-1089"><span class="linenos">1089</span></a>    <span class="n">new_cov_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">y</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">]</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]))</span>
+</span><span id="L-1090"><a href="#L-1090"><span class="linenos">1090</span></a>    <span class="n">new_sample_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">new_names</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">(</span><span class="n">new_cov_names</span><span class="p">))</span>
+</span><span id="L-1091"><a href="#L-1091"><span class="linenos">1091</span></a>
+</span><span id="L-1092"><a href="#L-1092"><span class="linenos">1092</span></a>    <span class="n">is_merged</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">,</span> <span class="n">raveled_data</span><span class="p">)))</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">)</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">}</span>
+</span><span id="L-1093"><a href="#L-1093"><span class="linenos">1093</span></a>    <span class="n">reweighted</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">,</span> <span class="n">raveled_data</span><span class="p">)))</span> <span class="o">&gt;</span> <span class="mi">0</span>
+</span><span id="L-1094"><a href="#L-1094"><span class="linenos">1094</span></a>
+</span><span id="L-1095"><a href="#L-1095"><span class="linenos">1095</span></a>    <span class="k">if</span> <span class="n">data</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-1096"><a href="#L-1096"><span class="linenos">1096</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">data</span><span class="p">])</span>
+</span><span id="L-1097"><a href="#L-1097"><span class="linenos">1097</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1098"><a href="#L-1098"><span class="linenos">1098</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">value</span><span class="p">)(</span><span class="n">data</span><span class="p">)</span>
+</span><span id="L-1099"><a href="#L-1099"><span class="linenos">1099</span></a>
+</span><span id="L-1100"><a href="#L-1100"><span class="linenos">1100</span></a>    <span class="n">new_values</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-1101"><a href="#L-1101"><span class="linenos">1101</span></a>
+</span><span id="L-1102"><a href="#L-1102"><span class="linenos">1102</span></a>    <span class="n">multi</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">new_values</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">))</span>
+</span><span id="L-1103"><a href="#L-1103"><span class="linenos">1103</span></a>
+</span><span id="L-1104"><a href="#L-1104"><span class="linenos">1104</span></a>    <span class="n">new_r_values</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-1105"><a href="#L-1105"><span class="linenos">1105</span></a>    <span class="n">new_idl_d</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-1106"><a href="#L-1106"><span class="linenos">1106</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">:</span>
+</span><span id="L-1107"><a href="#L-1107"><span class="linenos">1107</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1108"><a href="#L-1108"><span class="linenos">1108</span></a>        <span class="n">tmp_values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">n_obs</span><span class="p">)</span>
+</span><span id="L-1109"><a href="#L-1109"><span class="linenos">1109</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">):</span>
+</span><span id="L-1110"><a href="#L-1110"><span class="linenos">1110</span></a>            <span class="n">tmp_values</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">item</span><span class="o">.</span><span class="n">r_values</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">item</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
+</span><span id="L-1111"><a href="#L-1111"><span class="linenos">1111</span></a>            <span class="n">tmp_idl</span> <span class="o">=</span> <span class="n">item</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="L-1112"><a href="#L-1112"><span class="linenos">1112</span></a>            <span class="k">if</span> <span class="n">tmp_idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-1113"><a href="#L-1113"><span class="linenos">1113</span></a>                <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_idl</span><span class="p">)</span>
+</span><span id="L-1114"><a href="#L-1114"><span class="linenos">1114</span></a>        <span class="k">if</span> <span class="n">multi</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-1115"><a href="#L-1115"><span class="linenos">1115</span></a>            <span class="n">tmp_values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">tmp_values</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">data</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
+</span><span id="L-1116"><a href="#L-1116"><span class="linenos">1116</span></a>        <span class="n">new_r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">tmp_values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-1117"><a href="#L-1117"><span class="linenos">1117</span></a>        <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">_merge_idx</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span>
+</span><span id="L-1118"><a href="#L-1118"><span class="linenos">1118</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">is_merged</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="L-1119"><a href="#L-1119"><span class="linenos">1119</span></a>            <span class="n">is_merged</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="mi">1</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="p">[</span><span class="o">*</span><span class="n">idl</span><span class="p">,</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]]])))</span>
+</span><span id="L-1120"><a href="#L-1120"><span class="linenos">1120</span></a>
+</span><span id="L-1121"><a href="#L-1121"><span class="linenos">1121</span></a>    <span class="k">if</span> <span class="s1">&#39;man_grad&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="L-1122"><a href="#L-1122"><span class="linenos">1122</span></a>        <span class="n">deriv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;man_grad&#39;</span><span class="p">))</span>
+</span><span id="L-1123"><a href="#L-1123"><span class="linenos">1123</span></a>        <span class="k">if</span> <span class="n">new_values</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="n">data</span><span class="o">.</span><span class="n">shape</span> <span class="o">!=</span> <span class="n">deriv</span><span class="o">.</span><span class="n">shape</span><span class="p">:</span>
+</span><span id="L-1124"><a href="#L-1124"><span class="linenos">1124</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Manual derivative does not have correct shape.&#39;</span><span class="p">)</span>
+</span><span id="L-1125"><a href="#L-1125"><span class="linenos">1125</span></a>    <span class="k">elif</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;num_grad&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-1126"><a href="#L-1126"><span class="linenos">1126</span></a>        <span class="k">if</span> <span class="n">multi</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-1127"><a href="#L-1127"><span class="linenos">1127</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Multi mode currently not supported for numerical derivative&#39;</span><span class="p">)</span>
+</span><span id="L-1128"><a href="#L-1128"><span class="linenos">1128</span></a>        <span class="n">options</span> <span class="o">=</span> <span class="p">{</span>
+</span><span id="L-1129"><a href="#L-1129"><span class="linenos">1129</span></a>            <span class="s1">&#39;base_step&#39;</span><span class="p">:</span> <span class="mf">0.1</span><span class="p">,</span>
+</span><span id="L-1130"><a href="#L-1130"><span class="linenos">1130</span></a>            <span class="s1">&#39;step_ratio&#39;</span><span class="p">:</span> <span class="mf">2.5</span><span class="p">}</span>
+</span><span id="L-1131"><a href="#L-1131"><span class="linenos">1131</span></a>        <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="n">options</span><span class="o">.</span><span class="n">keys</span><span class="p">():</span>
+</span><span id="L-1132"><a href="#L-1132"><span class="linenos">1132</span></a>            <span class="n">kwarg</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">)</span>
+</span><span id="L-1133"><a href="#L-1133"><span class="linenos">1133</span></a>            <span class="k">if</span> <span class="n">kwarg</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="L-1134"><a href="#L-1134"><span class="linenos">1134</span></a>                <span class="n">options</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">kwarg</span>
+</span><span id="L-1135"><a href="#L-1135"><span class="linenos">1135</span></a>        <span class="n">tmp_df</span> <span class="o">=</span> <span class="n">nd</span><span class="o">.</span><span class="n">Gradient</span><span class="p">(</span><span class="n">func</span><span class="p">,</span> <span class="n">order</span><span class="o">=</span><span class="mi">4</span><span class="p">,</span> <span class="o">**</span><span class="p">{</span><span class="n">k</span><span class="p">:</span> <span class="n">v</span> <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">options</span><span class="o">.</span><span class="n">items</span><span class="p">()</span> <span class="k">if</span> <span class="n">v</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">})(</span><span class="n">values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-1136"><a href="#L-1136"><span class="linenos">1136</span></a>        <span class="k">if</span> <span class="n">tmp_df</span><span class="o">.</span><span class="n">size</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-1137"><a href="#L-1137"><span class="linenos">1137</span></a>            <span class="n">deriv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">tmp_df</span><span class="o">.</span><span class="n">real</span><span class="p">])</span>
+</span><span id="L-1138"><a href="#L-1138"><span class="linenos">1138</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1139"><a href="#L-1139"><span class="linenos">1139</span></a>            <span class="n">deriv</span> <span class="o">=</span> <span class="n">tmp_df</span><span class="o">.</span><span class="n">real</span>
+</span><span id="L-1140"><a href="#L-1140"><span class="linenos">1140</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1141"><a href="#L-1141"><span class="linenos">1141</span></a>        <span class="n">deriv</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="L-1142"><a href="#L-1142"><span class="linenos">1142</span></a>
+</span><span id="L-1143"><a href="#L-1143"><span class="linenos">1143</span></a>    <span class="n">final_result</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">new_values</span><span class="o">.</span><span class="n">shape</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="L-1144"><a href="#L-1144"><span class="linenos">1144</span></a>
+</span><span id="L-1145"><a href="#L-1145"><span class="linenos">1145</span></a>    <span class="k">if</span> <span class="n">array_mode</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-1146"><a href="#L-1146"><span class="linenos">1146</span></a>
+</span><span id="L-1147"><a href="#L-1147"><span class="linenos">1147</span></a>        <span class="k">class</span> <span class="nc">_Zero_grad</span><span class="p">():</span>
+</span><span id="L-1148"><a href="#L-1148"><span class="linenos">1148</span></a>            <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">N</span><span class="p">):</span>
+</span><span id="L-1149"><a href="#L-1149"><span class="linenos">1149</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="L-1150"><a href="#L-1150"><span class="linenos">1150</span></a>
+</span><span id="L-1151"><a href="#L-1151"><span class="linenos">1151</span></a>        <span class="n">new_covobs_lengths</span> <span class="o">=</span> <span class="nb">dict</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">y</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">[[(</span><span class="n">n</span><span class="p">,</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">n</span><span class="p">]</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">]</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]))</span>
+</span><span id="L-1152"><a href="#L-1152"><span class="linenos">1152</span></a>        <span class="n">d_extracted</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-1153"><a href="#L-1153"><span class="linenos">1153</span></a>        <span class="n">g_extracted</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-1154"><a href="#L-1154"><span class="linenos">1154</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">:</span>
+</span><span id="L-1155"><a href="#L-1155"><span class="linenos">1155</span></a>            <span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1156"><a href="#L-1156"><span class="linenos">1156</span></a>            <span class="n">ens_length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="L-1157"><a href="#L-1157"><span class="linenos">1157</span></a>            <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
+</span><span id="L-1158"><a href="#L-1158"><span class="linenos">1158</span></a>                <span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">ens_length</span><span class="p">)),</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]),</span> <span class="n">o</span><span class="o">.</span><span class="n">shape</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">ens_length</span><span class="p">),</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">dat</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">prod</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span><span class="p">))])</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="p">(</span><span class="n">ens_length</span><span class="p">,</span> <span class="p">)))</span>
+</span><span id="L-1159"><a href="#L-1159"><span class="linenos">1159</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_cov_names</span><span class="p">:</span>
+</span><span id="L-1160"><a href="#L-1160"><span class="linenos">1160</span></a>            <span class="n">g_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1161"><a href="#L-1161"><span class="linenos">1161</span></a>            <span class="n">zero_grad</span> <span class="o">=</span> <span class="n">_Zero_grad</span><span class="p">(</span><span class="n">new_covobs_lengths</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="L-1162"><a href="#L-1162"><span class="linenos">1162</span></a>            <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
+</span><span id="L-1163"><a href="#L-1163"><span class="linenos">1163</span></a>                <span class="n">g_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">zero_grad</span><span class="p">)</span><span class="o">.</span><span class="n">grad</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">dat</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">prod</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span><span class="p">))])</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="p">(</span><span class="n">new_covobs_lengths</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="mi">1</span><span class="p">)))</span>
+</span><span id="L-1164"><a href="#L-1164"><span class="linenos">1164</span></a>
+</span><span id="L-1165"><a href="#L-1165"><span class="linenos">1165</span></a>    <span class="k">for</span> <span class="n">i_val</span><span class="p">,</span> <span class="n">new_val</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">new_values</span><span class="p">):</span>
+</span><span id="L-1166"><a href="#L-1166"><span class="linenos">1166</span></a>        <span class="n">new_deltas</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-1167"><a href="#L-1167"><span class="linenos">1167</span></a>        <span class="n">new_grad</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-1168"><a href="#L-1168"><span class="linenos">1168</span></a>        <span class="k">if</span> <span class="n">array_mode</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-1169"><a href="#L-1169"><span class="linenos">1169</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">:</span>
+</span><span id="L-1170"><a href="#L-1170"><span class="linenos">1170</span></a>                <span class="n">ens_length</span> <span class="o">=</span> <span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="L-1171"><a href="#L-1171"><span class="linenos">1171</span></a>                <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">ens_length</span><span class="p">)</span>
+</span><span id="L-1172"><a href="#L-1172"><span class="linenos">1172</span></a>                <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]):</span>
+</span><span id="L-1173"><a href="#L-1173"><span class="linenos">1173</span></a>                    <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">tensordot</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="p">(</span><span class="n">i_dat</span><span class="p">,</span> <span class="p">)],</span> <span class="n">dat</span><span class="p">)</span>
+</span><span id="L-1174"><a href="#L-1174"><span class="linenos">1174</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_cov_names</span><span class="p">:</span>
+</span><span id="L-1175"><a href="#L-1175"><span class="linenos">1175</span></a>                <span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-1176"><a href="#L-1176"><span class="linenos">1176</span></a>                <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">g_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]):</span>
+</span><span id="L-1177"><a href="#L-1177"><span class="linenos">1177</span></a>                    <span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">tensordot</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="p">(</span><span class="n">i_dat</span><span class="p">,</span> <span class="p">)],</span> <span class="n">dat</span><span class="p">)</span>
+</span><span id="L-1178"><a href="#L-1178"><span class="linenos">1178</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1179"><a href="#L-1179"><span class="linenos">1179</span></a>            <span class="k">for</span> <span class="n">j_obs</span><span class="p">,</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
+</span><span id="L-1180"><a href="#L-1180"><span class="linenos">1180</span></a>                <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
+</span><span id="L-1181"><a href="#L-1181"><span class="linenos">1181</span></a>                    <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="L-1182"><a href="#L-1182"><span class="linenos">1182</span></a>                        <span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">new_grad</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="n">j_obs</span><span class="p">]</span> <span class="o">*</span> <span class="n">obs</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span>
+</span><span id="L-1183"><a href="#L-1183"><span class="linenos">1183</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1184"><a href="#L-1184"><span class="linenos">1184</span></a>                        <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">new_deltas</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="n">j_obs</span><span class="p">]</span> <span class="o">*</span> <span class="n">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">obs</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">obs</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="L-1185"><a href="#L-1185"><span class="linenos">1185</span></a>
+</span><span id="L-1186"><a href="#L-1186"><span class="linenos">1186</span></a>        <span class="n">new_covobs</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">Covobs</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">name</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_grad</span><span class="p">}</span>
+</span><span id="L-1187"><a href="#L-1187"><span class="linenos">1187</span></a>
+</span><span id="L-1188"><a href="#L-1188"><span class="linenos">1188</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">new_covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span><span class="o">.</span><span class="n">isdisjoint</span><span class="p">(</span><span class="n">new_deltas</span><span class="o">.</span><span class="n">keys</span><span class="p">()):</span>
+</span><span id="L-1189"><a href="#L-1189"><span class="linenos">1189</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The same name has been used for deltas and covobs!&#39;</span><span class="p">)</span>
+</span><span id="L-1190"><a href="#L-1190"><span class="linenos">1190</span></a>        <span class="n">new_samples</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1191"><a href="#L-1191"><span class="linenos">1191</span></a>        <span class="n">new_means</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1192"><a href="#L-1192"><span class="linenos">1192</span></a>        <span class="n">new_idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1193"><a href="#L-1193"><span class="linenos">1193</span></a>        <span class="n">new_names_obs</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1194"><a href="#L-1194"><span class="linenos">1194</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_names</span><span class="p">:</span>
+</span><span id="L-1195"><a href="#L-1195"><span class="linenos">1195</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">new_covobs</span><span class="p">:</span>
+</span><span id="L-1196"><a href="#L-1196"><span class="linenos">1196</span></a>                <span class="k">if</span> <span class="n">is_merged</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="L-1197"><a href="#L-1197"><span class="linenos">1197</span></a>                    <span class="n">filtered_deltas</span><span class="p">,</span> <span class="n">filtered_idl_d</span> <span class="o">=</span> <span class="n">_filter_zeroes</span><span class="p">(</span><span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="L-1198"><a href="#L-1198"><span class="linenos">1198</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1199"><a href="#L-1199"><span class="linenos">1199</span></a>                    <span class="n">filtered_deltas</span> <span class="o">=</span> <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-1200"><a href="#L-1200"><span class="linenos">1200</span></a>                    <span class="n">filtered_idl_d</span> <span class="o">=</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="L-1201"><a href="#L-1201"><span class="linenos">1201</span></a>
+</span><span id="L-1202"><a href="#L-1202"><span class="linenos">1202</span></a>                <span class="n">new_samples</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">filtered_deltas</span><span class="p">)</span>
+</span><span id="L-1203"><a href="#L-1203"><span class="linenos">1203</span></a>                <span class="n">new_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">filtered_idl_d</span><span class="p">)</span>
+</span><span id="L-1204"><a href="#L-1204"><span class="linenos">1204</span></a>                <span class="n">new_means</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">new_r_values</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i_val</span><span class="p">])</span>
+</span><span id="L-1205"><a href="#L-1205"><span class="linenos">1205</span></a>                <span class="n">new_names_obs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="L-1206"><a href="#L-1206"><span class="linenos">1206</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="n">new_names_obs</span><span class="p">,</span> <span class="n">means</span><span class="o">=</span><span class="n">new_means</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">new_idl</span><span class="p">)</span>
+</span><span id="L-1207"><a href="#L-1207"><span class="linenos">1207</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_covobs</span><span class="p">:</span>
+</span><span id="L-1208"><a href="#L-1208"><span class="linenos">1208</span></a>            <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="L-1209"><a href="#L-1209"><span class="linenos">1209</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="n">new_covobs</span>
+</span><span id="L-1210"><a href="#L-1210"><span class="linenos">1210</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">new_val</span>
+</span><span id="L-1211"><a href="#L-1211"><span class="linenos">1211</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">is_merged</span>
+</span><span id="L-1212"><a href="#L-1212"><span class="linenos">1212</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">reweighted</span>
+</span><span id="L-1213"><a href="#L-1213"><span class="linenos">1213</span></a>
+</span><span id="L-1214"><a href="#L-1214"><span class="linenos">1214</span></a>    <span class="k">if</span> <span class="n">multi</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-1215"><a href="#L-1215"><span class="linenos">1215</span></a>        <span class="n">final_result</span> <span class="o">=</span> <span class="n">final_result</span><span class="o">.</span><span class="n">item</span><span class="p">()</span>
+</span><span id="L-1216"><a href="#L-1216"><span class="linenos">1216</span></a>
+</span><span id="L-1217"><a href="#L-1217"><span class="linenos">1217</span></a>    <span class="k">return</span> <span class="n">final_result</span>
 </span><span id="L-1218"><a href="#L-1218"><span class="linenos">1218</span></a>
-</span><span id="L-1219"><a href="#L-1219"><span class="linenos">1219</span></a><span class="k">def</span> <span class="nf">_reduce_deltas</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">idx_old</span><span class="p">,</span> <span class="n">idx_new</span><span class="p">):</span>
-</span><span id="L-1220"><a href="#L-1220"><span class="linenos">1220</span></a>    <span class="sd">&quot;&quot;&quot;Extract deltas defined on idx_old on all configs of idx_new.</span>
-</span><span id="L-1221"><a href="#L-1221"><span class="linenos">1221</span></a>
-</span><span id="L-1222"><a href="#L-1222"><span class="linenos">1222</span></a><span class="sd">    Assumes, that idx_old and idx_new are correctly defined idl, i.e., they</span>
-</span><span id="L-1223"><a href="#L-1223"><span class="linenos">1223</span></a><span class="sd">    are ordered in an ascending order.</span>
-</span><span id="L-1224"><a href="#L-1224"><span class="linenos">1224</span></a>
-</span><span id="L-1225"><a href="#L-1225"><span class="linenos">1225</span></a><span class="sd">    Parameters</span>
-</span><span id="L-1226"><a href="#L-1226"><span class="linenos">1226</span></a><span class="sd">    ----------</span>
-</span><span id="L-1227"><a href="#L-1227"><span class="linenos">1227</span></a><span class="sd">    deltas : list</span>
-</span><span id="L-1228"><a href="#L-1228"><span class="linenos">1228</span></a><span class="sd">        List of fluctuations</span>
-</span><span id="L-1229"><a href="#L-1229"><span class="linenos">1229</span></a><span class="sd">    idx_old : list</span>
-</span><span id="L-1230"><a href="#L-1230"><span class="linenos">1230</span></a><span class="sd">        List or range of configs on which the deltas are defined</span>
-</span><span id="L-1231"><a href="#L-1231"><span class="linenos">1231</span></a><span class="sd">    idx_new : list</span>
-</span><span id="L-1232"><a href="#L-1232"><span class="linenos">1232</span></a><span class="sd">        List of configs for which we want to extract the deltas.</span>
-</span><span id="L-1233"><a href="#L-1233"><span class="linenos">1233</span></a><span class="sd">        Has to be a subset of idx_old.</span>
-</span><span id="L-1234"><a href="#L-1234"><span class="linenos">1234</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-1235"><a href="#L-1235"><span class="linenos">1235</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx_old</span><span class="p">):</span>
-</span><span id="L-1236"><a href="#L-1236"><span class="linenos">1236</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of deltas and idx_old have to be the same: </span><span class="si">%d</span><span class="s1"> != </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">),</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx_old</span><span class="p">)))</span>
-</span><span id="L-1237"><a href="#L-1237"><span class="linenos">1237</span></a>    <span class="k">if</span> <span class="nb">type</span><span class="p">(</span><span class="n">idx_old</span><span class="p">)</span> <span class="ow">is</span> <span class="nb">range</span> <span class="ow">and</span> <span class="nb">type</span><span class="p">(</span><span class="n">idx_new</span><span class="p">)</span> <span class="ow">is</span> <span class="nb">range</span><span class="p">:</span>
-</span><span id="L-1238"><a href="#L-1238"><span class="linenos">1238</span></a>        <span class="k">if</span> <span class="n">idx_old</span> <span class="o">==</span> <span class="n">idx_new</span><span class="p">:</span>
-</span><span id="L-1239"><a href="#L-1239"><span class="linenos">1239</span></a>            <span class="k">return</span> <span class="n">deltas</span>
-</span><span id="L-1240"><a href="#L-1240"><span class="linenos">1240</span></a>    <span class="n">shape</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx_new</span><span class="p">)</span>
-</span><span id="L-1241"><a href="#L-1241"><span class="linenos">1241</span></a>    <span class="n">ret</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">shape</span><span class="p">)</span>
-</span><span id="L-1242"><a href="#L-1242"><span class="linenos">1242</span></a>    <span class="n">oldpos</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-1243"><a href="#L-1243"><span class="linenos">1243</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">shape</span><span class="p">):</span>
-</span><span id="L-1244"><a href="#L-1244"><span class="linenos">1244</span></a>        <span class="n">pos</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
-</span><span id="L-1245"><a href="#L-1245"><span class="linenos">1245</span></a>        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">oldpos</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx_old</span><span class="p">)):</span>
-</span><span id="L-1246"><a href="#L-1246"><span class="linenos">1246</span></a>            <span class="k">if</span> <span class="n">idx_old</span><span class="p">[</span><span class="n">j</span><span class="p">]</span> <span class="o">==</span> <span class="n">idx_new</span><span class="p">[</span><span class="n">i</span><span class="p">]:</span>
-</span><span id="L-1247"><a href="#L-1247"><span class="linenos">1247</span></a>                <span class="n">pos</span> <span class="o">=</span> <span class="n">j</span>
-</span><span id="L-1248"><a href="#L-1248"><span class="linenos">1248</span></a>                <span class="k">break</span>
-</span><span id="L-1249"><a href="#L-1249"><span class="linenos">1249</span></a>        <span class="k">if</span> <span class="n">pos</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="L-1250"><a href="#L-1250"><span class="linenos">1250</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error in _reduce_deltas: Config </span><span class="si">%d</span><span class="s1"> not in idx_old&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">idx_new</span><span class="p">[</span><span class="n">i</span><span class="p">]))</span>
-</span><span id="L-1251"><a href="#L-1251"><span class="linenos">1251</span></a>        <span class="n">ret</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">deltas</span><span class="p">[</span><span class="n">pos</span><span class="p">]</span>
-</span><span id="L-1252"><a href="#L-1252"><span class="linenos">1252</span></a>        <span class="n">oldpos</span> <span class="o">=</span> <span class="n">pos</span>
-</span><span id="L-1253"><a href="#L-1253"><span class="linenos">1253</span></a>    <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">ret</span><span class="p">)</span>
-</span><span id="L-1254"><a href="#L-1254"><span class="linenos">1254</span></a>
+</span><span id="L-1219"><a href="#L-1219"><span class="linenos">1219</span></a>
+</span><span id="L-1220"><a href="#L-1220"><span class="linenos">1220</span></a><span class="k">def</span> <span class="nf">_reduce_deltas</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">idx_old</span><span class="p">,</span> <span class="n">idx_new</span><span class="p">):</span>
+</span><span id="L-1221"><a href="#L-1221"><span class="linenos">1221</span></a>    <span class="sd">&quot;&quot;&quot;Extract deltas defined on idx_old on all configs of idx_new.</span>
+</span><span id="L-1222"><a href="#L-1222"><span class="linenos">1222</span></a>
+</span><span id="L-1223"><a href="#L-1223"><span class="linenos">1223</span></a><span class="sd">    Assumes, that idx_old and idx_new are correctly defined idl, i.e., they</span>
+</span><span id="L-1224"><a href="#L-1224"><span class="linenos">1224</span></a><span class="sd">    are ordered in an ascending order.</span>
+</span><span id="L-1225"><a href="#L-1225"><span class="linenos">1225</span></a>
+</span><span id="L-1226"><a href="#L-1226"><span class="linenos">1226</span></a><span class="sd">    Parameters</span>
+</span><span id="L-1227"><a href="#L-1227"><span class="linenos">1227</span></a><span class="sd">    ----------</span>
+</span><span id="L-1228"><a href="#L-1228"><span class="linenos">1228</span></a><span class="sd">    deltas : list</span>
+</span><span id="L-1229"><a href="#L-1229"><span class="linenos">1229</span></a><span class="sd">        List of fluctuations</span>
+</span><span id="L-1230"><a href="#L-1230"><span class="linenos">1230</span></a><span class="sd">    idx_old : list</span>
+</span><span id="L-1231"><a href="#L-1231"><span class="linenos">1231</span></a><span class="sd">        List or range of configs on which the deltas are defined</span>
+</span><span id="L-1232"><a href="#L-1232"><span class="linenos">1232</span></a><span class="sd">    idx_new : list</span>
+</span><span id="L-1233"><a href="#L-1233"><span class="linenos">1233</span></a><span class="sd">        List of configs for which we want to extract the deltas.</span>
+</span><span id="L-1234"><a href="#L-1234"><span class="linenos">1234</span></a><span class="sd">        Has to be a subset of idx_old.</span>
+</span><span id="L-1235"><a href="#L-1235"><span class="linenos">1235</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-1236"><a href="#L-1236"><span class="linenos">1236</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx_old</span><span class="p">):</span>
+</span><span id="L-1237"><a href="#L-1237"><span class="linenos">1237</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of deltas and idx_old have to be the same: </span><span class="si">%d</span><span class="s1"> != </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">),</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx_old</span><span class="p">)))</span>
+</span><span id="L-1238"><a href="#L-1238"><span class="linenos">1238</span></a>    <span class="k">if</span> <span class="nb">type</span><span class="p">(</span><span class="n">idx_old</span><span class="p">)</span> <span class="ow">is</span> <span class="nb">range</span> <span class="ow">and</span> <span class="nb">type</span><span class="p">(</span><span class="n">idx_new</span><span class="p">)</span> <span class="ow">is</span> <span class="nb">range</span><span class="p">:</span>
+</span><span id="L-1239"><a href="#L-1239"><span class="linenos">1239</span></a>        <span class="k">if</span> <span class="n">idx_old</span> <span class="o">==</span> <span class="n">idx_new</span><span class="p">:</span>
+</span><span id="L-1240"><a href="#L-1240"><span class="linenos">1240</span></a>            <span class="k">return</span> <span class="n">deltas</span>
+</span><span id="L-1241"><a href="#L-1241"><span class="linenos">1241</span></a>    <span class="n">shape</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx_new</span><span class="p">)</span>
+</span><span id="L-1242"><a href="#L-1242"><span class="linenos">1242</span></a>    <span class="n">ret</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">shape</span><span class="p">)</span>
+</span><span id="L-1243"><a href="#L-1243"><span class="linenos">1243</span></a>    <span class="n">oldpos</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-1244"><a href="#L-1244"><span class="linenos">1244</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">shape</span><span class="p">):</span>
+</span><span id="L-1245"><a href="#L-1245"><span class="linenos">1245</span></a>        <span class="n">pos</span> <span class="o">=</span> <span class="o">-</span><span class="mi">1</span>
+</span><span id="L-1246"><a href="#L-1246"><span class="linenos">1246</span></a>        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">oldpos</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx_old</span><span class="p">)):</span>
+</span><span id="L-1247"><a href="#L-1247"><span class="linenos">1247</span></a>            <span class="k">if</span> <span class="n">idx_old</span><span class="p">[</span><span class="n">j</span><span class="p">]</span> <span class="o">==</span> <span class="n">idx_new</span><span class="p">[</span><span class="n">i</span><span class="p">]:</span>
+</span><span id="L-1248"><a href="#L-1248"><span class="linenos">1248</span></a>                <span class="n">pos</span> <span class="o">=</span> <span class="n">j</span>
+</span><span id="L-1249"><a href="#L-1249"><span class="linenos">1249</span></a>                <span class="k">break</span>
+</span><span id="L-1250"><a href="#L-1250"><span class="linenos">1250</span></a>        <span class="k">if</span> <span class="n">pos</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="L-1251"><a href="#L-1251"><span class="linenos">1251</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error in _reduce_deltas: Config </span><span class="si">%d</span><span class="s1"> not in idx_old&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">idx_new</span><span class="p">[</span><span class="n">i</span><span class="p">]))</span>
+</span><span id="L-1252"><a href="#L-1252"><span class="linenos">1252</span></a>        <span class="n">ret</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">deltas</span><span class="p">[</span><span class="n">pos</span><span class="p">]</span>
+</span><span id="L-1253"><a href="#L-1253"><span class="linenos">1253</span></a>        <span class="n">oldpos</span> <span class="o">=</span> <span class="n">pos</span>
+</span><span id="L-1254"><a href="#L-1254"><span class="linenos">1254</span></a>    <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">ret</span><span class="p">)</span>
 </span><span id="L-1255"><a href="#L-1255"><span class="linenos">1255</span></a>
-</span><span id="L-1256"><a href="#L-1256"><span class="linenos">1256</span></a><span class="k">def</span> <span class="nf">reweight</span><span class="p">(</span><span class="n">weight</span><span class="p">,</span> <span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-1257"><a href="#L-1257"><span class="linenos">1257</span></a>    <span class="sd">&quot;&quot;&quot;Reweight a list of observables.</span>
-</span><span id="L-1258"><a href="#L-1258"><span class="linenos">1258</span></a>
-</span><span id="L-1259"><a href="#L-1259"><span class="linenos">1259</span></a><span class="sd">    Parameters</span>
-</span><span id="L-1260"><a href="#L-1260"><span class="linenos">1260</span></a><span class="sd">    ----------</span>
-</span><span id="L-1261"><a href="#L-1261"><span class="linenos">1261</span></a><span class="sd">    weight : Obs</span>
-</span><span id="L-1262"><a href="#L-1262"><span class="linenos">1262</span></a><span class="sd">        Reweighting factor. An Observable that has to be defined on a superset of the</span>
-</span><span id="L-1263"><a href="#L-1263"><span class="linenos">1263</span></a><span class="sd">        configurations in obs[i].idl for all i.</span>
-</span><span id="L-1264"><a href="#L-1264"><span class="linenos">1264</span></a><span class="sd">    obs : list</span>
-</span><span id="L-1265"><a href="#L-1265"><span class="linenos">1265</span></a><span class="sd">        list of Obs, e.g. [obs1, obs2, obs3].</span>
-</span><span id="L-1266"><a href="#L-1266"><span class="linenos">1266</span></a><span class="sd">    all_configs : bool</span>
-</span><span id="L-1267"><a href="#L-1267"><span class="linenos">1267</span></a><span class="sd">        if True, the reweighted observables are normalized by the average of</span>
-</span><span id="L-1268"><a href="#L-1268"><span class="linenos">1268</span></a><span class="sd">        the reweighting factor on all configurations in weight.idl and not</span>
-</span><span id="L-1269"><a href="#L-1269"><span class="linenos">1269</span></a><span class="sd">        on the configurations in obs[i].idl.</span>
-</span><span id="L-1270"><a href="#L-1270"><span class="linenos">1270</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-1271"><a href="#L-1271"><span class="linenos">1271</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1272"><a href="#L-1272"><span class="linenos">1272</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="p">)):</span>
-</span><span id="L-1273"><a href="#L-1273"><span class="linenos">1273</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">cov_names</span><span class="p">):</span>
-</span><span id="L-1274"><a href="#L-1274"><span class="linenos">1274</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not possible to reweight an Obs that contains covobs!&#39;</span><span class="p">)</span>
-</span><span id="L-1275"><a href="#L-1275"><span class="linenos">1275</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)</span><span class="o">.</span><span class="n">issubset</span><span class="p">(</span><span class="n">weight</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
-</span><span id="L-1276"><a href="#L-1276"><span class="linenos">1276</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Ensembles do not fit&#39;</span><span class="p">)</span>
-</span><span id="L-1277"><a href="#L-1277"><span class="linenos">1277</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
-</span><span id="L-1278"><a href="#L-1278"><span class="linenos">1278</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span><span class="o">.</span><span class="n">issubset</span><span class="p">(</span><span class="n">weight</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]):</span>
-</span><span id="L-1279"><a href="#L-1279"><span class="linenos">1279</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;obs[</span><span class="si">%d</span><span class="s1">] has to be defined on a subset of the configs in weight.idl[</span><span class="si">%s</span><span class="s1">]!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">name</span><span class="p">))</span>
-</span><span id="L-1280"><a href="#L-1280"><span class="linenos">1280</span></a>        <span class="n">new_samples</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1281"><a href="#L-1281"><span class="linenos">1281</span></a>        <span class="n">w_deltas</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-1282"><a href="#L-1282"><span class="linenos">1282</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
-</span><span id="L-1283"><a href="#L-1283"><span class="linenos">1283</span></a>            <span class="n">w_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">_reduce_deltas</span><span class="p">(</span><span class="n">weight</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">weight</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="L-1284"><a href="#L-1284"><span class="linenos">1284</span></a>            <span class="n">new_samples</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">w_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">weight</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
-</span><span id="L-1285"><a href="#L-1285"><span class="linenos">1285</span></a>        <span class="n">tmp_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">),</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)])</span>
-</span><span id="L-1286"><a href="#L-1286"><span class="linenos">1286</span></a>
-</span><span id="L-1287"><a href="#L-1287"><span class="linenos">1287</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;all_configs&#39;</span><span class="p">):</span>
-</span><span id="L-1288"><a href="#L-1288"><span class="linenos">1288</span></a>            <span class="n">new_weight</span> <span class="o">=</span> <span class="n">weight</span>
-</span><span id="L-1289"><a href="#L-1289"><span class="linenos">1289</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1290"><a href="#L-1290"><span class="linenos">1290</span></a>            <span class="n">new_weight</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">w_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">weight</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)],</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">),</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)])</span>
-</span><span id="L-1291"><a href="#L-1291"><span class="linenos">1291</span></a>
-</span><span id="L-1292"><a href="#L-1292"><span class="linenos">1292</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="n">tmp_obs</span><span class="p">,</span> <span class="n">new_weight</span><span class="p">],</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">))</span>
-</span><span id="L-1293"><a href="#L-1293"><span class="linenos">1293</span></a>        <span class="n">result</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="L-1294"><a href="#L-1294"><span class="linenos">1294</span></a>        <span class="n">result</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span>
-</span><span id="L-1295"><a href="#L-1295"><span class="linenos">1295</span></a>
-</span><span id="L-1296"><a href="#L-1296"><span class="linenos">1296</span></a>    <span class="k">return</span> <span class="n">result</span>
-</span><span id="L-1297"><a href="#L-1297"><span class="linenos">1297</span></a>
+</span><span id="L-1256"><a href="#L-1256"><span class="linenos">1256</span></a>
+</span><span id="L-1257"><a href="#L-1257"><span class="linenos">1257</span></a><span class="k">def</span> <span class="nf">reweight</span><span class="p">(</span><span class="n">weight</span><span class="p">,</span> <span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-1258"><a href="#L-1258"><span class="linenos">1258</span></a>    <span class="sd">&quot;&quot;&quot;Reweight a list of observables.</span>
+</span><span id="L-1259"><a href="#L-1259"><span class="linenos">1259</span></a>
+</span><span id="L-1260"><a href="#L-1260"><span class="linenos">1260</span></a><span class="sd">    Parameters</span>
+</span><span id="L-1261"><a href="#L-1261"><span class="linenos">1261</span></a><span class="sd">    ----------</span>
+</span><span id="L-1262"><a href="#L-1262"><span class="linenos">1262</span></a><span class="sd">    weight : Obs</span>
+</span><span id="L-1263"><a href="#L-1263"><span class="linenos">1263</span></a><span class="sd">        Reweighting factor. An Observable that has to be defined on a superset of the</span>
+</span><span id="L-1264"><a href="#L-1264"><span class="linenos">1264</span></a><span class="sd">        configurations in obs[i].idl for all i.</span>
+</span><span id="L-1265"><a href="#L-1265"><span class="linenos">1265</span></a><span class="sd">    obs : list</span>
+</span><span id="L-1266"><a href="#L-1266"><span class="linenos">1266</span></a><span class="sd">        list of Obs, e.g. [obs1, obs2, obs3].</span>
+</span><span id="L-1267"><a href="#L-1267"><span class="linenos">1267</span></a><span class="sd">    all_configs : bool</span>
+</span><span id="L-1268"><a href="#L-1268"><span class="linenos">1268</span></a><span class="sd">        if True, the reweighted observables are normalized by the average of</span>
+</span><span id="L-1269"><a href="#L-1269"><span class="linenos">1269</span></a><span class="sd">        the reweighting factor on all configurations in weight.idl and not</span>
+</span><span id="L-1270"><a href="#L-1270"><span class="linenos">1270</span></a><span class="sd">        on the configurations in obs[i].idl.</span>
+</span><span id="L-1271"><a href="#L-1271"><span class="linenos">1271</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-1272"><a href="#L-1272"><span class="linenos">1272</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1273"><a href="#L-1273"><span class="linenos">1273</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="p">)):</span>
+</span><span id="L-1274"><a href="#L-1274"><span class="linenos">1274</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">cov_names</span><span class="p">):</span>
+</span><span id="L-1275"><a href="#L-1275"><span class="linenos">1275</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not possible to reweight an Obs that contains covobs!&#39;</span><span class="p">)</span>
+</span><span id="L-1276"><a href="#L-1276"><span class="linenos">1276</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)</span><span class="o">.</span><span class="n">issubset</span><span class="p">(</span><span class="n">weight</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
+</span><span id="L-1277"><a href="#L-1277"><span class="linenos">1277</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Ensembles do not fit&#39;</span><span class="p">)</span>
+</span><span id="L-1278"><a href="#L-1278"><span class="linenos">1278</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
+</span><span id="L-1279"><a href="#L-1279"><span class="linenos">1279</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span><span class="o">.</span><span class="n">issubset</span><span class="p">(</span><span class="n">weight</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]):</span>
+</span><span id="L-1280"><a href="#L-1280"><span class="linenos">1280</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;obs[</span><span class="si">%d</span><span class="s1">] has to be defined on a subset of the configs in weight.idl[</span><span class="si">%s</span><span class="s1">]!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">name</span><span class="p">))</span>
+</span><span id="L-1281"><a href="#L-1281"><span class="linenos">1281</span></a>        <span class="n">new_samples</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1282"><a href="#L-1282"><span class="linenos">1282</span></a>        <span class="n">w_deltas</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-1283"><a href="#L-1283"><span class="linenos">1283</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
+</span><span id="L-1284"><a href="#L-1284"><span class="linenos">1284</span></a>            <span class="n">w_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">_reduce_deltas</span><span class="p">(</span><span class="n">weight</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">weight</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="L-1285"><a href="#L-1285"><span class="linenos">1285</span></a>            <span class="n">new_samples</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">w_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">weight</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
+</span><span id="L-1286"><a href="#L-1286"><span class="linenos">1286</span></a>        <span class="n">tmp_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">),</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)])</span>
+</span><span id="L-1287"><a href="#L-1287"><span class="linenos">1287</span></a>
+</span><span id="L-1288"><a href="#L-1288"><span class="linenos">1288</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;all_configs&#39;</span><span class="p">):</span>
+</span><span id="L-1289"><a href="#L-1289"><span class="linenos">1289</span></a>            <span class="n">new_weight</span> <span class="o">=</span> <span class="n">weight</span>
+</span><span id="L-1290"><a href="#L-1290"><span class="linenos">1290</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1291"><a href="#L-1291"><span class="linenos">1291</span></a>            <span class="n">new_weight</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">w_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">weight</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)],</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">),</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)])</span>
+</span><span id="L-1292"><a href="#L-1292"><span class="linenos">1292</span></a>
+</span><span id="L-1293"><a href="#L-1293"><span class="linenos">1293</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="n">tmp_obs</span><span class="p">,</span> <span class="n">new_weight</span><span class="p">],</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">))</span>
+</span><span id="L-1294"><a href="#L-1294"><span class="linenos">1294</span></a>        <span class="n">result</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="L-1295"><a href="#L-1295"><span class="linenos">1295</span></a>        <span class="n">result</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span>
+</span><span id="L-1296"><a href="#L-1296"><span class="linenos">1296</span></a>
+</span><span id="L-1297"><a href="#L-1297"><span class="linenos">1297</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span><span id="L-1298"><a href="#L-1298"><span class="linenos">1298</span></a>
-</span><span id="L-1299"><a href="#L-1299"><span class="linenos">1299</span></a><span class="k">def</span> <span class="nf">correlate</span><span class="p">(</span><span class="n">obs_a</span><span class="p">,</span> <span class="n">obs_b</span><span class="p">):</span>
-</span><span id="L-1300"><a href="#L-1300"><span class="linenos">1300</span></a>    <span class="sd">&quot;&quot;&quot;Correlate two observables.</span>
-</span><span id="L-1301"><a href="#L-1301"><span class="linenos">1301</span></a>
-</span><span id="L-1302"><a href="#L-1302"><span class="linenos">1302</span></a><span class="sd">    Parameters</span>
-</span><span id="L-1303"><a href="#L-1303"><span class="linenos">1303</span></a><span class="sd">    ----------</span>
-</span><span id="L-1304"><a href="#L-1304"><span class="linenos">1304</span></a><span class="sd">    obs_a : Obs</span>
-</span><span id="L-1305"><a href="#L-1305"><span class="linenos">1305</span></a><span class="sd">        First observable</span>
-</span><span id="L-1306"><a href="#L-1306"><span class="linenos">1306</span></a><span class="sd">    obs_b : Obs</span>
-</span><span id="L-1307"><a href="#L-1307"><span class="linenos">1307</span></a><span class="sd">        Second observable</span>
-</span><span id="L-1308"><a href="#L-1308"><span class="linenos">1308</span></a>
-</span><span id="L-1309"><a href="#L-1309"><span class="linenos">1309</span></a><span class="sd">    Notes</span>
-</span><span id="L-1310"><a href="#L-1310"><span class="linenos">1310</span></a><span class="sd">    -----</span>
-</span><span id="L-1311"><a href="#L-1311"><span class="linenos">1311</span></a><span class="sd">    Keep in mind to only correlate primary observables which have not been reweighted</span>
-</span><span id="L-1312"><a href="#L-1312"><span class="linenos">1312</span></a><span class="sd">    yet. The reweighting has to be applied after correlating the observables.</span>
-</span><span id="L-1313"><a href="#L-1313"><span class="linenos">1313</span></a><span class="sd">    Currently only works if ensembles are identical (this is not strictly necessary).</span>
-</span><span id="L-1314"><a href="#L-1314"><span class="linenos">1314</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-1315"><a href="#L-1315"><span class="linenos">1315</span></a>
-</span><span id="L-1316"><a href="#L-1316"><span class="linenos">1316</span></a>    <span class="k">if</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_b</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
-</span><span id="L-1317"><a href="#L-1317"><span class="linenos">1317</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Ensembles do not fit&#39;</span><span class="p">)</span>
-</span><span id="L-1318"><a href="#L-1318"><span class="linenos">1318</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">cov_names</span><span class="p">)</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs_b</span><span class="o">.</span><span class="n">cov_names</span><span class="p">):</span>
-</span><span id="L-1319"><a href="#L-1319"><span class="linenos">1319</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not possible to correlate Obs that contain covobs!&#39;</span><span class="p">)</span>
-</span><span id="L-1320"><a href="#L-1320"><span class="linenos">1320</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
-</span><span id="L-1321"><a href="#L-1321"><span class="linenos">1321</span></a>        <span class="k">if</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">!=</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="L-1322"><a href="#L-1322"><span class="linenos">1322</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Shapes of ensemble&#39;</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;do not fit&#39;</span><span class="p">)</span>
-</span><span id="L-1323"><a href="#L-1323"><span class="linenos">1323</span></a>        <span class="k">if</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">!=</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="L-1324"><a href="#L-1324"><span class="linenos">1324</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;idl of ensemble&#39;</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;do not fit&#39;</span><span class="p">)</span>
-</span><span id="L-1325"><a href="#L-1325"><span class="linenos">1325</span></a>
-</span><span id="L-1326"><a href="#L-1326"><span class="linenos">1326</span></a>    <span class="k">if</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-1327"><a href="#L-1327"><span class="linenos">1327</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;The first observable is already reweighted.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-1328"><a href="#L-1328"><span class="linenos">1328</span></a>    <span class="k">if</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-1329"><a href="#L-1329"><span class="linenos">1329</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;The second observable is already reweighted.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="L-1330"><a href="#L-1330"><span class="linenos">1330</span></a>
-</span><span id="L-1331"><a href="#L-1331"><span class="linenos">1331</span></a>    <span class="n">new_samples</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1332"><a href="#L-1332"><span class="linenos">1332</span></a>    <span class="n">new_idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1333"><a href="#L-1333"><span class="linenos">1333</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
-</span><span id="L-1334"><a href="#L-1334"><span class="linenos">1334</span></a>        <span class="n">new_samples</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">obs_a</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="n">obs_b</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
-</span><span id="L-1335"><a href="#L-1335"><span class="linenos">1335</span></a>        <span class="n">new_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="L-1336"><a href="#L-1336"><span class="linenos">1336</span></a>
-</span><span id="L-1337"><a href="#L-1337"><span class="linenos">1337</span></a>    <span class="n">o</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">),</span> <span class="n">idl</span><span class="o">=</span><span class="n">new_idl</span><span class="p">)</span>
-</span><span id="L-1338"><a href="#L-1338"><span class="linenos">1338</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span> <span class="ow">or</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">))</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">names</span><span class="p">}</span>
-</span><span id="L-1339"><a href="#L-1339"><span class="linenos">1339</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">or</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">reweighted</span>
-</span><span id="L-1340"><a href="#L-1340"><span class="linenos">1340</span></a>    <span class="k">return</span> <span class="n">o</span>
-</span><span id="L-1341"><a href="#L-1341"><span class="linenos">1341</span></a>
+</span><span id="L-1299"><a href="#L-1299"><span class="linenos">1299</span></a>
+</span><span id="L-1300"><a href="#L-1300"><span class="linenos">1300</span></a><span class="k">def</span> <span class="nf">correlate</span><span class="p">(</span><span class="n">obs_a</span><span class="p">,</span> <span class="n">obs_b</span><span class="p">):</span>
+</span><span id="L-1301"><a href="#L-1301"><span class="linenos">1301</span></a>    <span class="sd">&quot;&quot;&quot;Correlate two observables.</span>
+</span><span id="L-1302"><a href="#L-1302"><span class="linenos">1302</span></a>
+</span><span id="L-1303"><a href="#L-1303"><span class="linenos">1303</span></a><span class="sd">    Parameters</span>
+</span><span id="L-1304"><a href="#L-1304"><span class="linenos">1304</span></a><span class="sd">    ----------</span>
+</span><span id="L-1305"><a href="#L-1305"><span class="linenos">1305</span></a><span class="sd">    obs_a : Obs</span>
+</span><span id="L-1306"><a href="#L-1306"><span class="linenos">1306</span></a><span class="sd">        First observable</span>
+</span><span id="L-1307"><a href="#L-1307"><span class="linenos">1307</span></a><span class="sd">    obs_b : Obs</span>
+</span><span id="L-1308"><a href="#L-1308"><span class="linenos">1308</span></a><span class="sd">        Second observable</span>
+</span><span id="L-1309"><a href="#L-1309"><span class="linenos">1309</span></a>
+</span><span id="L-1310"><a href="#L-1310"><span class="linenos">1310</span></a><span class="sd">    Notes</span>
+</span><span id="L-1311"><a href="#L-1311"><span class="linenos">1311</span></a><span class="sd">    -----</span>
+</span><span id="L-1312"><a href="#L-1312"><span class="linenos">1312</span></a><span class="sd">    Keep in mind to only correlate primary observables which have not been reweighted</span>
+</span><span id="L-1313"><a href="#L-1313"><span class="linenos">1313</span></a><span class="sd">    yet. The reweighting has to be applied after correlating the observables.</span>
+</span><span id="L-1314"><a href="#L-1314"><span class="linenos">1314</span></a><span class="sd">    Currently only works if ensembles are identical (this is not strictly necessary).</span>
+</span><span id="L-1315"><a href="#L-1315"><span class="linenos">1315</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-1316"><a href="#L-1316"><span class="linenos">1316</span></a>
+</span><span id="L-1317"><a href="#L-1317"><span class="linenos">1317</span></a>    <span class="k">if</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_b</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
+</span><span id="L-1318"><a href="#L-1318"><span class="linenos">1318</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Ensembles do not fit&#39;</span><span class="p">)</span>
+</span><span id="L-1319"><a href="#L-1319"><span class="linenos">1319</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">cov_names</span><span class="p">)</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs_b</span><span class="o">.</span><span class="n">cov_names</span><span class="p">):</span>
+</span><span id="L-1320"><a href="#L-1320"><span class="linenos">1320</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not possible to correlate Obs that contain covobs!&#39;</span><span class="p">)</span>
+</span><span id="L-1321"><a href="#L-1321"><span class="linenos">1321</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
+</span><span id="L-1322"><a href="#L-1322"><span class="linenos">1322</span></a>        <span class="k">if</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">!=</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="L-1323"><a href="#L-1323"><span class="linenos">1323</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Shapes of ensemble&#39;</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;do not fit&#39;</span><span class="p">)</span>
+</span><span id="L-1324"><a href="#L-1324"><span class="linenos">1324</span></a>        <span class="k">if</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">!=</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="L-1325"><a href="#L-1325"><span class="linenos">1325</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;idl of ensemble&#39;</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;do not fit&#39;</span><span class="p">)</span>
+</span><span id="L-1326"><a href="#L-1326"><span class="linenos">1326</span></a>
+</span><span id="L-1327"><a href="#L-1327"><span class="linenos">1327</span></a>    <span class="k">if</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-1328"><a href="#L-1328"><span class="linenos">1328</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;The first observable is already reweighted.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-1329"><a href="#L-1329"><span class="linenos">1329</span></a>    <span class="k">if</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-1330"><a href="#L-1330"><span class="linenos">1330</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;The second observable is already reweighted.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-1331"><a href="#L-1331"><span class="linenos">1331</span></a>
+</span><span id="L-1332"><a href="#L-1332"><span class="linenos">1332</span></a>    <span class="n">new_samples</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1333"><a href="#L-1333"><span class="linenos">1333</span></a>    <span class="n">new_idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1334"><a href="#L-1334"><span class="linenos">1334</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
+</span><span id="L-1335"><a href="#L-1335"><span class="linenos">1335</span></a>        <span class="n">new_samples</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">obs_a</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="n">obs_b</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
+</span><span id="L-1336"><a href="#L-1336"><span class="linenos">1336</span></a>        <span class="n">new_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="L-1337"><a href="#L-1337"><span class="linenos">1337</span></a>
+</span><span id="L-1338"><a href="#L-1338"><span class="linenos">1338</span></a>    <span class="n">o</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">),</span> <span class="n">idl</span><span class="o">=</span><span class="n">new_idl</span><span class="p">)</span>
+</span><span id="L-1339"><a href="#L-1339"><span class="linenos">1339</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span> <span class="ow">or</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">))</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">names</span><span class="p">}</span>
+</span><span id="L-1340"><a href="#L-1340"><span class="linenos">1340</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">or</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">reweighted</span>
+</span><span id="L-1341"><a href="#L-1341"><span class="linenos">1341</span></a>    <span class="k">return</span> <span class="n">o</span>
 </span><span id="L-1342"><a href="#L-1342"><span class="linenos">1342</span></a>
-</span><span id="L-1343"><a href="#L-1343"><span class="linenos">1343</span></a><span class="k">def</span> <span class="nf">covariance</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="n">visualize</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">correlation</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">smooth</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-1344"><a href="#L-1344"><span class="linenos">1344</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Calculates the covariance matrix of a set of observables.</span>
-</span><span id="L-1345"><a href="#L-1345"><span class="linenos">1345</span></a>
-</span><span id="L-1346"><a href="#L-1346"><span class="linenos">1346</span></a><span class="sd">    The gamma method has to be applied first to all observables.</span>
-</span><span id="L-1347"><a href="#L-1347"><span class="linenos">1347</span></a>
-</span><span id="L-1348"><a href="#L-1348"><span class="linenos">1348</span></a><span class="sd">    Parameters</span>
-</span><span id="L-1349"><a href="#L-1349"><span class="linenos">1349</span></a><span class="sd">    ----------</span>
-</span><span id="L-1350"><a href="#L-1350"><span class="linenos">1350</span></a><span class="sd">    obs : list or numpy.ndarray</span>
-</span><span id="L-1351"><a href="#L-1351"><span class="linenos">1351</span></a><span class="sd">        List or one dimensional array of Obs</span>
-</span><span id="L-1352"><a href="#L-1352"><span class="linenos">1352</span></a><span class="sd">    visualize : bool</span>
-</span><span id="L-1353"><a href="#L-1353"><span class="linenos">1353</span></a><span class="sd">        If True plots the corresponding normalized correlation matrix (default False).</span>
-</span><span id="L-1354"><a href="#L-1354"><span class="linenos">1354</span></a><span class="sd">    correlation : bool</span>
-</span><span id="L-1355"><a href="#L-1355"><span class="linenos">1355</span></a><span class="sd">        If True the correlation instead of the covariance is returned (default False).</span>
-</span><span id="L-1356"><a href="#L-1356"><span class="linenos">1356</span></a><span class="sd">    smooth : None or int</span>
-</span><span id="L-1357"><a href="#L-1357"><span class="linenos">1357</span></a><span class="sd">        If smooth is an integer &#39;E&#39; between 2 and the dimension of the matrix minus 1 the eigenvalue</span>
-</span><span id="L-1358"><a href="#L-1358"><span class="linenos">1358</span></a><span class="sd">        smoothing procedure of hep-lat/9412087 is applied to the correlation matrix which leaves the</span>
-</span><span id="L-1359"><a href="#L-1359"><span class="linenos">1359</span></a><span class="sd">        largest E eigenvalues essentially unchanged and smoothes the smaller eigenvalues to avoid extremely</span>
-</span><span id="L-1360"><a href="#L-1360"><span class="linenos">1360</span></a><span class="sd">        small ones.</span>
-</span><span id="L-1361"><a href="#L-1361"><span class="linenos">1361</span></a>
-</span><span id="L-1362"><a href="#L-1362"><span class="linenos">1362</span></a><span class="sd">    Notes</span>
-</span><span id="L-1363"><a href="#L-1363"><span class="linenos">1363</span></a><span class="sd">    -----</span>
-</span><span id="L-1364"><a href="#L-1364"><span class="linenos">1364</span></a><span class="sd">    The covariance is estimated by calculating the correlation matrix assuming no autocorrelation and then rescaling the correlation matrix by the full errors including the previous gamma method estimate for the autocorrelation of the observables. The covariance at windowsize 0 is guaranteed to be positive semi-definite</span>
-</span><span id="L-1365"><a href="#L-1365"><span class="linenos">1365</span></a><span class="sd">    $$v_i\Gamma_{ij}(0)v_j=\frac{1}{N}\sum_{s=1}^N\sum_{i,j}v_i\delta_i^s\delta_j^s v_j=\frac{1}{N}\sum_{s=1}^N\sum_{i}|v_i\delta_i^s|^2\geq 0\,,$$ for every $v\in\mathbb{R}^M$, while such an identity does not hold for larger windows/lags.</span>
-</span><span id="L-1366"><a href="#L-1366"><span class="linenos">1366</span></a><span class="sd">    For observables defined on a single ensemble our approximation is equivalent to assuming that the integrated autocorrelation time of an off-diagonal element is equal to the geometric mean of the integrated autocorrelation times of the corresponding diagonal elements.</span>
-</span><span id="L-1367"><a href="#L-1367"><span class="linenos">1367</span></a><span class="sd">    $$\tau_{\mathrm{int}, ij}=\sqrt{\tau_{\mathrm{int}, i}\times \tau_{\mathrm{int}, j}}$$</span>
-</span><span id="L-1368"><a href="#L-1368"><span class="linenos">1368</span></a><span class="sd">    This construction ensures that the estimated covariance matrix is positive semi-definite (up to numerical rounding errors).</span>
-</span><span id="L-1369"><a href="#L-1369"><span class="linenos">1369</span></a><span class="sd">    &#39;&#39;&#39;</span>
-</span><span id="L-1370"><a href="#L-1370"><span class="linenos">1370</span></a>
-</span><span id="L-1371"><a href="#L-1371"><span class="linenos">1371</span></a>    <span class="n">length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="p">)</span>
-</span><span id="L-1372"><a href="#L-1372"><span class="linenos">1372</span></a>
-</span><span id="L-1373"><a href="#L-1373"><span class="linenos">1373</span></a>    <span class="n">max_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">N</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">])</span>
-</span><span id="L-1374"><a href="#L-1374"><span class="linenos">1374</span></a>    <span class="k">if</span> <span class="n">max_samples</span> <span class="o">&lt;=</span> <span class="n">length</span> <span class="ow">and</span> <span class="ow">not</span> <span class="p">[</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]:</span>
-</span><span id="L-1375"><a href="#L-1375"><span class="linenos">1375</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;The dimension of the covariance matrix (</span><span class="si">{</span><span class="n">length</span><span class="si">}</span><span class="s2">) is larger or equal to the number of samples (</span><span class="si">{</span><span class="n">max_samples</span><span class="si">}</span><span class="s2">). This will result in a rank deficient matrix.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-1343"><a href="#L-1343"><span class="linenos">1343</span></a>
+</span><span id="L-1344"><a href="#L-1344"><span class="linenos">1344</span></a><span class="k">def</span> <span class="nf">covariance</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="n">visualize</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">correlation</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">smooth</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-1345"><a href="#L-1345"><span class="linenos">1345</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Calculates the error covariance matrix of a set of observables.</span>
+</span><span id="L-1346"><a href="#L-1346"><span class="linenos">1346</span></a>
+</span><span id="L-1347"><a href="#L-1347"><span class="linenos">1347</span></a><span class="sd">    The gamma method has to be applied first to all observables.</span>
+</span><span id="L-1348"><a href="#L-1348"><span class="linenos">1348</span></a>
+</span><span id="L-1349"><a href="#L-1349"><span class="linenos">1349</span></a><span class="sd">    Parameters</span>
+</span><span id="L-1350"><a href="#L-1350"><span class="linenos">1350</span></a><span class="sd">    ----------</span>
+</span><span id="L-1351"><a href="#L-1351"><span class="linenos">1351</span></a><span class="sd">    obs : list or numpy.ndarray</span>
+</span><span id="L-1352"><a href="#L-1352"><span class="linenos">1352</span></a><span class="sd">        List or one dimensional array of Obs</span>
+</span><span id="L-1353"><a href="#L-1353"><span class="linenos">1353</span></a><span class="sd">    visualize : bool</span>
+</span><span id="L-1354"><a href="#L-1354"><span class="linenos">1354</span></a><span class="sd">        If True plots the corresponding normalized correlation matrix (default False).</span>
+</span><span id="L-1355"><a href="#L-1355"><span class="linenos">1355</span></a><span class="sd">    correlation : bool</span>
+</span><span id="L-1356"><a href="#L-1356"><span class="linenos">1356</span></a><span class="sd">        If True the correlation matrix instead of the error covariance matrix is returned (default False).</span>
+</span><span id="L-1357"><a href="#L-1357"><span class="linenos">1357</span></a><span class="sd">    smooth : None or int</span>
+</span><span id="L-1358"><a href="#L-1358"><span class="linenos">1358</span></a><span class="sd">        If smooth is an integer &#39;E&#39; between 2 and the dimension of the matrix minus 1 the eigenvalue</span>
+</span><span id="L-1359"><a href="#L-1359"><span class="linenos">1359</span></a><span class="sd">        smoothing procedure of hep-lat/9412087 is applied to the correlation matrix which leaves the</span>
+</span><span id="L-1360"><a href="#L-1360"><span class="linenos">1360</span></a><span class="sd">        largest E eigenvalues essentially unchanged and smoothes the smaller eigenvalues to avoid extremely</span>
+</span><span id="L-1361"><a href="#L-1361"><span class="linenos">1361</span></a><span class="sd">        small ones.</span>
+</span><span id="L-1362"><a href="#L-1362"><span class="linenos">1362</span></a>
+</span><span id="L-1363"><a href="#L-1363"><span class="linenos">1363</span></a><span class="sd">    Notes</span>
+</span><span id="L-1364"><a href="#L-1364"><span class="linenos">1364</span></a><span class="sd">    -----</span>
+</span><span id="L-1365"><a href="#L-1365"><span class="linenos">1365</span></a><span class="sd">    The error covariance is defined such that it agrees with the squared standard error for two identical observables</span>
+</span><span id="L-1366"><a href="#L-1366"><span class="linenos">1366</span></a><span class="sd">    $$\operatorname{cov}(a,a)=\sum_{s=1}^N\delta_a^s\delta_a^s/N^2=\Gamma_{aa}(0)/N=\operatorname{var}(a)/N=\sigma_a^2$$</span>
+</span><span id="L-1367"><a href="#L-1367"><span class="linenos">1367</span></a><span class="sd">    in the absence of autocorrelation.</span>
+</span><span id="L-1368"><a href="#L-1368"><span class="linenos">1368</span></a><span class="sd">    The error covariance is estimated by calculating the correlation matrix assuming no autocorrelation and then rescaling the correlation matrix by the full errors including the previous gamma method estimate for the autocorrelation of the observables. The covariance at windowsize 0 is guaranteed to be positive semi-definite</span>
+</span><span id="L-1369"><a href="#L-1369"><span class="linenos">1369</span></a><span class="sd">    $$\sum_{i,j}v_i\Gamma_{ij}(0)v_j=\frac{1}{N}\sum_{s=1}^N\sum_{i,j}v_i\delta_i^s\delta_j^s v_j=\frac{1}{N}\sum_{s=1}^N\sum_{i}|v_i\delta_i^s|^2\geq 0\,,$$ for every $v\in\mathbb{R}^M$, while such an identity does not hold for larger windows/lags.</span>
+</span><span id="L-1370"><a href="#L-1370"><span class="linenos">1370</span></a><span class="sd">    For observables defined on a single ensemble our approximation is equivalent to assuming that the integrated autocorrelation time of an off-diagonal element is equal to the geometric mean of the integrated autocorrelation times of the corresponding diagonal elements.</span>
+</span><span id="L-1371"><a href="#L-1371"><span class="linenos">1371</span></a><span class="sd">    $$\tau_{\mathrm{int}, ij}=\sqrt{\tau_{\mathrm{int}, i}\times \tau_{\mathrm{int}, j}}$$</span>
+</span><span id="L-1372"><a href="#L-1372"><span class="linenos">1372</span></a><span class="sd">    This construction ensures that the estimated covariance matrix is positive semi-definite (up to numerical rounding errors).</span>
+</span><span id="L-1373"><a href="#L-1373"><span class="linenos">1373</span></a><span class="sd">    &#39;&#39;&#39;</span>
+</span><span id="L-1374"><a href="#L-1374"><span class="linenos">1374</span></a>
+</span><span id="L-1375"><a href="#L-1375"><span class="linenos">1375</span></a>    <span class="n">length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="p">)</span>
 </span><span id="L-1376"><a href="#L-1376"><span class="linenos">1376</span></a>
-</span><span id="L-1377"><a href="#L-1377"><span class="linenos">1377</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="n">length</span><span class="p">,</span> <span class="n">length</span><span class="p">))</span>
-</span><span id="L-1378"><a href="#L-1378"><span class="linenos">1378</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">length</span><span class="p">):</span>
-</span><span id="L-1379"><a href="#L-1379"><span class="linenos">1379</span></a>        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">length</span><span class="p">):</span>
-</span><span id="L-1380"><a href="#L-1380"><span class="linenos">1380</span></a>            <span class="n">cov</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">_covariance_element</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">obs</span><span class="p">[</span><span class="n">j</span><span class="p">])</span>
-</span><span id="L-1381"><a href="#L-1381"><span class="linenos">1381</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">cov</span> <span class="o">+</span> <span class="n">cov</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">))</span>
-</span><span id="L-1382"><a href="#L-1382"><span class="linenos">1382</span></a>
-</span><span id="L-1383"><a href="#L-1383"><span class="linenos">1383</span></a>    <span class="n">corr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">)))</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">)))</span>
-</span><span id="L-1384"><a href="#L-1384"><span class="linenos">1384</span></a>
-</span><span id="L-1385"><a href="#L-1385"><span class="linenos">1385</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">smooth</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
-</span><span id="L-1386"><a href="#L-1386"><span class="linenos">1386</span></a>        <span class="n">corr</span> <span class="o">=</span> <span class="n">_smooth_eigenvalues</span><span class="p">(</span><span class="n">corr</span><span class="p">,</span> <span class="n">smooth</span><span class="p">)</span>
-</span><span id="L-1387"><a href="#L-1387"><span class="linenos">1387</span></a>
-</span><span id="L-1388"><a href="#L-1388"><span class="linenos">1388</span></a>    <span class="n">errors</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">]</span>
-</span><span id="L-1389"><a href="#L-1389"><span class="linenos">1389</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">errors</span><span class="p">)</span> <span class="o">@</span> <span class="n">corr</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">errors</span><span class="p">)</span>
-</span><span id="L-1390"><a href="#L-1390"><span class="linenos">1390</span></a>
-</span><span id="L-1391"><a href="#L-1391"><span class="linenos">1391</span></a>    <span class="n">eigenvalues</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">cov</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-1392"><a href="#L-1392"><span class="linenos">1392</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">eigenvalues</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">):</span>
-</span><span id="L-1393"><a href="#L-1393"><span class="linenos">1393</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Covariance matrix is not positive semi-definite (Eigenvalues: &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">eigenvalues</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;)&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-1377"><a href="#L-1377"><span class="linenos">1377</span></a>    <span class="n">max_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">N</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">])</span>
+</span><span id="L-1378"><a href="#L-1378"><span class="linenos">1378</span></a>    <span class="k">if</span> <span class="n">max_samples</span> <span class="o">&lt;=</span> <span class="n">length</span> <span class="ow">and</span> <span class="ow">not</span> <span class="p">[</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]:</span>
+</span><span id="L-1379"><a href="#L-1379"><span class="linenos">1379</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;The dimension of the covariance matrix (</span><span class="si">{</span><span class="n">length</span><span class="si">}</span><span class="s2">) is larger or equal to the number of samples (</span><span class="si">{</span><span class="n">max_samples</span><span class="si">}</span><span class="s2">). This will result in a rank deficient matrix.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-1380"><a href="#L-1380"><span class="linenos">1380</span></a>
+</span><span id="L-1381"><a href="#L-1381"><span class="linenos">1381</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="n">length</span><span class="p">,</span> <span class="n">length</span><span class="p">))</span>
+</span><span id="L-1382"><a href="#L-1382"><span class="linenos">1382</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">length</span><span class="p">):</span>
+</span><span id="L-1383"><a href="#L-1383"><span class="linenos">1383</span></a>        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">length</span><span class="p">):</span>
+</span><span id="L-1384"><a href="#L-1384"><span class="linenos">1384</span></a>            <span class="n">cov</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">_covariance_element</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">obs</span><span class="p">[</span><span class="n">j</span><span class="p">])</span>
+</span><span id="L-1385"><a href="#L-1385"><span class="linenos">1385</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">cov</span> <span class="o">+</span> <span class="n">cov</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">))</span>
+</span><span id="L-1386"><a href="#L-1386"><span class="linenos">1386</span></a>
+</span><span id="L-1387"><a href="#L-1387"><span class="linenos">1387</span></a>    <span class="n">corr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">)))</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">)))</span>
+</span><span id="L-1388"><a href="#L-1388"><span class="linenos">1388</span></a>
+</span><span id="L-1389"><a href="#L-1389"><span class="linenos">1389</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">smooth</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
+</span><span id="L-1390"><a href="#L-1390"><span class="linenos">1390</span></a>        <span class="n">corr</span> <span class="o">=</span> <span class="n">_smooth_eigenvalues</span><span class="p">(</span><span class="n">corr</span><span class="p">,</span> <span class="n">smooth</span><span class="p">)</span>
+</span><span id="L-1391"><a href="#L-1391"><span class="linenos">1391</span></a>
+</span><span id="L-1392"><a href="#L-1392"><span class="linenos">1392</span></a>    <span class="n">errors</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">]</span>
+</span><span id="L-1393"><a href="#L-1393"><span class="linenos">1393</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">errors</span><span class="p">)</span> <span class="o">@</span> <span class="n">corr</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">errors</span><span class="p">)</span>
 </span><span id="L-1394"><a href="#L-1394"><span class="linenos">1394</span></a>
-</span><span id="L-1395"><a href="#L-1395"><span class="linenos">1395</span></a>    <span class="k">if</span> <span class="n">visualize</span><span class="p">:</span>
-</span><span id="L-1396"><a href="#L-1396"><span class="linenos">1396</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">matshow</span><span class="p">(</span><span class="n">corr</span><span class="p">,</span> <span class="n">vmin</span><span class="o">=-</span><span class="mi">1</span><span class="p">,</span> <span class="n">vmax</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="L-1397"><a href="#L-1397"><span class="linenos">1397</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">set_cmap</span><span class="p">(</span><span class="s1">&#39;RdBu&#39;</span><span class="p">)</span>
-</span><span id="L-1398"><a href="#L-1398"><span class="linenos">1398</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">colorbar</span><span class="p">()</span>
-</span><span id="L-1399"><a href="#L-1399"><span class="linenos">1399</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="L-1400"><a href="#L-1400"><span class="linenos">1400</span></a>
-</span><span id="L-1401"><a href="#L-1401"><span class="linenos">1401</span></a>    <span class="k">if</span> <span class="n">correlation</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="L-1402"><a href="#L-1402"><span class="linenos">1402</span></a>        <span class="k">return</span> <span class="n">corr</span>
-</span><span id="L-1403"><a href="#L-1403"><span class="linenos">1403</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="L-1404"><a href="#L-1404"><span class="linenos">1404</span></a>        <span class="k">return</span> <span class="n">cov</span>
-</span><span id="L-1405"><a href="#L-1405"><span class="linenos">1405</span></a>
-</span><span id="L-1406"><a href="#L-1406"><span class="linenos">1406</span></a>
-</span><span id="L-1407"><a href="#L-1407"><span class="linenos">1407</span></a><span class="k">def</span> <span class="nf">_smooth_eigenvalues</span><span class="p">(</span><span class="n">corr</span><span class="p">,</span> <span class="n">E</span><span class="p">):</span>
-</span><span id="L-1408"><a href="#L-1408"><span class="linenos">1408</span></a>    <span class="sd">&quot;&quot;&quot;Eigenvalue smoothing as described in hep-lat/9412087</span>
+</span><span id="L-1395"><a href="#L-1395"><span class="linenos">1395</span></a>    <span class="n">eigenvalues</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">cov</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-1396"><a href="#L-1396"><span class="linenos">1396</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">eigenvalues</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">):</span>
+</span><span id="L-1397"><a href="#L-1397"><span class="linenos">1397</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Covariance matrix is not positive semi-definite (Eigenvalues: &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">eigenvalues</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;)&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="L-1398"><a href="#L-1398"><span class="linenos">1398</span></a>
+</span><span id="L-1399"><a href="#L-1399"><span class="linenos">1399</span></a>    <span class="k">if</span> <span class="n">visualize</span><span class="p">:</span>
+</span><span id="L-1400"><a href="#L-1400"><span class="linenos">1400</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">matshow</span><span class="p">(</span><span class="n">corr</span><span class="p">,</span> <span class="n">vmin</span><span class="o">=-</span><span class="mi">1</span><span class="p">,</span> <span class="n">vmax</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="L-1401"><a href="#L-1401"><span class="linenos">1401</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">set_cmap</span><span class="p">(</span><span class="s1">&#39;RdBu&#39;</span><span class="p">)</span>
+</span><span id="L-1402"><a href="#L-1402"><span class="linenos">1402</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">colorbar</span><span class="p">()</span>
+</span><span id="L-1403"><a href="#L-1403"><span class="linenos">1403</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="L-1404"><a href="#L-1404"><span class="linenos">1404</span></a>
+</span><span id="L-1405"><a href="#L-1405"><span class="linenos">1405</span></a>    <span class="k">if</span> <span class="n">correlation</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="L-1406"><a href="#L-1406"><span class="linenos">1406</span></a>        <span class="k">return</span> <span class="n">corr</span>
+</span><span id="L-1407"><a href="#L-1407"><span class="linenos">1407</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="L-1408"><a href="#L-1408"><span class="linenos">1408</span></a>        <span class="k">return</span> <span class="n">cov</span>
 </span><span id="L-1409"><a href="#L-1409"><span class="linenos">1409</span></a>
-</span><span id="L-1410"><a href="#L-1410"><span class="linenos">1410</span></a><span class="sd">    corr : np.ndarray</span>
-</span><span id="L-1411"><a href="#L-1411"><span class="linenos">1411</span></a><span class="sd">        correlation matrix</span>
-</span><span id="L-1412"><a href="#L-1412"><span class="linenos">1412</span></a><span class="sd">    E : integer</span>
-</span><span id="L-1413"><a href="#L-1413"><span class="linenos">1413</span></a><span class="sd">        Number of eigenvalues to be left substantially unchanged</span>
-</span><span id="L-1414"><a href="#L-1414"><span class="linenos">1414</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-1415"><a href="#L-1415"><span class="linenos">1415</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="mi">2</span> <span class="o">&lt;</span> <span class="n">E</span> <span class="o">&lt;</span> <span class="n">corr</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
-</span><span id="L-1416"><a href="#L-1416"><span class="linenos">1416</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;&#39;E&#39; has to be between 2 and the dimension of the correlation matrix minus 1 (</span><span class="si">{</span><span class="n">corr</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="si">}</span><span class="s2">).&quot;</span><span class="p">)</span>
-</span><span id="L-1417"><a href="#L-1417"><span class="linenos">1417</span></a>    <span class="n">vals</span><span class="p">,</span> <span class="n">vec</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">corr</span><span class="p">)</span>
-</span><span id="L-1418"><a href="#L-1418"><span class="linenos">1418</span></a>    <span class="n">lambda_min</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">vals</span><span class="p">[:</span><span class="o">-</span><span class="n">E</span><span class="p">])</span>
-</span><span id="L-1419"><a href="#L-1419"><span class="linenos">1419</span></a>    <span class="n">vals</span><span class="p">[</span><span class="n">vals</span> <span class="o">&lt;</span> <span class="n">lambda_min</span><span class="p">]</span> <span class="o">=</span> <span class="n">lambda_min</span>
-</span><span id="L-1420"><a href="#L-1420"><span class="linenos">1420</span></a>    <span class="n">vals</span> <span class="o">/=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">vals</span><span class="p">)</span>
-</span><span id="L-1421"><a href="#L-1421"><span class="linenos">1421</span></a>    <span class="k">return</span> <span class="n">vec</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">vals</span><span class="p">)</span> <span class="o">@</span> <span class="n">vec</span><span class="o">.</span><span class="n">T</span>
-</span><span id="L-1422"><a href="#L-1422"><span class="linenos">1422</span></a>
-</span><span id="L-1423"><a href="#L-1423"><span class="linenos">1423</span></a>
-</span><span id="L-1424"><a href="#L-1424"><span class="linenos">1424</span></a><span class="k">def</span> <span class="nf">_covariance_element</span><span class="p">(</span><span class="n">obs1</span><span class="p">,</span> <span class="n">obs2</span><span class="p">):</span>
-</span><span id="L-1425"><a href="#L-1425"><span class="linenos">1425</span></a>    <span class="sd">&quot;&quot;&quot;Estimates the covariance of two Obs objects, neglecting autocorrelations.&quot;&quot;&quot;</span>
+</span><span id="L-1410"><a href="#L-1410"><span class="linenos">1410</span></a>
+</span><span id="L-1411"><a href="#L-1411"><span class="linenos">1411</span></a><span class="k">def</span> <span class="nf">_smooth_eigenvalues</span><span class="p">(</span><span class="n">corr</span><span class="p">,</span> <span class="n">E</span><span class="p">):</span>
+</span><span id="L-1412"><a href="#L-1412"><span class="linenos">1412</span></a>    <span class="sd">&quot;&quot;&quot;Eigenvalue smoothing as described in hep-lat/9412087</span>
+</span><span id="L-1413"><a href="#L-1413"><span class="linenos">1413</span></a>
+</span><span id="L-1414"><a href="#L-1414"><span class="linenos">1414</span></a><span class="sd">    corr : np.ndarray</span>
+</span><span id="L-1415"><a href="#L-1415"><span class="linenos">1415</span></a><span class="sd">        correlation matrix</span>
+</span><span id="L-1416"><a href="#L-1416"><span class="linenos">1416</span></a><span class="sd">    E : integer</span>
+</span><span id="L-1417"><a href="#L-1417"><span class="linenos">1417</span></a><span class="sd">        Number of eigenvalues to be left substantially unchanged</span>
+</span><span id="L-1418"><a href="#L-1418"><span class="linenos">1418</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-1419"><a href="#L-1419"><span class="linenos">1419</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="mi">2</span> <span class="o">&lt;</span> <span class="n">E</span> <span class="o">&lt;</span> <span class="n">corr</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
+</span><span id="L-1420"><a href="#L-1420"><span class="linenos">1420</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;&#39;E&#39; has to be between 2 and the dimension of the correlation matrix minus 1 (</span><span class="si">{</span><span class="n">corr</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="si">}</span><span class="s2">).&quot;</span><span class="p">)</span>
+</span><span id="L-1421"><a href="#L-1421"><span class="linenos">1421</span></a>    <span class="n">vals</span><span class="p">,</span> <span class="n">vec</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">corr</span><span class="p">)</span>
+</span><span id="L-1422"><a href="#L-1422"><span class="linenos">1422</span></a>    <span class="n">lambda_min</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">vals</span><span class="p">[:</span><span class="o">-</span><span class="n">E</span><span class="p">])</span>
+</span><span id="L-1423"><a href="#L-1423"><span class="linenos">1423</span></a>    <span class="n">vals</span><span class="p">[</span><span class="n">vals</span> <span class="o">&lt;</span> <span class="n">lambda_min</span><span class="p">]</span> <span class="o">=</span> <span class="n">lambda_min</span>
+</span><span id="L-1424"><a href="#L-1424"><span class="linenos">1424</span></a>    <span class="n">vals</span> <span class="o">/=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">vals</span><span class="p">)</span>
+</span><span id="L-1425"><a href="#L-1425"><span class="linenos">1425</span></a>    <span class="k">return</span> <span class="n">vec</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">vals</span><span class="p">)</span> <span class="o">@</span> <span class="n">vec</span><span class="o">.</span><span class="n">T</span>
 </span><span id="L-1426"><a href="#L-1426"><span class="linenos">1426</span></a>
-</span><span id="L-1427"><a href="#L-1427"><span class="linenos">1427</span></a>    <span class="k">def</span> <span class="nf">calc_gamma</span><span class="p">(</span><span class="n">deltas1</span><span class="p">,</span> <span class="n">deltas2</span><span class="p">,</span> <span class="n">idx1</span><span class="p">,</span> <span class="n">idx2</span><span class="p">,</span> <span class="n">new_idx</span><span class="p">):</span>
-</span><span id="L-1428"><a href="#L-1428"><span class="linenos">1428</span></a>        <span class="n">deltas1</span> <span class="o">=</span> <span class="n">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">deltas1</span><span class="p">,</span> <span class="n">idx1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx1</span><span class="p">),</span> <span class="n">new_idx</span><span class="p">)</span>
-</span><span id="L-1429"><a href="#L-1429"><span class="linenos">1429</span></a>        <span class="n">deltas2</span> <span class="o">=</span> <span class="n">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">deltas2</span><span class="p">,</span> <span class="n">idx2</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx2</span><span class="p">),</span> <span class="n">new_idx</span><span class="p">)</span>
-</span><span id="L-1430"><a href="#L-1430"><span class="linenos">1430</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">deltas1</span> <span class="o">*</span> <span class="n">deltas2</span><span class="p">)</span>
-</span><span id="L-1431"><a href="#L-1431"><span class="linenos">1431</span></a>
-</span><span id="L-1432"><a href="#L-1432"><span class="linenos">1432</span></a>    <span class="k">if</span> <span class="nb">set</span><span class="p">(</span><span class="n">obs1</span><span class="o">.</span><span class="n">names</span><span class="p">)</span><span class="o">.</span><span class="n">isdisjoint</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">obs2</span><span class="o">.</span><span class="n">names</span><span class="p">)):</span>
-</span><span id="L-1433"><a href="#L-1433"><span class="linenos">1433</span></a>        <span class="k">return</span> <span class="mf">0.0</span>
-</span><span id="L-1434"><a href="#L-1434"><span class="linenos">1434</span></a>
-</span><span id="L-1435"><a href="#L-1435"><span class="linenos">1435</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">obs1</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">)</span> <span class="ow">or</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">obs2</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="L-1436"><a href="#L-1436"><span class="linenos">1436</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The gamma method has to be applied to both Obs first.&#39;</span><span class="p">)</span>
-</span><span id="L-1437"><a href="#L-1437"><span class="linenos">1437</span></a>
-</span><span id="L-1438"><a href="#L-1438"><span class="linenos">1438</span></a>    <span class="n">dvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-1439"><a href="#L-1439"><span class="linenos">1439</span></a>
-</span><span id="L-1440"><a href="#L-1440"><span class="linenos">1440</span></a>    <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="n">obs1</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
+</span><span id="L-1427"><a href="#L-1427"><span class="linenos">1427</span></a>
+</span><span id="L-1428"><a href="#L-1428"><span class="linenos">1428</span></a><span class="k">def</span> <span class="nf">_covariance_element</span><span class="p">(</span><span class="n">obs1</span><span class="p">,</span> <span class="n">obs2</span><span class="p">):</span>
+</span><span id="L-1429"><a href="#L-1429"><span class="linenos">1429</span></a>    <span class="sd">&quot;&quot;&quot;Estimates the covariance of two Obs objects, neglecting autocorrelations.&quot;&quot;&quot;</span>
+</span><span id="L-1430"><a href="#L-1430"><span class="linenos">1430</span></a>
+</span><span id="L-1431"><a href="#L-1431"><span class="linenos">1431</span></a>    <span class="k">def</span> <span class="nf">calc_gamma</span><span class="p">(</span><span class="n">deltas1</span><span class="p">,</span> <span class="n">deltas2</span><span class="p">,</span> <span class="n">idx1</span><span class="p">,</span> <span class="n">idx2</span><span class="p">,</span> <span class="n">new_idx</span><span class="p">):</span>
+</span><span id="L-1432"><a href="#L-1432"><span class="linenos">1432</span></a>        <span class="n">deltas1</span> <span class="o">=</span> <span class="n">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">deltas1</span><span class="p">,</span> <span class="n">idx1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx1</span><span class="p">),</span> <span class="n">new_idx</span><span class="p">)</span>
+</span><span id="L-1433"><a href="#L-1433"><span class="linenos">1433</span></a>        <span class="n">deltas2</span> <span class="o">=</span> <span class="n">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">deltas2</span><span class="p">,</span> <span class="n">idx2</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">idx2</span><span class="p">),</span> <span class="n">new_idx</span><span class="p">)</span>
+</span><span id="L-1434"><a href="#L-1434"><span class="linenos">1434</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">deltas1</span> <span class="o">*</span> <span class="n">deltas2</span><span class="p">)</span>
+</span><span id="L-1435"><a href="#L-1435"><span class="linenos">1435</span></a>
+</span><span id="L-1436"><a href="#L-1436"><span class="linenos">1436</span></a>    <span class="k">if</span> <span class="nb">set</span><span class="p">(</span><span class="n">obs1</span><span class="o">.</span><span class="n">names</span><span class="p">)</span><span class="o">.</span><span class="n">isdisjoint</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">obs2</span><span class="o">.</span><span class="n">names</span><span class="p">)):</span>
+</span><span id="L-1437"><a href="#L-1437"><span class="linenos">1437</span></a>        <span class="k">return</span> <span class="mf">0.0</span>
+</span><span id="L-1438"><a href="#L-1438"><span class="linenos">1438</span></a>
+</span><span id="L-1439"><a href="#L-1439"><span class="linenos">1439</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">obs1</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">)</span> <span class="ow">or</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">obs2</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="L-1440"><a href="#L-1440"><span class="linenos">1440</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The gamma method has to be applied to both Obs first.&#39;</span><span class="p">)</span>
 </span><span id="L-1441"><a href="#L-1441"><span class="linenos">1441</span></a>
-</span><span id="L-1442"><a href="#L-1442"><span class="linenos">1442</span></a>        <span class="k">if</span> <span class="n">e_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">obs2</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
-</span><span id="L-1443"><a href="#L-1443"><span class="linenos">1443</span></a>            <span class="k">continue</span>
-</span><span id="L-1444"><a href="#L-1444"><span class="linenos">1444</span></a>
-</span><span id="L-1445"><a href="#L-1445"><span class="linenos">1445</span></a>        <span class="n">idl_d</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-1446"><a href="#L-1446"><span class="linenos">1446</span></a>        <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">obs1</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="L-1447"><a href="#L-1447"><span class="linenos">1447</span></a>            <span class="k">if</span> <span class="n">r_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">obs2</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="L-1448"><a href="#L-1448"><span class="linenos">1448</span></a>                <span class="k">continue</span>
-</span><span id="L-1449"><a href="#L-1449"><span class="linenos">1449</span></a>            <span class="n">idl_d</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">_merge_idx</span><span class="p">([</span><span class="n">obs1</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">obs2</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]])</span>
-</span><span id="L-1450"><a href="#L-1450"><span class="linenos">1450</span></a>
-</span><span id="L-1451"><a href="#L-1451"><span class="linenos">1451</span></a>        <span class="n">gamma</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-1452"><a href="#L-1452"><span class="linenos">1452</span></a>
-</span><span id="L-1453"><a href="#L-1453"><span class="linenos">1453</span></a>        <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">obs1</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="L-1454"><a href="#L-1454"><span class="linenos">1454</span></a>            <span class="k">if</span> <span class="n">r_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">obs2</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="L-1455"><a href="#L-1455"><span class="linenos">1455</span></a>                <span class="k">continue</span>
-</span><span id="L-1456"><a href="#L-1456"><span class="linenos">1456</span></a>            <span class="n">gamma</span> <span class="o">+=</span> <span class="n">calc_gamma</span><span class="p">(</span><span class="n">obs1</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">obs2</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">obs1</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">obs2</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">idl_d</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
-</span><span id="L-1457"><a href="#L-1457"><span class="linenos">1457</span></a>
-</span><span id="L-1458"><a href="#L-1458"><span class="linenos">1458</span></a>        <span class="k">if</span> <span class="n">gamma</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="L-1459"><a href="#L-1459"><span class="linenos">1459</span></a>            <span class="k">continue</span>
-</span><span id="L-1460"><a href="#L-1460"><span class="linenos">1460</span></a>
-</span><span id="L-1461"><a href="#L-1461"><span class="linenos">1461</span></a>        <span class="n">gamma_div</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="L-1462"><a href="#L-1462"><span class="linenos">1462</span></a>        <span class="n">e_N</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="L-1463"><a href="#L-1463"><span class="linenos">1463</span></a>        <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">obs1</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="L-1464"><a href="#L-1464"><span class="linenos">1464</span></a>            <span class="k">if</span> <span class="n">r_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">obs2</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="L-1465"><a href="#L-1465"><span class="linenos">1465</span></a>                <span class="k">continue</span>
-</span><span id="L-1466"><a href="#L-1466"><span class="linenos">1466</span></a>            <span class="n">gamma_div</span> <span class="o">+=</span> <span class="n">calc_gamma</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">(</span><span class="n">obs1</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]),</span> <span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">(</span><span class="n">obs2</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]),</span> <span class="n">obs1</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">obs2</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">idl_d</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
-</span><span id="L-1467"><a href="#L-1467"><span class="linenos">1467</span></a>            <span class="n">e_N</span> <span class="o">+=</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl_d</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
-</span><span id="L-1468"><a href="#L-1468"><span class="linenos">1468</span></a>        <span class="n">gamma</span> <span class="o">/=</span> <span class="nb">max</span><span class="p">(</span><span class="n">gamma_div</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">)</span>
-</span><span id="L-1469"><a href="#L-1469"><span class="linenos">1469</span></a>
-</span><span id="L-1470"><a href="#L-1470"><span class="linenos">1470</span></a>        <span class="c1"># Bias correction hep-lat/0306017 eq. (49)</span>
-</span><span id="L-1471"><a href="#L-1471"><span class="linenos">1471</span></a>        <span class="n">dvalue</span> <span class="o">+=</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">*</span> <span class="n">gamma</span> <span class="o">/</span> <span class="n">e_N</span>
-</span><span id="L-1472"><a href="#L-1472"><span class="linenos">1472</span></a>
-</span><span id="L-1473"><a href="#L-1473"><span class="linenos">1473</span></a>    <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="n">obs1</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="L-1474"><a href="#L-1474"><span class="linenos">1474</span></a>
-</span><span id="L-1475"><a href="#L-1475"><span class="linenos">1475</span></a>        <span class="k">if</span> <span class="n">e_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">obs2</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="L-1476"><a href="#L-1476"><span class="linenos">1476</span></a>            <span class="k">continue</span>
-</span><span id="L-1477"><a href="#L-1477"><span class="linenos">1477</span></a>
-</span><span id="L-1478"><a href="#L-1478"><span class="linenos">1478</span></a>        <span class="n">dvalue</span> <span class="o">+=</span> <span class="nb">float</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">transpose</span><span class="p">(</span><span class="n">obs1</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">obs1</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">,</span> <span class="n">obs2</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span><span class="p">)))</span>
-</span><span id="L-1479"><a href="#L-1479"><span class="linenos">1479</span></a>
-</span><span id="L-1480"><a href="#L-1480"><span class="linenos">1480</span></a>    <span class="k">return</span> <span class="n">dvalue</span>
+</span><span id="L-1442"><a href="#L-1442"><span class="linenos">1442</span></a>    <span class="n">dvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-1443"><a href="#L-1443"><span class="linenos">1443</span></a>
+</span><span id="L-1444"><a href="#L-1444"><span class="linenos">1444</span></a>    <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="n">obs1</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
+</span><span id="L-1445"><a href="#L-1445"><span class="linenos">1445</span></a>
+</span><span id="L-1446"><a href="#L-1446"><span class="linenos">1446</span></a>        <span class="k">if</span> <span class="n">e_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">obs2</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
+</span><span id="L-1447"><a href="#L-1447"><span class="linenos">1447</span></a>            <span class="k">continue</span>
+</span><span id="L-1448"><a href="#L-1448"><span class="linenos">1448</span></a>
+</span><span id="L-1449"><a href="#L-1449"><span class="linenos">1449</span></a>        <span class="n">idl_d</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-1450"><a href="#L-1450"><span class="linenos">1450</span></a>        <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">obs1</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="L-1451"><a href="#L-1451"><span class="linenos">1451</span></a>            <span class="k">if</span> <span class="n">r_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">obs2</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="L-1452"><a href="#L-1452"><span class="linenos">1452</span></a>                <span class="k">continue</span>
+</span><span id="L-1453"><a href="#L-1453"><span class="linenos">1453</span></a>            <span class="n">idl_d</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">_merge_idx</span><span class="p">([</span><span class="n">obs1</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">obs2</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]])</span>
+</span><span id="L-1454"><a href="#L-1454"><span class="linenos">1454</span></a>
+</span><span id="L-1455"><a href="#L-1455"><span class="linenos">1455</span></a>        <span class="n">gamma</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-1456"><a href="#L-1456"><span class="linenos">1456</span></a>
+</span><span id="L-1457"><a href="#L-1457"><span class="linenos">1457</span></a>        <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">obs1</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="L-1458"><a href="#L-1458"><span class="linenos">1458</span></a>            <span class="k">if</span> <span class="n">r_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">obs2</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="L-1459"><a href="#L-1459"><span class="linenos">1459</span></a>                <span class="k">continue</span>
+</span><span id="L-1460"><a href="#L-1460"><span class="linenos">1460</span></a>            <span class="n">gamma</span> <span class="o">+=</span> <span class="n">calc_gamma</span><span class="p">(</span><span class="n">obs1</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">obs2</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">obs1</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">obs2</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">idl_d</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
+</span><span id="L-1461"><a href="#L-1461"><span class="linenos">1461</span></a>
+</span><span id="L-1462"><a href="#L-1462"><span class="linenos">1462</span></a>        <span class="k">if</span> <span class="n">gamma</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="L-1463"><a href="#L-1463"><span class="linenos">1463</span></a>            <span class="k">continue</span>
+</span><span id="L-1464"><a href="#L-1464"><span class="linenos">1464</span></a>
+</span><span id="L-1465"><a href="#L-1465"><span class="linenos">1465</span></a>        <span class="n">gamma_div</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="L-1466"><a href="#L-1466"><span class="linenos">1466</span></a>        <span class="n">e_N</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="L-1467"><a href="#L-1467"><span class="linenos">1467</span></a>        <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">obs1</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="L-1468"><a href="#L-1468"><span class="linenos">1468</span></a>            <span class="k">if</span> <span class="n">r_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">obs2</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="L-1469"><a href="#L-1469"><span class="linenos">1469</span></a>                <span class="k">continue</span>
+</span><span id="L-1470"><a href="#L-1470"><span class="linenos">1470</span></a>            <span class="n">gamma_div</span> <span class="o">+=</span> <span class="n">calc_gamma</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">(</span><span class="n">obs1</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]),</span> <span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">(</span><span class="n">obs2</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]),</span> <span class="n">obs1</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">obs2</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">idl_d</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
+</span><span id="L-1471"><a href="#L-1471"><span class="linenos">1471</span></a>            <span class="n">e_N</span> <span class="o">+=</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl_d</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
+</span><span id="L-1472"><a href="#L-1472"><span class="linenos">1472</span></a>        <span class="n">gamma</span> <span class="o">/=</span> <span class="nb">max</span><span class="p">(</span><span class="n">gamma_div</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">)</span>
+</span><span id="L-1473"><a href="#L-1473"><span class="linenos">1473</span></a>
+</span><span id="L-1474"><a href="#L-1474"><span class="linenos">1474</span></a>        <span class="c1"># Bias correction hep-lat/0306017 eq. (49)</span>
+</span><span id="L-1475"><a href="#L-1475"><span class="linenos">1475</span></a>        <span class="n">dvalue</span> <span class="o">+=</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">*</span> <span class="n">gamma</span> <span class="o">/</span> <span class="n">e_N</span>
+</span><span id="L-1476"><a href="#L-1476"><span class="linenos">1476</span></a>
+</span><span id="L-1477"><a href="#L-1477"><span class="linenos">1477</span></a>    <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="n">obs1</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="L-1478"><a href="#L-1478"><span class="linenos">1478</span></a>
+</span><span id="L-1479"><a href="#L-1479"><span class="linenos">1479</span></a>        <span class="k">if</span> <span class="n">e_name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">obs2</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="L-1480"><a href="#L-1480"><span class="linenos">1480</span></a>            <span class="k">continue</span>
 </span><span id="L-1481"><a href="#L-1481"><span class="linenos">1481</span></a>
-</span><span id="L-1482"><a href="#L-1482"><span class="linenos">1482</span></a>
-</span><span id="L-1483"><a href="#L-1483"><span class="linenos">1483</span></a><span class="k">def</span> <span class="nf">import_jackknife</span><span class="p">(</span><span class="n">jacks</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-1484"><a href="#L-1484"><span class="linenos">1484</span></a>    <span class="sd">&quot;&quot;&quot;Imports jackknife samples and returns an Obs</span>
+</span><span id="L-1482"><a href="#L-1482"><span class="linenos">1482</span></a>        <span class="n">dvalue</span> <span class="o">+=</span> <span class="nb">float</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">transpose</span><span class="p">(</span><span class="n">obs1</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">obs1</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">,</span> <span class="n">obs2</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span><span class="p">)))</span>
+</span><span id="L-1483"><a href="#L-1483"><span class="linenos">1483</span></a>
+</span><span id="L-1484"><a href="#L-1484"><span class="linenos">1484</span></a>    <span class="k">return</span> <span class="n">dvalue</span>
 </span><span id="L-1485"><a href="#L-1485"><span class="linenos">1485</span></a>
-</span><span id="L-1486"><a href="#L-1486"><span class="linenos">1486</span></a><span class="sd">    Parameters</span>
-</span><span id="L-1487"><a href="#L-1487"><span class="linenos">1487</span></a><span class="sd">    ----------</span>
-</span><span id="L-1488"><a href="#L-1488"><span class="linenos">1488</span></a><span class="sd">    jacks : numpy.ndarray</span>
-</span><span id="L-1489"><a href="#L-1489"><span class="linenos">1489</span></a><span class="sd">        numpy array containing the mean value as zeroth entry and</span>
-</span><span id="L-1490"><a href="#L-1490"><span class="linenos">1490</span></a><span class="sd">        the N jackknife samples as first to Nth entry.</span>
-</span><span id="L-1491"><a href="#L-1491"><span class="linenos">1491</span></a><span class="sd">    name : str</span>
-</span><span id="L-1492"><a href="#L-1492"><span class="linenos">1492</span></a><span class="sd">        name of the ensemble the samples are defined on.</span>
-</span><span id="L-1493"><a href="#L-1493"><span class="linenos">1493</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-1494"><a href="#L-1494"><span class="linenos">1494</span></a>    <span class="n">length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">jacks</span><span class="p">)</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="L-1495"><a href="#L-1495"><span class="linenos">1495</span></a>    <span class="n">prj</span> <span class="o">=</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">((</span><span class="n">length</span><span class="p">,</span> <span class="n">length</span><span class="p">))</span> <span class="o">-</span> <span class="p">(</span><span class="n">length</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">length</span><span class="p">))</span>
-</span><span id="L-1496"><a href="#L-1496"><span class="linenos">1496</span></a>    <span class="n">samples</span> <span class="o">=</span> <span class="n">jacks</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="o">@</span> <span class="n">prj</span>
-</span><span id="L-1497"><a href="#L-1497"><span class="linenos">1497</span></a>    <span class="n">mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span>
-</span><span id="L-1498"><a href="#L-1498"><span class="linenos">1498</span></a>    <span class="n">new_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">samples</span> <span class="o">-</span> <span class="n">mean</span><span class="p">],</span> <span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">,</span> <span class="n">means</span><span class="o">=</span><span class="p">[</span><span class="n">mean</span><span class="p">])</span>
-</span><span id="L-1499"><a href="#L-1499"><span class="linenos">1499</span></a>    <span class="n">new_obs</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">jacks</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-1500"><a href="#L-1500"><span class="linenos">1500</span></a>    <span class="k">return</span> <span class="n">new_obs</span>
-</span><span id="L-1501"><a href="#L-1501"><span class="linenos">1501</span></a>
-</span><span id="L-1502"><a href="#L-1502"><span class="linenos">1502</span></a>
-</span><span id="L-1503"><a href="#L-1503"><span class="linenos">1503</span></a><span class="k">def</span> <span class="nf">merge_obs</span><span class="p">(</span><span class="n">list_of_obs</span><span class="p">):</span>
-</span><span id="L-1504"><a href="#L-1504"><span class="linenos">1504</span></a>    <span class="sd">&quot;&quot;&quot;Combine all observables in list_of_obs into one new observable</span>
+</span><span id="L-1486"><a href="#L-1486"><span class="linenos">1486</span></a>
+</span><span id="L-1487"><a href="#L-1487"><span class="linenos">1487</span></a><span class="k">def</span> <span class="nf">import_jackknife</span><span class="p">(</span><span class="n">jacks</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-1488"><a href="#L-1488"><span class="linenos">1488</span></a>    <span class="sd">&quot;&quot;&quot;Imports jackknife samples and returns an Obs</span>
+</span><span id="L-1489"><a href="#L-1489"><span class="linenos">1489</span></a>
+</span><span id="L-1490"><a href="#L-1490"><span class="linenos">1490</span></a><span class="sd">    Parameters</span>
+</span><span id="L-1491"><a href="#L-1491"><span class="linenos">1491</span></a><span class="sd">    ----------</span>
+</span><span id="L-1492"><a href="#L-1492"><span class="linenos">1492</span></a><span class="sd">    jacks : numpy.ndarray</span>
+</span><span id="L-1493"><a href="#L-1493"><span class="linenos">1493</span></a><span class="sd">        numpy array containing the mean value as zeroth entry and</span>
+</span><span id="L-1494"><a href="#L-1494"><span class="linenos">1494</span></a><span class="sd">        the N jackknife samples as first to Nth entry.</span>
+</span><span id="L-1495"><a href="#L-1495"><span class="linenos">1495</span></a><span class="sd">    name : str</span>
+</span><span id="L-1496"><a href="#L-1496"><span class="linenos">1496</span></a><span class="sd">        name of the ensemble the samples are defined on.</span>
+</span><span id="L-1497"><a href="#L-1497"><span class="linenos">1497</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-1498"><a href="#L-1498"><span class="linenos">1498</span></a>    <span class="n">length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">jacks</span><span class="p">)</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="L-1499"><a href="#L-1499"><span class="linenos">1499</span></a>    <span class="n">prj</span> <span class="o">=</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">((</span><span class="n">length</span><span class="p">,</span> <span class="n">length</span><span class="p">))</span> <span class="o">-</span> <span class="p">(</span><span class="n">length</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">length</span><span class="p">))</span>
+</span><span id="L-1500"><a href="#L-1500"><span class="linenos">1500</span></a>    <span class="n">samples</span> <span class="o">=</span> <span class="n">jacks</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="o">@</span> <span class="n">prj</span>
+</span><span id="L-1501"><a href="#L-1501"><span class="linenos">1501</span></a>    <span class="n">mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span>
+</span><span id="L-1502"><a href="#L-1502"><span class="linenos">1502</span></a>    <span class="n">new_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">samples</span> <span class="o">-</span> <span class="n">mean</span><span class="p">],</span> <span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">,</span> <span class="n">means</span><span class="o">=</span><span class="p">[</span><span class="n">mean</span><span class="p">])</span>
+</span><span id="L-1503"><a href="#L-1503"><span class="linenos">1503</span></a>    <span class="n">new_obs</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">jacks</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-1504"><a href="#L-1504"><span class="linenos">1504</span></a>    <span class="k">return</span> <span class="n">new_obs</span>
 </span><span id="L-1505"><a href="#L-1505"><span class="linenos">1505</span></a>
-</span><span id="L-1506"><a href="#L-1506"><span class="linenos">1506</span></a><span class="sd">    Parameters</span>
-</span><span id="L-1507"><a href="#L-1507"><span class="linenos">1507</span></a><span class="sd">    ----------</span>
-</span><span id="L-1508"><a href="#L-1508"><span class="linenos">1508</span></a><span class="sd">    list_of_obs : list</span>
-</span><span id="L-1509"><a href="#L-1509"><span class="linenos">1509</span></a><span class="sd">        list of the Obs object to be combined</span>
-</span><span id="L-1510"><a href="#L-1510"><span class="linenos">1510</span></a>
-</span><span id="L-1511"><a href="#L-1511"><span class="linenos">1511</span></a><span class="sd">    Notes</span>
-</span><span id="L-1512"><a href="#L-1512"><span class="linenos">1512</span></a><span class="sd">    -----</span>
-</span><span id="L-1513"><a href="#L-1513"><span class="linenos">1513</span></a><span class="sd">    It is not possible to combine obs which are based on the same replicum</span>
-</span><span id="L-1514"><a href="#L-1514"><span class="linenos">1514</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-1515"><a href="#L-1515"><span class="linenos">1515</span></a>    <span class="n">replist</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="k">for</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">list_of_obs</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">names</span><span class="p">]</span>
-</span><span id="L-1516"><a href="#L-1516"><span class="linenos">1516</span></a>    <span class="k">if</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">replist</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">replist</span><span class="p">)))</span> <span class="ow">is</span> <span class="kc">False</span><span class="p">:</span>
-</span><span id="L-1517"><a href="#L-1517"><span class="linenos">1517</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;list_of_obs contains duplicate replica: </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">replist</span><span class="p">)))</span>
-</span><span id="L-1518"><a href="#L-1518"><span class="linenos">1518</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">]):</span>
-</span><span id="L-1519"><a href="#L-1519"><span class="linenos">1519</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Not possible to merge data that contains covobs!&#39;</span><span class="p">)</span>
-</span><span id="L-1520"><a href="#L-1520"><span class="linenos">1520</span></a>    <span class="n">new_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-1521"><a href="#L-1521"><span class="linenos">1521</span></a>    <span class="n">idl_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="L-1522"><a href="#L-1522"><span class="linenos">1522</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">:</span>
-</span><span id="L-1523"><a href="#L-1523"><span class="linenos">1523</span></a>        <span class="n">new_dict</span><span class="o">.</span><span class="n">update</span><span class="p">({</span><span class="n">key</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">o</span><span class="o">.</span><span class="n">r_values</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span>
-</span><span id="L-1524"><a href="#L-1524"><span class="linenos">1524</span></a>                        <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="nb">set</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">)</span> <span class="o">|</span> <span class="nb">set</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">r_values</span><span class="p">)})</span>
-</span><span id="L-1525"><a href="#L-1525"><span class="linenos">1525</span></a>        <span class="n">idl_dict</span><span class="o">.</span><span class="n">update</span><span class="p">({</span><span class="n">key</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="nb">set</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">)})</span>
-</span><span id="L-1526"><a href="#L-1526"><span class="linenos">1526</span></a>
-</span><span id="L-1527"><a href="#L-1527"><span class="linenos">1527</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">new_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
-</span><span id="L-1528"><a href="#L-1528"><span class="linenos">1528</span></a>    <span class="n">o</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">new_dict</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">],</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idl_dict</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">])</span>
-</span><span id="L-1529"><a href="#L-1529"><span class="linenos">1529</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">oi</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span> <span class="k">for</span> <span class="n">oi</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">])</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">names</span><span class="p">}</span>
-</span><span id="L-1530"><a href="#L-1530"><span class="linenos">1530</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">([</span><span class="n">oi</span><span class="o">.</span><span class="n">reweighted</span> <span class="k">for</span> <span class="n">oi</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">])</span>
-</span><span id="L-1531"><a href="#L-1531"><span class="linenos">1531</span></a>    <span class="k">return</span> <span class="n">o</span>
-</span><span id="L-1532"><a href="#L-1532"><span class="linenos">1532</span></a>
-</span><span id="L-1533"><a href="#L-1533"><span class="linenos">1533</span></a>
-</span><span id="L-1534"><a href="#L-1534"><span class="linenos">1534</span></a><span class="k">def</span> <span class="nf">cov_Obs</span><span class="p">(</span><span class="n">means</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="L-1535"><a href="#L-1535"><span class="linenos">1535</span></a>    <span class="sd">&quot;&quot;&quot;Create an Obs based on mean(s) and a covariance matrix</span>
+</span><span id="L-1506"><a href="#L-1506"><span class="linenos">1506</span></a>
+</span><span id="L-1507"><a href="#L-1507"><span class="linenos">1507</span></a><span class="k">def</span> <span class="nf">merge_obs</span><span class="p">(</span><span class="n">list_of_obs</span><span class="p">):</span>
+</span><span id="L-1508"><a href="#L-1508"><span class="linenos">1508</span></a>    <span class="sd">&quot;&quot;&quot;Combine all observables in list_of_obs into one new observable</span>
+</span><span id="L-1509"><a href="#L-1509"><span class="linenos">1509</span></a>
+</span><span id="L-1510"><a href="#L-1510"><span class="linenos">1510</span></a><span class="sd">    Parameters</span>
+</span><span id="L-1511"><a href="#L-1511"><span class="linenos">1511</span></a><span class="sd">    ----------</span>
+</span><span id="L-1512"><a href="#L-1512"><span class="linenos">1512</span></a><span class="sd">    list_of_obs : list</span>
+</span><span id="L-1513"><a href="#L-1513"><span class="linenos">1513</span></a><span class="sd">        list of the Obs object to be combined</span>
+</span><span id="L-1514"><a href="#L-1514"><span class="linenos">1514</span></a>
+</span><span id="L-1515"><a href="#L-1515"><span class="linenos">1515</span></a><span class="sd">    Notes</span>
+</span><span id="L-1516"><a href="#L-1516"><span class="linenos">1516</span></a><span class="sd">    -----</span>
+</span><span id="L-1517"><a href="#L-1517"><span class="linenos">1517</span></a><span class="sd">    It is not possible to combine obs which are based on the same replicum</span>
+</span><span id="L-1518"><a href="#L-1518"><span class="linenos">1518</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-1519"><a href="#L-1519"><span class="linenos">1519</span></a>    <span class="n">replist</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="k">for</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">list_of_obs</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">names</span><span class="p">]</span>
+</span><span id="L-1520"><a href="#L-1520"><span class="linenos">1520</span></a>    <span class="k">if</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">replist</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">replist</span><span class="p">)))</span> <span class="ow">is</span> <span class="kc">False</span><span class="p">:</span>
+</span><span id="L-1521"><a href="#L-1521"><span class="linenos">1521</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;list_of_obs contains duplicate replica: </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">replist</span><span class="p">)))</span>
+</span><span id="L-1522"><a href="#L-1522"><span class="linenos">1522</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">]):</span>
+</span><span id="L-1523"><a href="#L-1523"><span class="linenos">1523</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Not possible to merge data that contains covobs!&#39;</span><span class="p">)</span>
+</span><span id="L-1524"><a href="#L-1524"><span class="linenos">1524</span></a>    <span class="n">new_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-1525"><a href="#L-1525"><span class="linenos">1525</span></a>    <span class="n">idl_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="L-1526"><a href="#L-1526"><span class="linenos">1526</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">:</span>
+</span><span id="L-1527"><a href="#L-1527"><span class="linenos">1527</span></a>        <span class="n">new_dict</span><span class="o">.</span><span class="n">update</span><span class="p">({</span><span class="n">key</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">o</span><span class="o">.</span><span class="n">r_values</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span>
+</span><span id="L-1528"><a href="#L-1528"><span class="linenos">1528</span></a>                        <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="nb">set</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">)</span> <span class="o">|</span> <span class="nb">set</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">r_values</span><span class="p">)})</span>
+</span><span id="L-1529"><a href="#L-1529"><span class="linenos">1529</span></a>        <span class="n">idl_dict</span><span class="o">.</span><span class="n">update</span><span class="p">({</span><span class="n">key</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="nb">set</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">)})</span>
+</span><span id="L-1530"><a href="#L-1530"><span class="linenos">1530</span></a>
+</span><span id="L-1531"><a href="#L-1531"><span class="linenos">1531</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">new_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
+</span><span id="L-1532"><a href="#L-1532"><span class="linenos">1532</span></a>    <span class="n">o</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">new_dict</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">],</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idl_dict</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">])</span>
+</span><span id="L-1533"><a href="#L-1533"><span class="linenos">1533</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">oi</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span> <span class="k">for</span> <span class="n">oi</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">])</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">names</span><span class="p">}</span>
+</span><span id="L-1534"><a href="#L-1534"><span class="linenos">1534</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">([</span><span class="n">oi</span><span class="o">.</span><span class="n">reweighted</span> <span class="k">for</span> <span class="n">oi</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">])</span>
+</span><span id="L-1535"><a href="#L-1535"><span class="linenos">1535</span></a>    <span class="k">return</span> <span class="n">o</span>
 </span><span id="L-1536"><a href="#L-1536"><span class="linenos">1536</span></a>
-</span><span id="L-1537"><a href="#L-1537"><span class="linenos">1537</span></a><span class="sd">    Parameters</span>
-</span><span id="L-1538"><a href="#L-1538"><span class="linenos">1538</span></a><span class="sd">    ----------</span>
-</span><span id="L-1539"><a href="#L-1539"><span class="linenos">1539</span></a><span class="sd">    mean : list of floats or float</span>
-</span><span id="L-1540"><a href="#L-1540"><span class="linenos">1540</span></a><span class="sd">        N mean value(s) of the new Obs</span>
-</span><span id="L-1541"><a href="#L-1541"><span class="linenos">1541</span></a><span class="sd">    cov : list or array</span>
-</span><span id="L-1542"><a href="#L-1542"><span class="linenos">1542</span></a><span class="sd">        2d (NxN) Covariance matrix, 1d diagonal entries or 0d covariance</span>
-</span><span id="L-1543"><a href="#L-1543"><span class="linenos">1543</span></a><span class="sd">    name : str</span>
-</span><span id="L-1544"><a href="#L-1544"><span class="linenos">1544</span></a><span class="sd">        identifier for the covariance matrix</span>
-</span><span id="L-1545"><a href="#L-1545"><span class="linenos">1545</span></a><span class="sd">    grad : list or array</span>
-</span><span id="L-1546"><a href="#L-1546"><span class="linenos">1546</span></a><span class="sd">        Gradient of the Covobs wrt. the means belonging to cov.</span>
-</span><span id="L-1547"><a href="#L-1547"><span class="linenos">1547</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="L-1548"><a href="#L-1548"><span class="linenos">1548</span></a>
-</span><span id="L-1549"><a href="#L-1549"><span class="linenos">1549</span></a>    <span class="k">def</span> <span class="nf">covobs_to_obs</span><span class="p">(</span><span class="n">co</span><span class="p">):</span>
-</span><span id="L-1550"><a href="#L-1550"><span class="linenos">1550</span></a>        <span class="sd">&quot;&quot;&quot;Make an Obs out of a Covobs</span>
-</span><span id="L-1551"><a href="#L-1551"><span class="linenos">1551</span></a>
-</span><span id="L-1552"><a href="#L-1552"><span class="linenos">1552</span></a><span class="sd">        Parameters</span>
-</span><span id="L-1553"><a href="#L-1553"><span class="linenos">1553</span></a><span class="sd">        ----------</span>
-</span><span id="L-1554"><a href="#L-1554"><span class="linenos">1554</span></a><span class="sd">        co : Covobs</span>
-</span><span id="L-1555"><a href="#L-1555"><span class="linenos">1555</span></a><span class="sd">            Covobs to be embedded into the Obs</span>
-</span><span id="L-1556"><a href="#L-1556"><span class="linenos">1556</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="L-1557"><a href="#L-1557"><span class="linenos">1557</span></a>        <span class="n">o</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([],</span> <span class="p">[],</span> <span class="n">means</span><span class="o">=</span><span class="p">[])</span>
-</span><span id="L-1558"><a href="#L-1558"><span class="linenos">1558</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">co</span><span class="o">.</span><span class="n">value</span>
-</span><span id="L-1559"><a href="#L-1559"><span class="linenos">1559</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">co</span><span class="o">.</span><span class="n">name</span><span class="p">)</span>
-</span><span id="L-1560"><a href="#L-1560"><span class="linenos">1560</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">_covobs</span><span class="p">[</span><span class="n">co</span><span class="o">.</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">co</span>
-</span><span id="L-1561"><a href="#L-1561"><span class="linenos">1561</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">co</span><span class="o">.</span><span class="n">errsq</span><span class="p">())</span>
-</span><span id="L-1562"><a href="#L-1562"><span class="linenos">1562</span></a>        <span class="k">return</span> <span class="n">o</span>
-</span><span id="L-1563"><a href="#L-1563"><span class="linenos">1563</span></a>
-</span><span id="L-1564"><a href="#L-1564"><span class="linenos">1564</span></a>    <span class="n">ol</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="L-1565"><a href="#L-1565"><span class="linenos">1565</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">means</span><span class="p">,</span> <span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="nb">int</span><span class="p">)):</span>
-</span><span id="L-1566"><a href="#L-1566"><span class="linenos">1566</span></a>        <span class="n">means</span> <span class="o">=</span> <span class="p">[</span><span class="n">means</span><span class="p">]</span>
+</span><span id="L-1537"><a href="#L-1537"><span class="linenos">1537</span></a>
+</span><span id="L-1538"><a href="#L-1538"><span class="linenos">1538</span></a><span class="k">def</span> <span class="nf">cov_Obs</span><span class="p">(</span><span class="n">means</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="L-1539"><a href="#L-1539"><span class="linenos">1539</span></a>    <span class="sd">&quot;&quot;&quot;Create an Obs based on mean(s) and a covariance matrix</span>
+</span><span id="L-1540"><a href="#L-1540"><span class="linenos">1540</span></a>
+</span><span id="L-1541"><a href="#L-1541"><span class="linenos">1541</span></a><span class="sd">    Parameters</span>
+</span><span id="L-1542"><a href="#L-1542"><span class="linenos">1542</span></a><span class="sd">    ----------</span>
+</span><span id="L-1543"><a href="#L-1543"><span class="linenos">1543</span></a><span class="sd">    mean : list of floats or float</span>
+</span><span id="L-1544"><a href="#L-1544"><span class="linenos">1544</span></a><span class="sd">        N mean value(s) of the new Obs</span>
+</span><span id="L-1545"><a href="#L-1545"><span class="linenos">1545</span></a><span class="sd">    cov : list or array</span>
+</span><span id="L-1546"><a href="#L-1546"><span class="linenos">1546</span></a><span class="sd">        2d (NxN) Covariance matrix, 1d diagonal entries or 0d covariance</span>
+</span><span id="L-1547"><a href="#L-1547"><span class="linenos">1547</span></a><span class="sd">    name : str</span>
+</span><span id="L-1548"><a href="#L-1548"><span class="linenos">1548</span></a><span class="sd">        identifier for the covariance matrix</span>
+</span><span id="L-1549"><a href="#L-1549"><span class="linenos">1549</span></a><span class="sd">    grad : list or array</span>
+</span><span id="L-1550"><a href="#L-1550"><span class="linenos">1550</span></a><span class="sd">        Gradient of the Covobs wrt. the means belonging to cov.</span>
+</span><span id="L-1551"><a href="#L-1551"><span class="linenos">1551</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="L-1552"><a href="#L-1552"><span class="linenos">1552</span></a>
+</span><span id="L-1553"><a href="#L-1553"><span class="linenos">1553</span></a>    <span class="k">def</span> <span class="nf">covobs_to_obs</span><span class="p">(</span><span class="n">co</span><span class="p">):</span>
+</span><span id="L-1554"><a href="#L-1554"><span class="linenos">1554</span></a>        <span class="sd">&quot;&quot;&quot;Make an Obs out of a Covobs</span>
+</span><span id="L-1555"><a href="#L-1555"><span class="linenos">1555</span></a>
+</span><span id="L-1556"><a href="#L-1556"><span class="linenos">1556</span></a><span class="sd">        Parameters</span>
+</span><span id="L-1557"><a href="#L-1557"><span class="linenos">1557</span></a><span class="sd">        ----------</span>
+</span><span id="L-1558"><a href="#L-1558"><span class="linenos">1558</span></a><span class="sd">        co : Covobs</span>
+</span><span id="L-1559"><a href="#L-1559"><span class="linenos">1559</span></a><span class="sd">            Covobs to be embedded into the Obs</span>
+</span><span id="L-1560"><a href="#L-1560"><span class="linenos">1560</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="L-1561"><a href="#L-1561"><span class="linenos">1561</span></a>        <span class="n">o</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([],</span> <span class="p">[],</span> <span class="n">means</span><span class="o">=</span><span class="p">[])</span>
+</span><span id="L-1562"><a href="#L-1562"><span class="linenos">1562</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">co</span><span class="o">.</span><span class="n">value</span>
+</span><span id="L-1563"><a href="#L-1563"><span class="linenos">1563</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">co</span><span class="o">.</span><span class="n">name</span><span class="p">)</span>
+</span><span id="L-1564"><a href="#L-1564"><span class="linenos">1564</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">_covobs</span><span class="p">[</span><span class="n">co</span><span class="o">.</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">co</span>
+</span><span id="L-1565"><a href="#L-1565"><span class="linenos">1565</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">co</span><span class="o">.</span><span class="n">errsq</span><span class="p">())</span>
+</span><span id="L-1566"><a href="#L-1566"><span class="linenos">1566</span></a>        <span class="k">return</span> <span class="n">o</span>
 </span><span id="L-1567"><a href="#L-1567"><span class="linenos">1567</span></a>
-</span><span id="L-1568"><a href="#L-1568"><span class="linenos">1568</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">means</span><span class="p">)):</span>
-</span><span id="L-1569"><a href="#L-1569"><span class="linenos">1569</span></a>        <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">covobs_to_obs</span><span class="p">(</span><span class="n">Covobs</span><span class="p">(</span><span class="n">means</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">pos</span><span class="o">=</span><span class="n">i</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="n">grad</span><span class="p">)))</span>
-</span><span id="L-1570"><a href="#L-1570"><span class="linenos">1570</span></a>    <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">means</span><span class="p">):</span>
-</span><span id="L-1571"><a href="#L-1571"><span class="linenos">1571</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You have to provide </span><span class="si">%d</span><span class="s1"> mean values!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
-</span><span id="L-1572"><a href="#L-1572"><span class="linenos">1572</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="L-1573"><a href="#L-1573"><span class="linenos">1573</span></a>        <span class="k">return</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="L-1574"><a href="#L-1574"><span class="linenos">1574</span></a>    <span class="k">return</span> <span class="n">ol</span>
+</span><span id="L-1568"><a href="#L-1568"><span class="linenos">1568</span></a>    <span class="n">ol</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="L-1569"><a href="#L-1569"><span class="linenos">1569</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">means</span><span class="p">,</span> <span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="nb">int</span><span class="p">)):</span>
+</span><span id="L-1570"><a href="#L-1570"><span class="linenos">1570</span></a>        <span class="n">means</span> <span class="o">=</span> <span class="p">[</span><span class="n">means</span><span class="p">]</span>
+</span><span id="L-1571"><a href="#L-1571"><span class="linenos">1571</span></a>
+</span><span id="L-1572"><a href="#L-1572"><span class="linenos">1572</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">means</span><span class="p">)):</span>
+</span><span id="L-1573"><a href="#L-1573"><span class="linenos">1573</span></a>        <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">covobs_to_obs</span><span class="p">(</span><span class="n">Covobs</span><span class="p">(</span><span class="n">means</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">pos</span><span class="o">=</span><span class="n">i</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="n">grad</span><span class="p">)))</span>
+</span><span id="L-1574"><a href="#L-1574"><span class="linenos">1574</span></a>    <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">means</span><span class="p">):</span>
+</span><span id="L-1575"><a href="#L-1575"><span class="linenos">1575</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You have to provide </span><span class="si">%d</span><span class="s1"> mean values!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
+</span><span id="L-1576"><a href="#L-1576"><span class="linenos">1576</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="L-1577"><a href="#L-1577"><span class="linenos">1577</span></a>        <span class="k">return</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="L-1578"><a href="#L-1578"><span class="linenos">1578</span></a>    <span class="k">return</span> <span class="n">ol</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="Obs">
-                                <div class="attr class">
-        <a class="headerlink" href="#Obs">#&nbsp;&nbsp</a>
+                            <input id="Obs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr class">
+            
+    <span class="def">class</span>
+    <span class="name">Obs</span>:
+
+                <label class="view-source-button" for="Obs-view-source"><span>View Source</span></label>
 
-        
-        <span class="def">class</span>
-        <span class="name">Obs</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs-13"><a href="#Obs-13"><span class="linenos"> 13</span></a><span class="k">class</span> <span class="nc">Obs</span><span class="p">:</span>
-</span><span id="Obs-14"><a href="#Obs-14"><span class="linenos"> 14</span></a>    <span class="sd">&quot;&quot;&quot;Class for a general observable.</span>
-</span><span id="Obs-15"><a href="#Obs-15"><span class="linenos"> 15</span></a>
-</span><span id="Obs-16"><a href="#Obs-16"><span class="linenos"> 16</span></a><span class="sd">    Instances of Obs are the basic objects of a pyerrors error analysis.</span>
-</span><span id="Obs-17"><a href="#Obs-17"><span class="linenos"> 17</span></a><span class="sd">    They are initialized with a list which contains arrays of samples for</span>
-</span><span id="Obs-18"><a href="#Obs-18"><span class="linenos"> 18</span></a><span class="sd">    different ensembles/replica and another list of same length which contains</span>
-</span><span id="Obs-19"><a href="#Obs-19"><span class="linenos"> 19</span></a><span class="sd">    the names of the ensembles/replica. Mathematical operations can be</span>
-</span><span id="Obs-20"><a href="#Obs-20"><span class="linenos"> 20</span></a><span class="sd">    performed on instances. The result is another instance of Obs. The error of</span>
-</span><span id="Obs-21"><a href="#Obs-21"><span class="linenos"> 21</span></a><span class="sd">    an instance can be computed with the gamma_method. Also contains additional</span>
-</span><span id="Obs-22"><a href="#Obs-22"><span class="linenos"> 22</span></a><span class="sd">    methods for output and visualization of the error calculation.</span>
-</span><span id="Obs-23"><a href="#Obs-23"><span class="linenos"> 23</span></a>
-</span><span id="Obs-24"><a href="#Obs-24"><span class="linenos"> 24</span></a><span class="sd">    Attributes</span>
-</span><span id="Obs-25"><a href="#Obs-25"><span class="linenos"> 25</span></a><span class="sd">    ----------</span>
-</span><span id="Obs-26"><a href="#Obs-26"><span class="linenos"> 26</span></a><span class="sd">    S_global : float</span>
-</span><span id="Obs-27"><a href="#Obs-27"><span class="linenos"> 27</span></a><span class="sd">        Standard value for S (default 2.0)</span>
-</span><span id="Obs-28"><a href="#Obs-28"><span class="linenos"> 28</span></a><span class="sd">    S_dict : dict</span>
-</span><span id="Obs-29"><a href="#Obs-29"><span class="linenos"> 29</span></a><span class="sd">        Dictionary for S values. If an entry for a given ensemble</span>
-</span><span id="Obs-30"><a href="#Obs-30"><span class="linenos"> 30</span></a><span class="sd">        exists this overwrites the standard value for that ensemble.</span>
-</span><span id="Obs-31"><a href="#Obs-31"><span class="linenos"> 31</span></a><span class="sd">    tau_exp_global : float</span>
-</span><span id="Obs-32"><a href="#Obs-32"><span class="linenos"> 32</span></a><span class="sd">        Standard value for tau_exp (default 0.0)</span>
-</span><span id="Obs-33"><a href="#Obs-33"><span class="linenos"> 33</span></a><span class="sd">    tau_exp_dict : dict</span>
-</span><span id="Obs-34"><a href="#Obs-34"><span class="linenos"> 34</span></a><span class="sd">        Dictionary for tau_exp values. If an entry for a given ensemble exists</span>
-</span><span id="Obs-35"><a href="#Obs-35"><span class="linenos"> 35</span></a><span class="sd">        this overwrites the standard value for that ensemble.</span>
-</span><span id="Obs-36"><a href="#Obs-36"><span class="linenos"> 36</span></a><span class="sd">    N_sigma_global : float</span>
-</span><span id="Obs-37"><a href="#Obs-37"><span class="linenos"> 37</span></a><span class="sd">        Standard value for N_sigma (default 1.0)</span>
-</span><span id="Obs-38"><a href="#Obs-38"><span class="linenos"> 38</span></a><span class="sd">    N_sigma_dict : dict</span>
-</span><span id="Obs-39"><a href="#Obs-39"><span class="linenos"> 39</span></a><span class="sd">        Dictionary for N_sigma values. If an entry for a given ensemble exists</span>
-</span><span id="Obs-40"><a href="#Obs-40"><span class="linenos"> 40</span></a><span class="sd">        this overwrites the standard value for that ensemble.</span>
-</span><span id="Obs-41"><a href="#Obs-41"><span class="linenos"> 41</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="Obs-42"><a href="#Obs-42"><span class="linenos"> 42</span></a>    <span class="vm">__slots__</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">,</span> <span class="s1">&#39;shape&#39;</span><span class="p">,</span> <span class="s1">&#39;r_values&#39;</span><span class="p">,</span> <span class="s1">&#39;deltas&#39;</span><span class="p">,</span> <span class="s1">&#39;N&#39;</span><span class="p">,</span> <span class="s1">&#39;_value&#39;</span><span class="p">,</span> <span class="s1">&#39;_dvalue&#39;</span><span class="p">,</span>
-</span><span id="Obs-43"><a href="#Obs-43"><span class="linenos"> 43</span></a>                 <span class="s1">&#39;ddvalue&#39;</span><span class="p">,</span> <span class="s1">&#39;reweighted&#39;</span><span class="p">,</span> <span class="s1">&#39;S&#39;</span><span class="p">,</span> <span class="s1">&#39;tau_exp&#39;</span><span class="p">,</span> <span class="s1">&#39;N_sigma&#39;</span><span class="p">,</span>
-</span><span id="Obs-44"><a href="#Obs-44"><span class="linenos"> 44</span></a>                 <span class="s1">&#39;e_dvalue&#39;</span><span class="p">,</span> <span class="s1">&#39;e_ddvalue&#39;</span><span class="p">,</span> <span class="s1">&#39;e_tauint&#39;</span><span class="p">,</span> <span class="s1">&#39;e_dtauint&#39;</span><span class="p">,</span>
-</span><span id="Obs-45"><a href="#Obs-45"><span class="linenos"> 45</span></a>                 <span class="s1">&#39;e_windowsize&#39;</span><span class="p">,</span> <span class="s1">&#39;e_rho&#39;</span><span class="p">,</span> <span class="s1">&#39;e_drho&#39;</span><span class="p">,</span> <span class="s1">&#39;e_n_tauint&#39;</span><span class="p">,</span> <span class="s1">&#39;e_n_dtauint&#39;</span><span class="p">,</span>
-</span><span id="Obs-46"><a href="#Obs-46"><span class="linenos"> 46</span></a>                 <span class="s1">&#39;idl&#39;</span><span class="p">,</span> <span class="s1">&#39;is_merged&#39;</span><span class="p">,</span> <span class="s1">&#39;tag&#39;</span><span class="p">,</span> <span class="s1">&#39;_covobs&#39;</span><span class="p">,</span> <span class="s1">&#39;__dict__&#39;</span><span class="p">]</span>
-</span><span id="Obs-47"><a href="#Obs-47"><span class="linenos"> 47</span></a>
-</span><span id="Obs-48"><a href="#Obs-48"><span class="linenos"> 48</span></a>    <span class="n">S_global</span> <span class="o">=</span> <span class="mf">2.0</span>
-</span><span id="Obs-49"><a href="#Obs-49"><span class="linenos"> 49</span></a>    <span class="n">S_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-50"><a href="#Obs-50"><span class="linenos"> 50</span></a>    <span class="n">tau_exp_global</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs-51"><a href="#Obs-51"><span class="linenos"> 51</span></a>    <span class="n">tau_exp_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-52"><a href="#Obs-52"><span class="linenos"> 52</span></a>    <span class="n">N_sigma_global</span> <span class="o">=</span> <span class="mf">1.0</span>
-</span><span id="Obs-53"><a href="#Obs-53"><span class="linenos"> 53</span></a>    <span class="n">N_sigma_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-54"><a href="#Obs-54"><span class="linenos"> 54</span></a>    <span class="n">filter_eps</span> <span class="o">=</span> <span class="mf">1e-10</span>
-</span><span id="Obs-55"><a href="#Obs-55"><span class="linenos"> 55</span></a>
-</span><span id="Obs-56"><a href="#Obs-56"><span class="linenos"> 56</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Obs-57"><a href="#Obs-57"><span class="linenos"> 57</span></a>        <span class="sd">&quot;&quot;&quot; Initialize Obs object.</span>
-</span><span id="Obs-58"><a href="#Obs-58"><span class="linenos"> 58</span></a>
-</span><span id="Obs-59"><a href="#Obs-59"><span class="linenos"> 59</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs-60"><a href="#Obs-60"><span class="linenos"> 60</span></a><span class="sd">        ----------</span>
-</span><span id="Obs-61"><a href="#Obs-61"><span class="linenos"> 61</span></a><span class="sd">        samples : list</span>
-</span><span id="Obs-62"><a href="#Obs-62"><span class="linenos"> 62</span></a><span class="sd">            list of numpy arrays containing the Monte Carlo samples</span>
-</span><span id="Obs-63"><a href="#Obs-63"><span class="linenos"> 63</span></a><span class="sd">        names : list</span>
-</span><span id="Obs-64"><a href="#Obs-64"><span class="linenos"> 64</span></a><span class="sd">            list of strings labeling the individual samples</span>
-</span><span id="Obs-65"><a href="#Obs-65"><span class="linenos"> 65</span></a><span class="sd">        idl : list, optional</span>
-</span><span id="Obs-66"><a href="#Obs-66"><span class="linenos"> 66</span></a><span class="sd">            list of ranges or lists on which the samples are defined</span>
-</span><span id="Obs-67"><a href="#Obs-67"><span class="linenos"> 67</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs-68"><a href="#Obs-68"><span class="linenos"> 68</span></a>
-</span><span id="Obs-69"><a href="#Obs-69"><span class="linenos"> 69</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">and</span> <span class="nb">len</span><span class="p">(</span><span class="n">samples</span><span class="p">):</span>
-</span><span id="Obs-70"><a href="#Obs-70"><span class="linenos"> 70</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">):</span>
-</span><span id="Obs-71"><a href="#Obs-71"><span class="linenos"> 71</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of samples and names incompatible.&#39;</span><span class="p">)</span>
-</span><span id="Obs-72"><a href="#Obs-72"><span class="linenos"> 72</span></a>            <span class="k">if</span> <span class="n">idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Obs-73"><a href="#Obs-73"><span class="linenos"> 73</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">):</span>
-</span><span id="Obs-74"><a href="#Obs-74"><span class="linenos"> 74</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of idl incompatible with samples and names.&#39;</span><span class="p">)</span>
-</span><span id="Obs-75"><a href="#Obs-75"><span class="linenos"> 75</span></a>            <span class="n">name_length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
-</span><span id="Obs-76"><a href="#Obs-76"><span class="linenos"> 76</span></a>            <span class="k">if</span> <span class="n">name_length</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs-77"><a href="#Obs-77"><span class="linenos"> 77</span></a>                <span class="k">if</span> <span class="n">name_length</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">names</span><span class="p">)):</span>
-</span><span id="Obs-78"><a href="#Obs-78"><span class="linenos"> 78</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;names are not unique.&#39;</span><span class="p">)</span>
-</span><span id="Obs-79"><a href="#Obs-79"><span class="linenos"> 79</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="nb">str</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">names</span><span class="p">):</span>
-</span><span id="Obs-80"><a href="#Obs-80"><span class="linenos"> 80</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;All names have to be strings.&#39;</span><span class="p">)</span>
-</span><span id="Obs-81"><a href="#Obs-81"><span class="linenos"> 81</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-82"><a href="#Obs-82"><span class="linenos"> 82</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="Obs-83"><a href="#Obs-83"><span class="linenos"> 83</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;All names have to be strings.&#39;</span><span class="p">)</span>
-</span><span id="Obs-84"><a href="#Obs-84"><span class="linenos"> 84</span></a>            <span class="k">if</span> <span class="nb">min</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">samples</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mi">4</span><span class="p">:</span>
-</span><span id="Obs-85"><a href="#Obs-85"><span class="linenos"> 85</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Samples have to have at least 5 entries.&#39;</span><span class="p">)</span>
-</span><span id="Obs-86"><a href="#Obs-86"><span class="linenos"> 86</span></a>
-</span><span id="Obs-87"><a href="#Obs-87"><span class="linenos"> 87</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
-</span><span id="Obs-88"><a href="#Obs-88"><span class="linenos"> 88</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">shape</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-89"><a href="#Obs-89"><span class="linenos"> 89</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-90"><a href="#Obs-90"><span class="linenos"> 90</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-91"><a href="#Obs-91"><span class="linenos"> 91</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-92"><a href="#Obs-92"><span class="linenos"> 92</span></a>
-</span><span id="Obs-93"><a href="#Obs-93"><span class="linenos"> 93</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs-94"><a href="#Obs-94"><span class="linenos"> 94</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs-95"><a href="#Obs-95"><span class="linenos"> 95</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-96"><a href="#Obs-96"><span class="linenos"> 96</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-97"><a href="#Obs-97"><span class="linenos"> 97</span></a>        <span class="k">if</span> <span class="n">idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Obs-98"><a href="#Obs-98"><span class="linenos"> 98</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">idx</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="p">)):</span>
-</span><span id="Obs-99"><a href="#Obs-99"><span class="linenos"> 99</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="Obs-100"><a href="#Obs-100"><span class="linenos">100</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">idx</span>
-</span><span id="Obs-101"><a href="#Obs-101"><span class="linenos">101</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="p">(</span><span class="nb">list</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)):</span>
-</span><span id="Obs-102"><a href="#Obs-102"><span class="linenos">102</span></a>                    <span class="n">dc</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">idx</span><span class="p">))</span>
-</span><span id="Obs-103"><a href="#Obs-103"><span class="linenos">103</span></a>                    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">dc</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">):</span>
-</span><span id="Obs-104"><a href="#Obs-104"><span class="linenos">104</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsorted idx for idl[</span><span class="si">%s</span><span class="s2">]&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
-</span><span id="Obs-105"><a href="#Obs-105"><span class="linenos">105</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">dc</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs-106"><a href="#Obs-106"><span class="linenos">106</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">idx</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">idx</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="Obs-107"><a href="#Obs-107"><span class="linenos">107</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-108"><a href="#Obs-108"><span class="linenos">108</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
-</span><span id="Obs-109"><a href="#Obs-109"><span class="linenos">109</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-110"><a href="#Obs-110"><span class="linenos">110</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;incompatible type for idl[</span><span class="si">%s</span><span class="s1">].&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
-</span><span id="Obs-111"><a href="#Obs-111"><span class="linenos">111</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-112"><a href="#Obs-112"><span class="linenos">112</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">)):</span>
-</span><span id="Obs-113"><a href="#Obs-113"><span class="linenos">113</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs-114"><a href="#Obs-114"><span class="linenos">114</span></a>
-</span><span id="Obs-115"><a href="#Obs-115"><span class="linenos">115</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Obs-116"><a href="#Obs-116"><span class="linenos">116</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span><span class="p">,</span> <span class="n">mean</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">))):</span>
-</span><span id="Obs-117"><a href="#Obs-117"><span class="linenos">117</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="Obs-118"><a href="#Obs-118"><span class="linenos">118</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="Obs-119"><a href="#Obs-119"><span class="linenos">119</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">mean</span>
-</span><span id="Obs-120"><a href="#Obs-120"><span class="linenos">120</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">sample</span>
-</span><span id="Obs-121"><a href="#Obs-121"><span class="linenos">121</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-122"><a href="#Obs-122"><span class="linenos">122</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">)):</span>
-</span><span id="Obs-123"><a href="#Obs-123"><span class="linenos">123</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="Obs-124"><a href="#Obs-124"><span class="linenos">124</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="Obs-125"><a href="#Obs-125"><span class="linenos">125</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="Obs-126"><a href="#Obs-126"><span class="linenos">126</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Incompatible samples and idx for </span><span class="si">%s</span><span class="s1">: </span><span class="si">%d</span><span class="s1"> vs. </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
-</span><span id="Obs-127"><a href="#Obs-127"><span class="linenos">127</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span>
-</span><span id="Obs-128"><a href="#Obs-128"><span class="linenos">128</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">sample</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="Obs-129"><a href="#Obs-129"><span class="linenos">129</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="Obs-130"><a href="#Obs-130"><span class="linenos">130</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">/=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span>
-</span><span id="Obs-131"><a href="#Obs-131"><span class="linenos">131</span></a>
-</span><span id="Obs-132"><a href="#Obs-132"><span class="linenos">132</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs-133"><a href="#Obs-133"><span class="linenos">133</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs-134"><a href="#Obs-134"><span class="linenos">134</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="Obs-135"><a href="#Obs-135"><span class="linenos">135</span></a>
-</span><span id="Obs-136"><a href="#Obs-136"><span class="linenos">136</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="Obs-137"><a href="#Obs-137"><span class="linenos">137</span></a>
-</span><span id="Obs-138"><a href="#Obs-138"><span class="linenos">138</span></a>    <span class="nd">@property</span>
-</span><span id="Obs-139"><a href="#Obs-139"><span class="linenos">139</span></a>    <span class="k">def</span> <span class="nf">value</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-140"><a href="#Obs-140"><span class="linenos">140</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_value</span>
-</span><span id="Obs-141"><a href="#Obs-141"><span class="linenos">141</span></a>
-</span><span id="Obs-142"><a href="#Obs-142"><span class="linenos">142</span></a>    <span class="nd">@property</span>
-</span><span id="Obs-143"><a href="#Obs-143"><span class="linenos">143</span></a>    <span class="k">def</span> <span class="nf">dvalue</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-144"><a href="#Obs-144"><span class="linenos">144</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
-</span><span id="Obs-145"><a href="#Obs-145"><span class="linenos">145</span></a>
-</span><span id="Obs-146"><a href="#Obs-146"><span class="linenos">146</span></a>    <span class="nd">@property</span>
-</span><span id="Obs-147"><a href="#Obs-147"><span class="linenos">147</span></a>    <span class="k">def</span> <span class="nf">e_names</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-148"><a href="#Obs-148"><span class="linenos">148</span></a>        <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">]))</span>
-</span><span id="Obs-149"><a href="#Obs-149"><span class="linenos">149</span></a>
-</span><span id="Obs-150"><a href="#Obs-150"><span class="linenos">150</span></a>    <span class="nd">@property</span>
-</span><span id="Obs-151"><a href="#Obs-151"><span class="linenos">151</span></a>    <span class="k">def</span> <span class="nf">cov_names</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-152"><a href="#Obs-152"><span class="linenos">152</span></a>        <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">()]))</span>
-</span><span id="Obs-153"><a href="#Obs-153"><span class="linenos">153</span></a>
-</span><span id="Obs-154"><a href="#Obs-154"><span class="linenos">154</span></a>    <span class="nd">@property</span>
-</span><span id="Obs-155"><a href="#Obs-155"><span class="linenos">155</span></a>    <span class="k">def</span> <span class="nf">mc_names</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-156"><a href="#Obs-156"><span class="linenos">156</span></a>        <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">not</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">]))</span>
-</span><span id="Obs-157"><a href="#Obs-157"><span class="linenos">157</span></a>
-</span><span id="Obs-158"><a href="#Obs-158"><span class="linenos">158</span></a>    <span class="nd">@property</span>
-</span><span id="Obs-159"><a href="#Obs-159"><span class="linenos">159</span></a>    <span class="k">def</span> <span class="nf">e_content</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-160"><a href="#Obs-160"><span class="linenos">160</span></a>        <span class="n">res</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-161"><a href="#Obs-161"><span class="linenos">161</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
-</span><span id="Obs-162"><a href="#Obs-162"><span class="linenos">162</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">))</span>
-</span><span id="Obs-163"><a href="#Obs-163"><span class="linenos">163</span></a>            <span class="k">if</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
-</span><span id="Obs-164"><a href="#Obs-164"><span class="linenos">164</span></a>                <span class="n">res</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">e_name</span><span class="p">)</span>
-</span><span id="Obs-165"><a href="#Obs-165"><span class="linenos">165</span></a>        <span class="k">return</span> <span class="n">res</span>
-</span><span id="Obs-166"><a href="#Obs-166"><span class="linenos">166</span></a>
-</span><span id="Obs-167"><a href="#Obs-167"><span class="linenos">167</span></a>    <span class="nd">@property</span>
-</span><span id="Obs-168"><a href="#Obs-168"><span class="linenos">168</span></a>    <span class="k">def</span> <span class="nf">covobs</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-169"><a href="#Obs-169"><span class="linenos">169</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_covobs</span>
-</span><span id="Obs-170"><a href="#Obs-170"><span class="linenos">170</span></a>
-</span><span id="Obs-171"><a href="#Obs-171"><span class="linenos">171</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Obs-172"><a href="#Obs-172"><span class="linenos">172</span></a>        <span class="sd">&quot;&quot;&quot;Estimate the error and related properties of the Obs.</span>
-</span><span id="Obs-173"><a href="#Obs-173"><span class="linenos">173</span></a>
-</span><span id="Obs-174"><a href="#Obs-174"><span class="linenos">174</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs-175"><a href="#Obs-175"><span class="linenos">175</span></a><span class="sd">        ----------</span>
-</span><span id="Obs-176"><a href="#Obs-176"><span class="linenos">176</span></a><span class="sd">        S : float</span>
-</span><span id="Obs-177"><a href="#Obs-177"><span class="linenos">177</span></a><span class="sd">            specifies a custom value for the parameter S (default 2.0).</span>
-</span><span id="Obs-178"><a href="#Obs-178"><span class="linenos">178</span></a><span class="sd">            If set to 0 it is assumed that the data exhibits no</span>
-</span><span id="Obs-179"><a href="#Obs-179"><span class="linenos">179</span></a><span class="sd">            autocorrelation. In this case the error estimates coincides</span>
-</span><span id="Obs-180"><a href="#Obs-180"><span class="linenos">180</span></a><span class="sd">            with the sample standard error.</span>
-</span><span id="Obs-181"><a href="#Obs-181"><span class="linenos">181</span></a><span class="sd">        tau_exp : float</span>
-</span><span id="Obs-182"><a href="#Obs-182"><span class="linenos">182</span></a><span class="sd">            positive value triggers the critical slowing down analysis</span>
-</span><span id="Obs-183"><a href="#Obs-183"><span class="linenos">183</span></a><span class="sd">            (default 0.0).</span>
-</span><span id="Obs-184"><a href="#Obs-184"><span class="linenos">184</span></a><span class="sd">        N_sigma : float</span>
-</span><span id="Obs-185"><a href="#Obs-185"><span class="linenos">185</span></a><span class="sd">            number of standard deviations from zero until the tail is</span>
-</span><span id="Obs-186"><a href="#Obs-186"><span class="linenos">186</span></a><span class="sd">            attached to the autocorrelation function (default 1).</span>
-</span><span id="Obs-187"><a href="#Obs-187"><span class="linenos">187</span></a><span class="sd">        fft : bool</span>
-</span><span id="Obs-188"><a href="#Obs-188"><span class="linenos">188</span></a><span class="sd">            determines whether the fft algorithm is used for the computation</span>
-</span><span id="Obs-189"><a href="#Obs-189"><span class="linenos">189</span></a><span class="sd">            of the autocorrelation function (default True)</span>
-</span><span id="Obs-190"><a href="#Obs-190"><span class="linenos">190</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs-191"><a href="#Obs-191"><span class="linenos">191</span></a>
-</span><span id="Obs-192"><a href="#Obs-192"><span class="linenos">192</span></a>        <span class="n">e_content</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_content</span>
-</span><span id="Obs-193"><a href="#Obs-193"><span class="linenos">193</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-194"><a href="#Obs-194"><span class="linenos">194</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-195"><a href="#Obs-195"><span class="linenos">195</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-196"><a href="#Obs-196"><span class="linenos">196</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-197"><a href="#Obs-197"><span class="linenos">197</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-198"><a href="#Obs-198"><span class="linenos">198</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-199"><a href="#Obs-199"><span class="linenos">199</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-200"><a href="#Obs-200"><span class="linenos">200</span></a>        <span class="n">e_gamma</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-201"><a href="#Obs-201"><span class="linenos">201</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-202"><a href="#Obs-202"><span class="linenos">202</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-203"><a href="#Obs-203"><span class="linenos">203</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs-204"><a href="#Obs-204"><span class="linenos">204</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs-205"><a href="#Obs-205"><span class="linenos">205</span></a>
-</span><span id="Obs-206"><a href="#Obs-206"><span class="linenos">206</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">S</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-207"><a href="#Obs-207"><span class="linenos">207</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-208"><a href="#Obs-208"><span class="linenos">208</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs-209"><a href="#Obs-209"><span class="linenos">209</span></a>
-</span><span id="Obs-210"><a href="#Obs-210"><span class="linenos">210</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;fft&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">False</span><span class="p">:</span>
-</span><span id="Obs-211"><a href="#Obs-211"><span class="linenos">211</span></a>            <span class="n">fft</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="Obs-212"><a href="#Obs-212"><span class="linenos">212</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-213"><a href="#Obs-213"><span class="linenos">213</span></a>            <span class="n">fft</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="Obs-214"><a href="#Obs-214"><span class="linenos">214</span></a>
-</span><span id="Obs-215"><a href="#Obs-215"><span class="linenos">215</span></a>        <span class="k">def</span> <span class="nf">_parse_kwarg</span><span class="p">(</span><span class="n">kwarg_name</span><span class="p">):</span>
-</span><span id="Obs-216"><a href="#Obs-216"><span class="linenos">216</span></a>            <span class="k">if</span> <span class="n">kwarg_name</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="Obs-217"><a href="#Obs-217"><span class="linenos">217</span></a>                <span class="n">tmp</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">kwarg_name</span><span class="p">)</span>
-</span><span id="Obs-218"><a href="#Obs-218"><span class="linenos">218</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
-</span><span id="Obs-219"><a href="#Obs-219"><span class="linenos">219</span></a>                    <span class="k">if</span> <span class="n">tmp</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Obs-220"><a href="#Obs-220"><span class="linenos">220</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39; has to be larger or equal to 0.&#39;</span><span class="p">)</span>
-</span><span id="Obs-221"><a href="#Obs-221"><span class="linenos">221</span></a>                    <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
-</span><span id="Obs-222"><a href="#Obs-222"><span class="linenos">222</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">tmp</span>
-</span><span id="Obs-223"><a href="#Obs-223"><span class="linenos">223</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-224"><a href="#Obs-224"><span class="linenos">224</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39; is not in proper format.&#39;</span><span class="p">)</span>
-</span><span id="Obs-225"><a href="#Obs-225"><span class="linenos">225</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-226"><a href="#Obs-226"><span class="linenos">226</span></a>                <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
-</span><span id="Obs-227"><a href="#Obs-227"><span class="linenos">227</span></a>                    <span class="k">if</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_dict&#39;</span><span class="p">):</span>
-</span><span id="Obs-228"><a href="#Obs-228"><span class="linenos">228</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_dict&#39;</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span>
-</span><span id="Obs-229"><a href="#Obs-229"><span class="linenos">229</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-230"><a href="#Obs-230"><span class="linenos">230</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_global&#39;</span><span class="p">)</span>
-</span><span id="Obs-231"><a href="#Obs-231"><span class="linenos">231</span></a>
-</span><span id="Obs-232"><a href="#Obs-232"><span class="linenos">232</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;S&#39;</span><span class="p">)</span>
-</span><span id="Obs-233"><a href="#Obs-233"><span class="linenos">233</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;tau_exp&#39;</span><span class="p">)</span>
-</span><span id="Obs-234"><a href="#Obs-234"><span class="linenos">234</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;N_sigma&#39;</span><span class="p">)</span>
-</span><span id="Obs-235"><a href="#Obs-235"><span class="linenos">235</span></a>
-</span><span id="Obs-236"><a href="#Obs-236"><span class="linenos">236</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="Obs-237"><a href="#Obs-237"><span class="linenos">237</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs-238"><a href="#Obs-238"><span class="linenos">238</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="Obs-239"><a href="#Obs-239"><span class="linenos">239</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="Obs-240"><a href="#Obs-240"><span class="linenos">240</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
-</span><span id="Obs-241"><a href="#Obs-241"><span class="linenos">241</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-242"><a href="#Obs-242"><span class="linenos">242</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="Obs-243"><a href="#Obs-243"><span class="linenos">243</span></a>
-</span><span id="Obs-244"><a href="#Obs-244"><span class="linenos">244</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]])</span>
-</span><span id="Obs-245"><a href="#Obs-245"><span class="linenos">245</span></a>            <span class="n">w_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span> <span class="o">//</span> <span class="mi">2</span>
-</span><span id="Obs-246"><a href="#Obs-246"><span class="linenos">246</span></a>            <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="Obs-247"><a href="#Obs-247"><span class="linenos">247</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="Obs-248"><a href="#Obs-248"><span class="linenos">248</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="Obs-249"><a href="#Obs-249"><span class="linenos">249</span></a>
-</span><span id="Obs-250"><a href="#Obs-250"><span class="linenos">250</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="Obs-251"><a href="#Obs-251"><span class="linenos">251</span></a>                <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_calc_gamma</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">)</span>
-</span><span id="Obs-252"><a href="#Obs-252"><span class="linenos">252</span></a>
-</span><span id="Obs-253"><a href="#Obs-253"><span class="linenos">253</span></a>            <span class="n">gamma_div</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="Obs-254"><a href="#Obs-254"><span class="linenos">254</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="Obs-255"><a href="#Obs-255"><span class="linenos">255</span></a>                <span class="n">gamma_div</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_calc_gamma</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">])),</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">)</span>
-</span><span id="Obs-256"><a href="#Obs-256"><span class="linenos">256</span></a>            <span class="n">gamma_div</span><span class="p">[</span><span class="n">gamma_div</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.0</span>
-</span><span id="Obs-257"><a href="#Obs-257"><span class="linenos">257</span></a>            <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">/=</span> <span class="n">gamma_div</span><span class="p">[:</span><span class="n">w_max</span><span class="p">]</span>
-</span><span id="Obs-258"><a href="#Obs-258"><span class="linenos">258</span></a>
-</span><span id="Obs-259"><a href="#Obs-259"><span class="linenos">259</span></a>            <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span> <span class="o">&lt;</span> <span class="mi">10</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="nb">float</span><span class="p">)</span><span class="o">.</span><span class="n">tiny</span><span class="p">:</span>  <span class="c1"># Prevent division by zero</span>
-</span><span id="Obs-260"><a href="#Obs-260"><span class="linenos">260</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span>
-</span><span id="Obs-261"><a href="#Obs-261"><span class="linenos">261</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs-262"><a href="#Obs-262"><span class="linenos">262</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs-263"><a href="#Obs-263"><span class="linenos">263</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs-264"><a href="#Obs-264"><span class="linenos">264</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs-265"><a href="#Obs-265"><span class="linenos">265</span></a>                <span class="k">continue</span>
-</span><span id="Obs-266"><a href="#Obs-266"><span class="linenos">266</span></a>
-</span><span id="Obs-267"><a href="#Obs-267"><span class="linenos">267</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="n">w_max</span><span class="p">]</span> <span class="o">/</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Obs-268"><a href="#Obs-268"><span class="linenos">268</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">cumsum</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(([</span><span class="mf">0.5</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:])))</span>
-</span><span id="Obs-269"><a href="#Obs-269"><span class="linenos">269</span></a>            <span class="c1"># Make sure no entry of tauint is smaller than 0.5</span>
-</span><span id="Obs-270"><a href="#Obs-270"><span class="linenos">270</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="mf">0.5</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span>
-</span><span id="Obs-271"><a href="#Obs-271"><span class="linenos">271</span></a>            <span class="c1"># hep-lat/0306017 eq. (42)</span>
-</span><span id="Obs-272"><a href="#Obs-272"><span class="linenos">272</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span> <span class="o">+</span> <span class="mf">0.5</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs-273"><a href="#Obs-273"><span class="linenos">273</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs-274"><a href="#Obs-274"><span class="linenos">274</span></a>
-</span><span id="Obs-275"><a href="#Obs-275"><span class="linenos">275</span></a>            <span class="k">def</span> <span class="nf">_compute_drho</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
-</span><span id="Obs-276"><a href="#Obs-276"><span class="linenos">276</span></a>                <span class="n">tmp</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span><span class="n">w_max</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">::</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:</span><span class="n">w_max</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">i</span><span class="p">]])</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:</span><span class="n">w_max</span> <span class="o">-</span> <span class="n">i</span><span class="p">]</span>
-</span><span id="Obs-277"><a href="#Obs-277"><span class="linenos">277</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">tmp</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs-278"><a href="#Obs-278"><span class="linenos">278</span></a>
-</span><span id="Obs-279"><a href="#Obs-279"><span class="linenos">279</span></a>            <span class="n">_compute_drho</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs-280"><a href="#Obs-280"><span class="linenos">280</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Obs-281"><a href="#Obs-281"><span class="linenos">281</span></a>                <span class="n">texp</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span>
-</span><span id="Obs-282"><a href="#Obs-282"><span class="linenos">282</span></a>                <span class="c1"># Critical slowing down analysis</span>
-</span><span id="Obs-283"><a href="#Obs-283"><span class="linenos">283</span></a>                <span class="k">if</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">&lt;=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs-284"><a href="#Obs-284"><span class="linenos">284</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Need at least 8 samples for tau_exp error analysis&quot;</span><span class="p">)</span>
-</span><span id="Obs-285"><a href="#Obs-285"><span class="linenos">285</span></a>                <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="Obs-286"><a href="#Obs-286"><span class="linenos">286</span></a>                    <span class="n">_compute_drho</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs-287"><a href="#Obs-287"><span class="linenos">287</span></a>                    <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">])</span> <span class="o">&lt;</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="Obs-288"><a href="#Obs-288"><span class="linenos">288</span></a>                        <span class="c1"># Bias correction hep-lat/0306017 eq. (49) included</span>
-</span><span id="Obs-289"><a href="#Obs-289"><span class="linenos">289</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">+</span> <span class="n">texp</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span>  <span class="c1"># The absolute makes sure, that the tail contribution is always positive</span>
-</span><span id="Obs-290"><a href="#Obs-290"><span class="linenos">290</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">texp</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="Obs-291"><a href="#Obs-291"><span class="linenos">291</span></a>                        <span class="c1"># Error of tau_exp neglected so far, missing term: self.e_rho[e_name][n + 1] ** 2 * d_tau_exp ** 2</span>
-</span><span id="Obs-292"><a href="#Obs-292"><span class="linenos">292</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs-293"><a href="#Obs-293"><span class="linenos">293</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">n</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs-294"><a href="#Obs-294"><span class="linenos">294</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">n</span>
-</span><span id="Obs-295"><a href="#Obs-295"><span class="linenos">295</span></a>                        <span class="k">break</span>
-</span><span id="Obs-296"><a href="#Obs-296"><span class="linenos">296</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-297"><a href="#Obs-297"><span class="linenos">297</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="Obs-298"><a href="#Obs-298"><span class="linenos">298</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span>
-</span><span id="Obs-299"><a href="#Obs-299"><span class="linenos">299</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs-300"><a href="#Obs-300"><span class="linenos">300</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="p">(</span><span class="n">e_N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="Obs-301"><a href="#Obs-301"><span class="linenos">301</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs-302"><a href="#Obs-302"><span class="linenos">302</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs-303"><a href="#Obs-303"><span class="linenos">303</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-304"><a href="#Obs-304"><span class="linenos">304</span></a>                    <span class="c1"># Standard automatic windowing procedure</span>
-</span><span id="Obs-305"><a href="#Obs-305"><span class="linenos">305</span></a>                    <span class="n">tau</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">((</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="Obs-306"><a href="#Obs-306"><span class="linenos">306</span></a>                    <span class="n">g_w</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span> <span class="o">/</span> <span class="n">tau</span><span class="p">)</span> <span class="o">-</span> <span class="n">tau</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span> <span class="o">*</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs-307"><a href="#Obs-307"><span class="linenos">307</span></a>                    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">):</span>
-</span><span id="Obs-308"><a href="#Obs-308"><span class="linenos">308</span></a>                        <span class="k">if</span> <span class="n">n</span> <span class="o">&lt;</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="Obs-309"><a href="#Obs-309"><span class="linenos">309</span></a>                            <span class="n">_compute_drho</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs-310"><a href="#Obs-310"><span class="linenos">310</span></a>                        <span class="k">if</span> <span class="n">g_w</span><span class="p">[</span><span class="n">n</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">&lt;</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="n">w_max</span> <span class="o">-</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs-311"><a href="#Obs-311"><span class="linenos">311</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>  <span class="c1"># Bias correction hep-lat/0306017 eq. (49)</span>
-</span><span id="Obs-312"><a href="#Obs-312"><span class="linenos">312</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span>
-</span><span id="Obs-313"><a href="#Obs-313"><span class="linenos">313</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs-314"><a href="#Obs-314"><span class="linenos">314</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">n</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs-315"><a href="#Obs-315"><span class="linenos">315</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">n</span>
-</span><span id="Obs-316"><a href="#Obs-316"><span class="linenos">316</span></a>                            <span class="k">break</span>
-</span><span id="Obs-317"><a href="#Obs-317"><span class="linenos">317</span></a>
-</span><span id="Obs-318"><a href="#Obs-318"><span class="linenos">318</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="Obs-319"><a href="#Obs-319"><span class="linenos">319</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">+=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="Obs-320"><a href="#Obs-320"><span class="linenos">320</span></a>
-</span><span id="Obs-321"><a href="#Obs-321"><span class="linenos">321</span></a>        <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="Obs-322"><a href="#Obs-322"><span class="linenos">322</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">errsq</span><span class="p">())</span>
-</span><span id="Obs-323"><a href="#Obs-323"><span class="linenos">323</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs-324"><a href="#Obs-324"><span class="linenos">324</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">**</span><span class="mi">2</span>
-</span><span id="Obs-325"><a href="#Obs-325"><span class="linenos">325</span></a>
-</span><span id="Obs-326"><a href="#Obs-326"><span class="linenos">326</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
-</span><span id="Obs-327"><a href="#Obs-327"><span class="linenos">327</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="Obs-328"><a href="#Obs-328"><span class="linenos">328</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs-329"><a href="#Obs-329"><span class="linenos">329</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-330"><a href="#Obs-330"><span class="linenos">330</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span><span class="p">)</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
-</span><span id="Obs-331"><a href="#Obs-331"><span class="linenos">331</span></a>        <span class="k">return</span>
-</span><span id="Obs-332"><a href="#Obs-332"><span class="linenos">332</span></a>
-</span><span id="Obs-333"><a href="#Obs-333"><span class="linenos">333</span></a>    <span class="k">def</span> <span class="nf">_calc_gamma</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">shape</span><span class="p">,</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">):</span>
-</span><span id="Obs-334"><a href="#Obs-334"><span class="linenos">334</span></a>        <span class="sd">&quot;&quot;&quot;Calculate Gamma_{AA} from the deltas, which are defined on idx.</span>
-</span><span id="Obs-335"><a href="#Obs-335"><span class="linenos">335</span></a><span class="sd">           idx is assumed to be a contiguous range (possibly with a stepsize != 1)</span>
-</span><span id="Obs-336"><a href="#Obs-336"><span class="linenos">336</span></a>
-</span><span id="Obs-337"><a href="#Obs-337"><span class="linenos">337</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs-338"><a href="#Obs-338"><span class="linenos">338</span></a><span class="sd">        ----------</span>
-</span><span id="Obs-339"><a href="#Obs-339"><span class="linenos">339</span></a><span class="sd">        deltas : list</span>
-</span><span id="Obs-340"><a href="#Obs-340"><span class="linenos">340</span></a><span class="sd">            List of fluctuations</span>
-</span><span id="Obs-341"><a href="#Obs-341"><span class="linenos">341</span></a><span class="sd">        idx : list</span>
-</span><span id="Obs-342"><a href="#Obs-342"><span class="linenos">342</span></a><span class="sd">            List or range of configurations on which the deltas are defined.</span>
-</span><span id="Obs-343"><a href="#Obs-343"><span class="linenos">343</span></a><span class="sd">        shape : int</span>
-</span><span id="Obs-344"><a href="#Obs-344"><span class="linenos">344</span></a><span class="sd">            Number of configurations in idx.</span>
-</span><span id="Obs-345"><a href="#Obs-345"><span class="linenos">345</span></a><span class="sd">        w_max : int</span>
-</span><span id="Obs-346"><a href="#Obs-346"><span class="linenos">346</span></a><span class="sd">            Upper bound for the summation window.</span>
-</span><span id="Obs-347"><a href="#Obs-347"><span class="linenos">347</span></a><span class="sd">        fft : bool</span>
-</span><span id="Obs-348"><a href="#Obs-348"><span class="linenos">348</span></a><span class="sd">            determines whether the fft algorithm is used for the computation</span>
-</span><span id="Obs-349"><a href="#Obs-349"><span class="linenos">349</span></a><span class="sd">            of the autocorrelation function.</span>
-</span><span id="Obs-350"><a href="#Obs-350"><span class="linenos">350</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs-351"><a href="#Obs-351"><span class="linenos">351</span></a>        <span class="n">gamma</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="Obs-352"><a href="#Obs-352"><span class="linenos">352</span></a>        <span class="n">deltas</span> <span class="o">=</span> <span class="n">_expand_deltas</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">shape</span><span class="p">)</span>
-</span><span id="Obs-353"><a href="#Obs-353"><span class="linenos">353</span></a>        <span class="n">new_shape</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span>
-</span><span id="Obs-354"><a href="#Obs-354"><span class="linenos">354</span></a>        <span class="k">if</span> <span class="n">fft</span><span class="p">:</span>
-</span><span id="Obs-355"><a href="#Obs-355"><span class="linenos">355</span></a>            <span class="n">max_gamma</span> <span class="o">=</span> <span class="nb">min</span><span class="p">(</span><span class="n">new_shape</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span>
-</span><span id="Obs-356"><a href="#Obs-356"><span class="linenos">356</span></a>            <span class="c1"># The padding for the fft has to be even</span>
-</span><span id="Obs-357"><a href="#Obs-357"><span class="linenos">357</span></a>            <span class="n">padding</span> <span class="o">=</span> <span class="n">new_shape</span> <span class="o">+</span> <span class="n">max_gamma</span> <span class="o">+</span> <span class="p">(</span><span class="n">new_shape</span> <span class="o">+</span> <span class="n">max_gamma</span><span class="p">)</span> <span class="o">%</span> <span class="mi">2</span>
-</span><span id="Obs-358"><a href="#Obs-358"><span class="linenos">358</span></a>            <span class="n">gamma</span><span class="p">[:</span><span class="n">max_gamma</span><span class="p">]</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">fft</span><span class="o">.</span><span class="n">irfft</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">fft</span><span class="o">.</span><span class="n">rfft</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">padding</span><span class="p">))</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)[:</span><span class="n">max_gamma</span><span class="p">]</span>
-</span><span id="Obs-359"><a href="#Obs-359"><span class="linenos">359</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-360"><a href="#Obs-360"><span class="linenos">360</span></a>            <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">w_max</span><span class="p">):</span>
-</span><span id="Obs-361"><a href="#Obs-361"><span class="linenos">361</span></a>                <span class="k">if</span> <span class="n">new_shape</span> <span class="o">-</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Obs-362"><a href="#Obs-362"><span class="linenos">362</span></a>                    <span class="n">gamma</span><span class="p">[</span><span class="n">n</span><span class="p">]</span> <span class="o">+=</span> <span class="n">deltas</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span><span class="n">new_shape</span> <span class="o">-</span> <span class="n">n</span><span class="p">]</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">n</span><span class="p">:</span><span class="n">new_shape</span><span class="p">])</span>
-</span><span id="Obs-363"><a href="#Obs-363"><span class="linenos">363</span></a>
-</span><span id="Obs-364"><a href="#Obs-364"><span class="linenos">364</span></a>        <span class="k">return</span> <span class="n">gamma</span>
-</span><span id="Obs-365"><a href="#Obs-365"><span class="linenos">365</span></a>
-</span><span id="Obs-366"><a href="#Obs-366"><span class="linenos">366</span></a>    <span class="k">def</span> <span class="nf">details</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">ens_content</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="Obs-367"><a href="#Obs-367"><span class="linenos">367</span></a>        <span class="sd">&quot;&quot;&quot;Output detailed properties of the Obs.</span>
-</span><span id="Obs-368"><a href="#Obs-368"><span class="linenos">368</span></a>
-</span><span id="Obs-369"><a href="#Obs-369"><span class="linenos">369</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs-370"><a href="#Obs-370"><span class="linenos">370</span></a><span class="sd">        ----------</span>
-</span><span id="Obs-371"><a href="#Obs-371"><span class="linenos">371</span></a><span class="sd">        ens_content : bool</span>
-</span><span id="Obs-372"><a href="#Obs-372"><span class="linenos">372</span></a><span class="sd">            print details about the ensembles and replica if true.</span>
-</span><span id="Obs-373"><a href="#Obs-373"><span class="linenos">373</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs-374"><a href="#Obs-374"><span class="linenos">374</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Obs-375"><a href="#Obs-375"><span class="linenos">375</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Description:&quot;</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
-</span><span id="Obs-376"><a href="#Obs-376"><span class="linenos">376</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="Obs-377"><a href="#Obs-377"><span class="linenos">377</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Result</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">))</span>
-</span><span id="Obs-378"><a href="#Obs-378"><span class="linenos">378</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-379"><a href="#Obs-379"><span class="linenos">379</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="Obs-380"><a href="#Obs-380"><span class="linenos">380</span></a>                <span class="n">percentage</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">nan</span>
-</span><span id="Obs-381"><a href="#Obs-381"><span class="linenos">381</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-382"><a href="#Obs-382"><span class="linenos">382</span></a>                <span class="n">percentage</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">*</span> <span class="mi">100</span>
-</span><span id="Obs-383"><a href="#Obs-383"><span class="linenos">383</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Result</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> (</span><span class="si">%3.3f%%</span><span class="s1">)&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span><span class="p">,</span> <span class="n">percentage</span><span class="p">))</span>
-</span><span id="Obs-384"><a href="#Obs-384"><span class="linenos">384</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs-385"><a href="#Obs-385"><span class="linenos">385</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; Ensemble errors:&#39;</span><span class="p">)</span>
-</span><span id="Obs-386"><a href="#Obs-386"><span class="linenos">386</span></a>            <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
-</span><span id="Obs-387"><a href="#Obs-387"><span class="linenos">387</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs-388"><a href="#Obs-388"><span class="linenos">388</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs-389"><a href="#Obs-389"><span class="linenos">389</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Obs-390"><a href="#Obs-390"><span class="linenos">390</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; t_int</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> tau_exp = </span><span class="si">%3.2f</span><span class="s1">,  N_sigma = </span><span class="si">%1.0i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs-391"><a href="#Obs-391"><span class="linenos">391</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-392"><a href="#Obs-392"><span class="linenos">392</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; t_int</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> S = </span><span class="si">%3.2f</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs-393"><a href="#Obs-393"><span class="linenos">393</span></a>            <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="Obs-394"><a href="#Obs-394"><span class="linenos">394</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs-395"><a href="#Obs-395"><span class="linenos">395</span></a>        <span class="k">if</span> <span class="n">ens_content</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="Obs-396"><a href="#Obs-396"><span class="linenos">396</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs-397"><a href="#Obs-397"><span class="linenos">397</span></a>                <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="s1">&#39;samples in&#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">),</span> <span class="s1">&#39;ensemble:&#39;</span><span class="p">)</span>
-</span><span id="Obs-398"><a href="#Obs-398"><span class="linenos">398</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-399"><a href="#Obs-399"><span class="linenos">399</span></a>                <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="s1">&#39;samples in&#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">),</span> <span class="s1">&#39;ensembles:&#39;</span><span class="p">)</span>
-</span><span id="Obs-400"><a href="#Obs-400"><span class="linenos">400</span></a>            <span class="n">my_string_list</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs-401"><a href="#Obs-401"><span class="linenos">401</span></a>            <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">items</span><span class="p">()):</span>
-</span><span id="Obs-402"><a href="#Obs-402"><span class="linenos">402</span></a>                <span class="k">if</span> <span class="n">key</span> <span class="ow">not</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="p">:</span>
-</span><span id="Obs-403"><a href="#Obs-403"><span class="linenos">403</span></a>                    <span class="n">my_string</span> <span class="o">=</span> <span class="s1">&#39;  &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Ensemble &#39;&quot;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
-</span><span id="Obs-404"><a href="#Obs-404"><span class="linenos">404</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">value</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs-405"><a href="#Obs-405"><span class="linenos">405</span></a>                        <span class="n">my_string</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39;: </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="si">}</span><span class="s1"> configurations&#39;</span>
-</span><span id="Obs-406"><a href="#Obs-406"><span class="linenos">406</span></a>                        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]],</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="Obs-407"><a href="#Obs-407"><span class="linenos">407</span></a>                            <span class="n">my_string</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39; (from </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">start</span><span class="si">}</span><span class="s1"> to </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="sa">f</span><span class="s1">&#39; in steps of </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">step</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;)&#39;</span>
-</span><span id="Obs-408"><a href="#Obs-408"><span class="linenos">408</span></a>                        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-409"><a href="#Obs-409"><span class="linenos">409</span></a>                            <span class="n">my_string</span> <span class="o">+=</span> <span class="s1">&#39; (irregular range)&#39;</span>
-</span><span id="Obs-410"><a href="#Obs-410"><span class="linenos">410</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-411"><a href="#Obs-411"><span class="linenos">411</span></a>                        <span class="n">sublist</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs-412"><a href="#Obs-412"><span class="linenos">412</span></a>                        <span class="k">for</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">value</span><span class="p">:</span>
-</span><span id="Obs-413"><a href="#Obs-413"><span class="linenos">413</span></a>                            <span class="n">my_substring</span> <span class="o">=</span> <span class="s1">&#39;    &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Replicum &#39;&quot;</span> <span class="o">+</span> <span class="n">v</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">key</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
-</span><span id="Obs-414"><a href="#Obs-414"><span class="linenos">414</span></a>                            <span class="n">my_substring</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39;: </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="si">}</span><span class="s1"> configurations&#39;</span>
-</span><span id="Obs-415"><a href="#Obs-415"><span class="linenos">415</span></a>                            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">],</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="Obs-416"><a href="#Obs-416"><span class="linenos">416</span></a>                                <span class="n">my_substring</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39; (from </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">start</span><span class="si">}</span><span class="s1"> to </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="sa">f</span><span class="s1">&#39; in steps of </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">step</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;)&#39;</span>
-</span><span id="Obs-417"><a href="#Obs-417"><span class="linenos">417</span></a>                            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-418"><a href="#Obs-418"><span class="linenos">418</span></a>                                <span class="n">my_substring</span> <span class="o">+=</span> <span class="s1">&#39; (irregular range)&#39;</span>
-</span><span id="Obs-419"><a href="#Obs-419"><span class="linenos">419</span></a>                            <span class="n">sublist</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">my_substring</span><span class="p">)</span>
-</span><span id="Obs-420"><a href="#Obs-420"><span class="linenos">420</span></a>
-</span><span id="Obs-421"><a href="#Obs-421"><span class="linenos">421</span></a>                        <span class="n">my_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sublist</span><span class="p">)</span>
-</span><span id="Obs-422"><a href="#Obs-422"><span class="linenos">422</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-423"><a href="#Obs-423"><span class="linenos">423</span></a>                    <span class="n">my_string</span> <span class="o">=</span> <span class="s1">&#39;  &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Covobs   &#39;&quot;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
-</span><span id="Obs-424"><a href="#Obs-424"><span class="linenos">424</span></a>                <span class="n">my_string_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">my_string</span><span class="p">)</span>
-</span><span id="Obs-425"><a href="#Obs-425"><span class="linenos">425</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">my_string_list</span><span class="p">))</span>
-</span><span id="Obs-426"><a href="#Obs-426"><span class="linenos">426</span></a>
-</span><span id="Obs-427"><a href="#Obs-427"><span class="linenos">427</span></a>    <span class="k">def</span> <span class="nf">is_zero_within_error</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">sigma</span><span class="o">=</span><span class="mi">1</span><span class="p">):</span>
-</span><span id="Obs-428"><a href="#Obs-428"><span class="linenos">428</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether the observable is zero within &#39;sigma&#39; standard errors.</span>
-</span><span id="Obs-429"><a href="#Obs-429"><span class="linenos">429</span></a>
-</span><span id="Obs-430"><a href="#Obs-430"><span class="linenos">430</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs-431"><a href="#Obs-431"><span class="linenos">431</span></a><span class="sd">        ----------</span>
-</span><span id="Obs-432"><a href="#Obs-432"><span class="linenos">432</span></a><span class="sd">        sigma : int</span>
-</span><span id="Obs-433"><a href="#Obs-433"><span class="linenos">433</span></a><span class="sd">            Number of standard errors used for the check.</span>
-</span><span id="Obs-434"><a href="#Obs-434"><span class="linenos">434</span></a>
-</span><span id="Obs-435"><a href="#Obs-435"><span class="linenos">435</span></a><span class="sd">        Works only properly when the gamma method was run.</span>
-</span><span id="Obs-436"><a href="#Obs-436"><span class="linenos">436</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs-437"><a href="#Obs-437"><span class="linenos">437</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span> <span class="ow">or</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="n">sigma</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
-</span><span id="Obs-438"><a href="#Obs-438"><span class="linenos">438</span></a>
-</span><span id="Obs-439"><a href="#Obs-439"><span class="linenos">439</span></a>    <span class="k">def</span> <span class="nf">is_zero</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">atol</span><span class="o">=</span><span class="mf">1e-10</span><span class="p">):</span>
-</span><span id="Obs-440"><a href="#Obs-440"><span class="linenos">440</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether the observable is zero within a given tolerance.</span>
-</span><span id="Obs-441"><a href="#Obs-441"><span class="linenos">441</span></a>
-</span><span id="Obs-442"><a href="#Obs-442"><span class="linenos">442</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs-443"><a href="#Obs-443"><span class="linenos">443</span></a><span class="sd">        ----------</span>
-</span><span id="Obs-444"><a href="#Obs-444"><span class="linenos">444</span></a><span class="sd">        atol : float</span>
-</span><span id="Obs-445"><a href="#Obs-445"><span class="linenos">445</span></a><span class="sd">            Absolute tolerance (for details see numpy documentation).</span>
-</span><span id="Obs-446"><a href="#Obs-446"><span class="linenos">446</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs-447"><a href="#Obs-447"><span class="linenos">447</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">delta</span><span class="p">,</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="k">for</span> <span class="n">delta</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">values</span><span class="p">())</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">delta</span><span class="o">.</span><span class="n">errsq</span><span class="p">(),</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="k">for</span> <span class="n">delta</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">values</span><span class="p">())</span>
-</span><span id="Obs-448"><a href="#Obs-448"><span class="linenos">448</span></a>
-</span><span id="Obs-449"><a href="#Obs-449"><span class="linenos">449</span></a>    <span class="k">def</span> <span class="nf">plot_tauint</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Obs-450"><a href="#Obs-450"><span class="linenos">450</span></a>        <span class="sd">&quot;&quot;&quot;Plot integrated autocorrelation time for each ensemble.</span>
-</span><span id="Obs-451"><a href="#Obs-451"><span class="linenos">451</span></a>
-</span><span id="Obs-452"><a href="#Obs-452"><span class="linenos">452</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs-453"><a href="#Obs-453"><span class="linenos">453</span></a><span class="sd">        ----------</span>
-</span><span id="Obs-454"><a href="#Obs-454"><span class="linenos">454</span></a><span class="sd">        save : str</span>
-</span><span id="Obs-455"><a href="#Obs-455"><span class="linenos">455</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
-</span><span id="Obs-456"><a href="#Obs-456"><span class="linenos">456</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs-457"><a href="#Obs-457"><span class="linenos">457</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="Obs-458"><a href="#Obs-458"><span class="linenos">458</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="Obs-459"><a href="#Obs-459"><span class="linenos">459</span></a>
-</span><span id="Obs-460"><a href="#Obs-460"><span class="linenos">460</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="Obs-461"><a href="#Obs-461"><span class="linenos">461</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="Obs-462"><a href="#Obs-462"><span class="linenos">462</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$W$&#39;</span><span class="p">)</span>
-</span><span id="Obs-463"><a href="#Obs-463"><span class="linenos">463</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$\tau_\mathrm</span><span class="si">{int}</span><span class="s1">$&#39;</span><span class="p">)</span>
-</span><span id="Obs-464"><a href="#Obs-464"><span class="linenos">464</span></a>            <span class="n">length</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs-465"><a href="#Obs-465"><span class="linenos">465</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Obs-466"><a href="#Obs-466"><span class="linenos">466</span></a>                <span class="n">base</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]]</span>
-</span><span id="Obs-467"><a href="#Obs-467"><span class="linenos">467</span></a>                <span class="n">x_help</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span>
-</span><span id="Obs-468"><a href="#Obs-468"><span class="linenos">468</span></a>                <span class="n">y_help</span> <span class="o">=</span> <span class="p">(</span><span class="n">x_help</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">x_help</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)))</span> <span class="o">+</span> <span class="n">base</span>
-</span><span id="Obs-469"><a href="#Obs-469"><span class="linenos">469</span></a>                <span class="n">x_arr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span>
-</span><span id="Obs-470"><a href="#Obs-470"><span class="linenos">470</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_arr</span><span class="p">,</span> <span class="n">y_help</span><span class="p">,</span> <span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="Obs-471"><a href="#Obs-471"><span class="linenos">471</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span>
-</span><span id="Obs-472"><a href="#Obs-472"><span class="linenos">472</span></a>                             <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">,</span> <span class="n">mfc</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;axes.facecolor&#39;</span><span class="p">])</span>
-</span><span id="Obs-473"><a href="#Obs-473"><span class="linenos">473</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mf">1.5</span>
-</span><span id="Obs-474"><a href="#Obs-474"><span class="linenos">474</span></a>                <span class="n">label</span> <span class="o">=</span> <span class="n">e_name</span> <span class="o">+</span> <span class="sa">r</span><span class="s1">&#39;, $\tau_\mathrm</span><span class="si">{exp}</span><span class="s1">$=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">))</span>
-</span><span id="Obs-475"><a href="#Obs-475"><span class="linenos">475</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-476"><a href="#Obs-476"><span class="linenos">476</span></a>                <span class="n">label</span> <span class="o">=</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;, S=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">))</span>
-</span><span id="Obs-477"><a href="#Obs-477"><span class="linenos">477</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="mf">10.5</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
-</span><span id="Obs-478"><a href="#Obs-478"><span class="linenos">478</span></a>
-</span><span id="Obs-479"><a href="#Obs-479"><span class="linenos">479</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">length</span><span class="p">)[:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="n">label</span><span class="p">)</span>
-</span><span id="Obs-480"><a href="#Obs-480"><span class="linenos">480</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">)</span>
-</span><span id="Obs-481"><a href="#Obs-481"><span class="linenos">481</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
-</span><span id="Obs-482"><a href="#Obs-482"><span class="linenos">482</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">)</span>
-</span><span id="Obs-483"><a href="#Obs-483"><span class="linenos">483</span></a>            <span class="n">ylim</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">()</span>
-</span><span id="Obs-484"><a href="#Obs-484"><span class="linenos">484</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">(</span><span class="n">bottom</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="nb">max</span><span class="p">(</span><span class="mf">1.0</span><span class="p">,</span> <span class="n">ylim</span><span class="p">[</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="Obs-485"><a href="#Obs-485"><span class="linenos">485</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="Obs-486"><a href="#Obs-486"><span class="linenos">486</span></a>            <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
-</span><span id="Obs-487"><a href="#Obs-487"><span class="linenos">487</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span> <span class="o">+</span> <span class="s2">&quot;_&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
-</span><span id="Obs-488"><a href="#Obs-488"><span class="linenos">488</span></a>
-</span><span id="Obs-489"><a href="#Obs-489"><span class="linenos">489</span></a>    <span class="k">def</span> <span class="nf">plot_rho</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Obs-490"><a href="#Obs-490"><span class="linenos">490</span></a>        <span class="sd">&quot;&quot;&quot;Plot normalized autocorrelation function time for each ensemble.</span>
-</span><span id="Obs-491"><a href="#Obs-491"><span class="linenos">491</span></a>
-</span><span id="Obs-492"><a href="#Obs-492"><span class="linenos">492</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs-493"><a href="#Obs-493"><span class="linenos">493</span></a><span class="sd">        ----------</span>
-</span><span id="Obs-494"><a href="#Obs-494"><span class="linenos">494</span></a><span class="sd">        save : str</span>
-</span><span id="Obs-495"><a href="#Obs-495"><span class="linenos">495</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
-</span><span id="Obs-496"><a href="#Obs-496"><span class="linenos">496</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs-497"><a href="#Obs-497"><span class="linenos">497</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="Obs-498"><a href="#Obs-498"><span class="linenos">498</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="Obs-499"><a href="#Obs-499"><span class="linenos">499</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="Obs-500"><a href="#Obs-500"><span class="linenos">500</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="Obs-501"><a href="#Obs-501"><span class="linenos">501</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;W&#39;</span><span class="p">)</span>
-</span><span id="Obs-502"><a href="#Obs-502"><span class="linenos">502</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;rho&#39;</span><span class="p">)</span>
-</span><span id="Obs-503"><a href="#Obs-503"><span class="linenos">503</span></a>            <span class="n">length</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs-504"><a href="#Obs-504"><span class="linenos">504</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">length</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="n">length</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:],</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
-</span><span id="Obs-505"><a href="#Obs-505"><span class="linenos">505</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.25</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="Obs-506"><a href="#Obs-506"><span class="linenos">506</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Obs-507"><a href="#Obs-507"><span class="linenos">507</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span>
-</span><span id="Obs-508"><a href="#Obs-508"><span class="linenos">508</span></a>                         <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="mi">0</span><span class="p">],</span> <span class="s1">&#39;k-&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs-509"><a href="#Obs-509"><span class="linenos">509</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mf">1.5</span>
-</span><span id="Obs-510"><a href="#Obs-510"><span class="linenos">510</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Rho &#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="sa">r</span><span class="s1">&#39;, tau\_exp=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">)))</span>
-</span><span id="Obs-511"><a href="#Obs-511"><span class="linenos">511</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-512"><a href="#Obs-512"><span class="linenos">512</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="mf">10.5</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
-</span><span id="Obs-513"><a href="#Obs-513"><span class="linenos">513</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Rho &#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;, S=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">)))</span>
-</span><span id="Obs-514"><a href="#Obs-514"><span class="linenos">514</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">([</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="s1">&#39;k--&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs-515"><a href="#Obs-515"><span class="linenos">515</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">)</span>
-</span><span id="Obs-516"><a href="#Obs-516"><span class="linenos">516</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="Obs-517"><a href="#Obs-517"><span class="linenos">517</span></a>            <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
-</span><span id="Obs-518"><a href="#Obs-518"><span class="linenos">518</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span> <span class="o">+</span> <span class="s2">&quot;_&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
-</span><span id="Obs-519"><a href="#Obs-519"><span class="linenos">519</span></a>
-</span><span id="Obs-520"><a href="#Obs-520"><span class="linenos">520</span></a>    <span class="k">def</span> <span class="nf">plot_rep_dist</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-521"><a href="#Obs-521"><span class="linenos">521</span></a>        <span class="sd">&quot;&quot;&quot;Plot replica distribution for each ensemble with more than one replicum.&quot;&quot;&quot;</span>
-</span><span id="Obs-522"><a href="#Obs-522"><span class="linenos">522</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="Obs-523"><a href="#Obs-523"><span class="linenos">523</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="Obs-524"><a href="#Obs-524"><span class="linenos">524</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="Obs-525"><a href="#Obs-525"><span class="linenos">525</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs-526"><a href="#Obs-526"><span class="linenos">526</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;No replica distribution for a single replicum (&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;)&#39;</span><span class="p">)</span>
-</span><span id="Obs-527"><a href="#Obs-527"><span class="linenos">527</span></a>                <span class="k">continue</span>
-</span><span id="Obs-528"><a href="#Obs-528"><span class="linenos">528</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs-529"><a href="#Obs-529"><span class="linenos">529</span></a>            <span class="n">sub_r_mean</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs-530"><a href="#Obs-530"><span class="linenos">530</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
-</span><span id="Obs-531"><a href="#Obs-531"><span class="linenos">531</span></a>                <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
-</span><span id="Obs-532"><a href="#Obs-532"><span class="linenos">532</span></a>                <span class="n">sub_r_mean</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span>
-</span><span id="Obs-533"><a href="#Obs-533"><span class="linenos">533</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span>
-</span><span id="Obs-534"><a href="#Obs-534"><span class="linenos">534</span></a>            <span class="n">sub_r_mean</span> <span class="o">/=</span> <span class="n">e_N</span>
-</span><span id="Obs-535"><a href="#Obs-535"><span class="linenos">535</span></a>            <span class="n">arr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs-536"><a href="#Obs-536"><span class="linenos">536</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
-</span><span id="Obs-537"><a href="#Obs-537"><span class="linenos">537</span></a>                <span class="n">arr</span><span class="p">[</span><span class="n">r</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">-</span> <span class="n">sub_r_mean</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">e_N</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="Obs-538"><a href="#Obs-538"><span class="linenos">538</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">hist</span><span class="p">(</span><span class="n">arr</span><span class="p">,</span> <span class="n">rwidth</span><span class="o">=</span><span class="mf">0.8</span><span class="p">,</span> <span class="n">bins</span><span class="o">=</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs-539"><a href="#Obs-539"><span class="linenos">539</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Replica distribution&#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39; (mean=0, var=1)&#39;</span><span class="p">)</span>
-</span><span id="Obs-540"><a href="#Obs-540"><span class="linenos">540</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="Obs-541"><a href="#Obs-541"><span class="linenos">541</span></a>
-</span><span id="Obs-542"><a href="#Obs-542"><span class="linenos">542</span></a>    <span class="k">def</span> <span class="nf">plot_history</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">expand</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="Obs-543"><a href="#Obs-543"><span class="linenos">543</span></a>        <span class="sd">&quot;&quot;&quot;Plot derived Monte Carlo history for each ensemble</span>
-</span><span id="Obs-544"><a href="#Obs-544"><span class="linenos">544</span></a>
-</span><span id="Obs-545"><a href="#Obs-545"><span class="linenos">545</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs-546"><a href="#Obs-546"><span class="linenos">546</span></a><span class="sd">        ----------</span>
-</span><span id="Obs-547"><a href="#Obs-547"><span class="linenos">547</span></a><span class="sd">        expand : bool</span>
-</span><span id="Obs-548"><a href="#Obs-548"><span class="linenos">548</span></a><span class="sd">            show expanded history for irregular Monte Carlo chains (default: True).</span>
-</span><span id="Obs-549"><a href="#Obs-549"><span class="linenos">549</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs-550"><a href="#Obs-550"><span class="linenos">550</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="Obs-551"><a href="#Obs-551"><span class="linenos">551</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="Obs-552"><a href="#Obs-552"><span class="linenos">552</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs-553"><a href="#Obs-553"><span class="linenos">553</span></a>            <span class="n">tmp</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs-554"><a href="#Obs-554"><span class="linenos">554</span></a>            <span class="n">tmp_expanded</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs-555"><a href="#Obs-555"><span class="linenos">555</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
-</span><span id="Obs-556"><a href="#Obs-556"><span class="linenos">556</span></a>                <span class="n">tmp</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
-</span><span id="Obs-557"><a href="#Obs-557"><span class="linenos">557</span></a>                <span class="k">if</span> <span class="n">expand</span><span class="p">:</span>
-</span><span id="Obs-558"><a href="#Obs-558"><span class="linenos">558</span></a>                    <span class="n">tmp_expanded</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_expand_deltas</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]),</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
-</span><span id="Obs-559"><a href="#Obs-559"><span class="linenos">559</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp_expanded</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="Obs-560"><a href="#Obs-560"><span class="linenos">560</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-561"><a href="#Obs-561"><span class="linenos">561</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="Obs-562"><a href="#Obs-562"><span class="linenos">562</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span>
-</span><span id="Obs-563"><a href="#Obs-563"><span class="linenos">563</span></a>            <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs-564"><a href="#Obs-564"><span class="linenos">564</span></a>            <span class="n">y_test</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="Obs-565"><a href="#Obs-565"><span class="linenos">565</span></a>            <span class="k">if</span> <span class="n">expand</span><span class="p">:</span>
-</span><span id="Obs-566"><a href="#Obs-566"><span class="linenos">566</span></a>                <span class="n">y</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">tmp_expanded</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="Obs-567"><a href="#Obs-567"><span class="linenos">567</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-568"><a href="#Obs-568"><span class="linenos">568</span></a>                <span class="n">y</span> <span class="o">=</span> <span class="n">y_test</span>
-</span><span id="Obs-569"><a href="#Obs-569"><span class="linenos">569</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;.&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">3</span><span class="p">)</span>
-</span><span id="Obs-570"><a href="#Obs-570"><span class="linenos">570</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">e_N</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
-</span><span id="Obs-571"><a href="#Obs-571"><span class="linenos">571</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">e_name</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">skew: </span><span class="si">{</span><span class="n">skew</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1"> (p=</span><span class="si">{</span><span class="n">skewtest</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="o">.</span><span class="n">pvalue</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1">), kurtosis: </span><span class="si">{</span><span class="n">kurtosis</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1"> (p=</span><span class="si">{</span><span class="n">kurtosistest</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="o">.</span><span class="n">pvalue</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1">)&#39;</span><span class="p">)</span>
-</span><span id="Obs-572"><a href="#Obs-572"><span class="linenos">572</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="Obs-573"><a href="#Obs-573"><span class="linenos">573</span></a>
-</span><span id="Obs-574"><a href="#Obs-574"><span class="linenos">574</span></a>    <span class="k">def</span> <span class="nf">plot_piechart</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Obs-575"><a href="#Obs-575"><span class="linenos">575</span></a>        <span class="sd">&quot;&quot;&quot;Plot piechart which shows the fractional contribution of each</span>
-</span><span id="Obs-576"><a href="#Obs-576"><span class="linenos">576</span></a><span class="sd">        ensemble to the error and returns a dictionary containing the fractions.</span>
-</span><span id="Obs-577"><a href="#Obs-577"><span class="linenos">577</span></a>
-</span><span id="Obs-578"><a href="#Obs-578"><span class="linenos">578</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs-579"><a href="#Obs-579"><span class="linenos">579</span></a><span class="sd">        ----------</span>
-</span><span id="Obs-580"><a href="#Obs-580"><span class="linenos">580</span></a><span class="sd">        save : str</span>
-</span><span id="Obs-581"><a href="#Obs-581"><span class="linenos">581</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
-</span><span id="Obs-582"><a href="#Obs-582"><span class="linenos">582</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs-583"><a href="#Obs-583"><span class="linenos">583</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="Obs-584"><a href="#Obs-584"><span class="linenos">584</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="Obs-585"><a href="#Obs-585"><span class="linenos">585</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">,</span> <span class="n">atol</span><span class="o">=</span><span class="mf">1e-15</span><span class="p">):</span>
-</span><span id="Obs-586"><a href="#Obs-586"><span class="linenos">586</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error is 0.0&#39;</span><span class="p">)</span>
-</span><span id="Obs-587"><a href="#Obs-587"><span class="linenos">587</span></a>        <span class="n">labels</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_names</span>
-</span><span id="Obs-588"><a href="#Obs-588"><span class="linenos">588</span></a>        <span class="n">sizes</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">labels</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="Obs-589"><a href="#Obs-589"><span class="linenos">589</span></a>        <span class="n">fig1</span><span class="p">,</span> <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplots</span><span class="p">()</span>
-</span><span id="Obs-590"><a href="#Obs-590"><span class="linenos">590</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">pie</span><span class="p">(</span><span class="n">sizes</span><span class="p">,</span> <span class="n">labels</span><span class="o">=</span><span class="n">labels</span><span class="p">,</span> <span class="n">startangle</span><span class="o">=</span><span class="mi">90</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="Obs-591"><a href="#Obs-591"><span class="linenos">591</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">axis</span><span class="p">(</span><span class="s1">&#39;equal&#39;</span><span class="p">)</span>
-</span><span id="Obs-592"><a href="#Obs-592"><span class="linenos">592</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="Obs-593"><a href="#Obs-593"><span class="linenos">593</span></a>        <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
-</span><span id="Obs-594"><a href="#Obs-594"><span class="linenos">594</span></a>            <span class="n">fig1</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span><span class="p">)</span>
-</span><span id="Obs-595"><a href="#Obs-595"><span class="linenos">595</span></a>
-</span><span id="Obs-596"><a href="#Obs-596"><span class="linenos">596</span></a>        <span class="k">return</span> <span class="nb">dict</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">,</span> <span class="n">sizes</span><span class="p">))</span>
-</span><span id="Obs-597"><a href="#Obs-597"><span class="linenos">597</span></a>
-</span><span id="Obs-598"><a href="#Obs-598"><span class="linenos">598</span></a>    <span class="k">def</span> <span class="nf">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="n">datatype</span><span class="o">=</span><span class="s2">&quot;json.gz&quot;</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s2">&quot;&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Obs-599"><a href="#Obs-599"><span class="linenos">599</span></a>        <span class="sd">&quot;&quot;&quot;Dump the Obs to a file &#39;name&#39; of chosen format.</span>
-</span><span id="Obs-600"><a href="#Obs-600"><span class="linenos">600</span></a>
-</span><span id="Obs-601"><a href="#Obs-601"><span class="linenos">601</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs-602"><a href="#Obs-602"><span class="linenos">602</span></a><span class="sd">        ----------</span>
-</span><span id="Obs-603"><a href="#Obs-603"><span class="linenos">603</span></a><span class="sd">        filename : str</span>
-</span><span id="Obs-604"><a href="#Obs-604"><span class="linenos">604</span></a><span class="sd">            name of the file to be saved.</span>
-</span><span id="Obs-605"><a href="#Obs-605"><span class="linenos">605</span></a><span class="sd">        datatype : str</span>
-</span><span id="Obs-606"><a href="#Obs-606"><span class="linenos">606</span></a><span class="sd">            Format of the exported file. Supported formats include</span>
-</span><span id="Obs-607"><a href="#Obs-607"><span class="linenos">607</span></a><span class="sd">            &quot;json.gz&quot; and &quot;pickle&quot;</span>
-</span><span id="Obs-608"><a href="#Obs-608"><span class="linenos">608</span></a><span class="sd">        description : str</span>
-</span><span id="Obs-609"><a href="#Obs-609"><span class="linenos">609</span></a><span class="sd">            Description for output file, only relevant for json.gz format.</span>
-</span><span id="Obs-610"><a href="#Obs-610"><span class="linenos">610</span></a><span class="sd">        path : str</span>
-</span><span id="Obs-611"><a href="#Obs-611"><span class="linenos">611</span></a><span class="sd">            specifies a custom path for the file (default &#39;.&#39;)</span>
-</span><span id="Obs-612"><a href="#Obs-612"><span class="linenos">612</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs-613"><a href="#Obs-613"><span class="linenos">613</span></a>        <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="Obs-614"><a href="#Obs-614"><span class="linenos">614</span></a>            <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">filename</span>
-</span><span id="Obs-615"><a href="#Obs-615"><span class="linenos">615</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-616"><a href="#Obs-616"><span class="linenos">616</span></a>            <span class="n">file_name</span> <span class="o">=</span> <span class="n">filename</span>
-</span><span id="Obs-617"><a href="#Obs-617"><span class="linenos">617</span></a>
-</span><span id="Obs-618"><a href="#Obs-618"><span class="linenos">618</span></a>        <span class="k">if</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;json.gz&quot;</span><span class="p">:</span>
-</span><span id="Obs-619"><a href="#Obs-619"><span class="linenos">619</span></a>            <span class="kn">from</span> <span class="nn">.input.json</span> <span class="kn">import</span> <span class="n">dump_to_json</span>
-</span><span id="Obs-620"><a href="#Obs-620"><span class="linenos">620</span></a>            <span class="n">dump_to_json</span><span class="p">([</span><span class="bp">self</span><span class="p">],</span> <span class="n">file_name</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="n">description</span><span class="p">)</span>
-</span><span id="Obs-621"><a href="#Obs-621"><span class="linenos">621</span></a>        <span class="k">elif</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;pickle&quot;</span><span class="p">:</span>
-</span><span id="Obs-622"><a href="#Obs-622"><span class="linenos">622</span></a>            <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">file_name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fb</span><span class="p">:</span>
-</span><span id="Obs-623"><a href="#Obs-623"><span class="linenos">623</span></a>                <span class="n">pickle</span><span class="o">.</span><span class="n">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">fb</span><span class="p">)</span>
-</span><span id="Obs-624"><a href="#Obs-624"><span class="linenos">624</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-625"><a href="#Obs-625"><span class="linenos">625</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown datatype &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">datatype</span><span class="p">))</span>
-</span><span id="Obs-626"><a href="#Obs-626"><span class="linenos">626</span></a>
-</span><span id="Obs-627"><a href="#Obs-627"><span class="linenos">627</span></a>    <span class="k">def</span> <span class="nf">export_jackknife</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-628"><a href="#Obs-628"><span class="linenos">628</span></a>        <span class="sd">&quot;&quot;&quot;Export jackknife samples from the Obs</span>
-</span><span id="Obs-629"><a href="#Obs-629"><span class="linenos">629</span></a>
-</span><span id="Obs-630"><a href="#Obs-630"><span class="linenos">630</span></a><span class="sd">        Returns</span>
-</span><span id="Obs-631"><a href="#Obs-631"><span class="linenos">631</span></a><span class="sd">        -------</span>
-</span><span id="Obs-632"><a href="#Obs-632"><span class="linenos">632</span></a><span class="sd">        numpy.ndarray</span>
-</span><span id="Obs-633"><a href="#Obs-633"><span class="linenos">633</span></a><span class="sd">            Returns a numpy array of length N + 1 where N is the number of samples</span>
-</span><span id="Obs-634"><a href="#Obs-634"><span class="linenos">634</span></a><span class="sd">            for the given ensemble and replicum. The zeroth entry of the array contains</span>
-</span><span id="Obs-635"><a href="#Obs-635"><span class="linenos">635</span></a><span class="sd">            the mean value of the Obs, entries 1 to N contain the N jackknife samples</span>
-</span><span id="Obs-636"><a href="#Obs-636"><span class="linenos">636</span></a><span class="sd">            derived from the Obs. The current implementation only works for observables</span>
-</span><span id="Obs-637"><a href="#Obs-637"><span class="linenos">637</span></a><span class="sd">            defined on exactly one ensemble and replicum. The derived jackknife samples</span>
-</span><span id="Obs-638"><a href="#Obs-638"><span class="linenos">638</span></a><span class="sd">            should agree with samples from a full jackknife analysis up to O(1/N).</span>
-</span><span id="Obs-639"><a href="#Obs-639"><span class="linenos">639</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs-640"><a href="#Obs-640"><span class="linenos">640</span></a>
-</span><span id="Obs-641"><a href="#Obs-641"><span class="linenos">641</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs-642"><a href="#Obs-642"><span class="linenos">642</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;export_jackknife&#39; is only implemented for Obs defined on one ensemble and replicum.&quot;</span><span class="p">)</span>
-</span><span id="Obs-643"><a href="#Obs-643"><span class="linenos">643</span></a>
-</span><span id="Obs-644"><a href="#Obs-644"><span class="linenos">644</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Obs-645"><a href="#Obs-645"><span class="linenos">645</span></a>        <span class="n">full_data</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="Obs-646"><a href="#Obs-646"><span class="linenos">646</span></a>        <span class="n">n</span> <span class="o">=</span> <span class="n">full_data</span><span class="o">.</span><span class="n">size</span>
-</span><span id="Obs-647"><a href="#Obs-647"><span class="linenos">647</span></a>        <span class="n">mean</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span>
-</span><span id="Obs-648"><a href="#Obs-648"><span class="linenos">648</span></a>        <span class="n">tmp_jacks</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs-649"><a href="#Obs-649"><span class="linenos">649</span></a>        <span class="n">tmp_jacks</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="n">mean</span>
-</span><span id="Obs-650"><a href="#Obs-650"><span class="linenos">650</span></a>        <span class="n">tmp_jacks</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="o">=</span> <span class="p">(</span><span class="n">n</span> <span class="o">*</span> <span class="n">mean</span> <span class="o">-</span> <span class="n">full_data</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">n</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs-651"><a href="#Obs-651"><span class="linenos">651</span></a>        <span class="k">return</span> <span class="n">tmp_jacks</span>
-</span><span id="Obs-652"><a href="#Obs-652"><span class="linenos">652</span></a>
-</span><span id="Obs-653"><a href="#Obs-653"><span class="linenos">653</span></a>    <span class="k">def</span> <span class="fm">__float__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-654"><a href="#Obs-654"><span class="linenos">654</span></a>        <span class="k">return</span> <span class="nb">float</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
-</span><span id="Obs-655"><a href="#Obs-655"><span class="linenos">655</span></a>
-</span><span id="Obs-656"><a href="#Obs-656"><span class="linenos">656</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-657"><a href="#Obs-657"><span class="linenos">657</span></a>        <span class="k">return</span> <span class="s1">&#39;Obs[&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;]&#39;</span>
-</span><span id="Obs-658"><a href="#Obs-658"><span class="linenos">658</span></a>
-</span><span id="Obs-659"><a href="#Obs-659"><span class="linenos">659</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-660"><a href="#Obs-660"><span class="linenos">660</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="Obs-661"><a href="#Obs-661"><span class="linenos">661</span></a>            <span class="k">return</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
-</span><span id="Obs-662"><a href="#Obs-662"><span class="linenos">662</span></a>        <span class="n">fexp</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">floor</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">log10</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">))</span>
-</span><span id="Obs-663"><a href="#Obs-663"><span class="linenos">663</span></a>        <span class="k">if</span> <span class="n">fexp</span> <span class="o">&lt;</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="Obs-664"><a href="#Obs-664"><span class="linenos">664</span></a>            <span class="k">return</span> <span class="s1">&#39;{:</span><span class="si">{form}</span><span class="s1">}(</span><span class="si">{:2.0f}</span><span class="s1">)&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">*</span> <span class="mi">10</span> <span class="o">**</span> <span class="p">(</span><span class="o">-</span><span class="n">fexp</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">form</span><span class="o">=</span><span class="s1">&#39;.&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="o">-</span><span class="nb">int</span><span class="p">(</span><span class="n">fexp</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;f&#39;</span><span class="p">)</span>
-</span><span id="Obs-665"><a href="#Obs-665"><span class="linenos">665</span></a>        <span class="k">elif</span> <span class="n">fexp</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="Obs-666"><a href="#Obs-666"><span class="linenos">666</span></a>            <span class="k">return</span> <span class="s1">&#39;</span><span class="si">{:.1f}</span><span class="s1">(</span><span class="si">{:1.1f}</span><span class="s1">)&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
-</span><span id="Obs-667"><a href="#Obs-667"><span class="linenos">667</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-668"><a href="#Obs-668"><span class="linenos">668</span></a>            <span class="k">return</span> <span class="s1">&#39;</span><span class="si">{:.0f}</span><span class="s1">(</span><span class="si">{:2.0f}</span><span class="s1">)&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
-</span><span id="Obs-669"><a href="#Obs-669"><span class="linenos">669</span></a>
-</span><span id="Obs-670"><a href="#Obs-670"><span class="linenos">670</span></a>    <span class="c1"># Overload comparisons</span>
-</span><span id="Obs-671"><a href="#Obs-671"><span class="linenos">671</span></a>    <span class="k">def</span> <span class="fm">__lt__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="Obs-672"><a href="#Obs-672"><span class="linenos">672</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&lt;</span> <span class="n">other</span>
-</span><span id="Obs-673"><a href="#Obs-673"><span class="linenos">673</span></a>
-</span><span id="Obs-674"><a href="#Obs-674"><span class="linenos">674</span></a>    <span class="k">def</span> <span class="fm">__le__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="Obs-675"><a href="#Obs-675"><span class="linenos">675</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&lt;=</span> <span class="n">other</span>
-</span><span id="Obs-676"><a href="#Obs-676"><span class="linenos">676</span></a>
-</span><span id="Obs-677"><a href="#Obs-677"><span class="linenos">677</span></a>    <span class="k">def</span> <span class="fm">__gt__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="Obs-678"><a href="#Obs-678"><span class="linenos">678</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&gt;</span> <span class="n">other</span>
-</span><span id="Obs-679"><a href="#Obs-679"><span class="linenos">679</span></a>
-</span><span id="Obs-680"><a href="#Obs-680"><span class="linenos">680</span></a>    <span class="k">def</span> <span class="fm">__ge__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="Obs-681"><a href="#Obs-681"><span class="linenos">681</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&gt;=</span> <span class="n">other</span>
-</span><span id="Obs-682"><a href="#Obs-682"><span class="linenos">682</span></a>
-</span><span id="Obs-683"><a href="#Obs-683"><span class="linenos">683</span></a>    <span class="k">def</span> <span class="fm">__eq__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="Obs-684"><a href="#Obs-684"><span class="linenos">684</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">other</span><span class="p">)</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span>
-</span><span id="Obs-685"><a href="#Obs-685"><span class="linenos">685</span></a>
-</span><span id="Obs-686"><a href="#Obs-686"><span class="linenos">686</span></a>    <span class="k">def</span> <span class="fm">__ne__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="Obs-687"><a href="#Obs-687"><span class="linenos">687</span></a>        <span class="k">return</span> <span class="ow">not</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">other</span><span class="p">)</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span>
-</span><span id="Obs-688"><a href="#Obs-688"><span class="linenos">688</span></a>
-</span><span id="Obs-689"><a href="#Obs-689"><span class="linenos">689</span></a>    <span class="c1"># Overload math operations</span>
-</span><span id="Obs-690"><a href="#Obs-690"><span class="linenos">690</span></a>    <span class="k">def</span> <span class="fm">__add__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Obs-691"><a href="#Obs-691"><span class="linenos">691</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="Obs-692"><a href="#Obs-692"><span class="linenos">692</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
-</span><span id="Obs-693"><a href="#Obs-693"><span class="linenos">693</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-694"><a href="#Obs-694"><span class="linenos">694</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="Obs-695"><a href="#Obs-695"><span class="linenos">695</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">+</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="Obs-696"><a href="#Obs-696"><span class="linenos">696</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
-</span><span id="Obs-697"><a href="#Obs-697"><span class="linenos">697</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
-</span><span id="Obs-698"><a href="#Obs-698"><span class="linenos">698</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-699"><a href="#Obs-699"><span class="linenos">699</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="Obs-700"><a href="#Obs-700"><span class="linenos">700</span></a>
-</span><span id="Obs-701"><a href="#Obs-701"><span class="linenos">701</span></a>    <span class="k">def</span> <span class="fm">__radd__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Obs-702"><a href="#Obs-702"><span class="linenos">702</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
-</span><span id="Obs-703"><a href="#Obs-703"><span class="linenos">703</span></a>
-</span><span id="Obs-704"><a href="#Obs-704"><span class="linenos">704</span></a>    <span class="k">def</span> <span class="fm">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Obs-705"><a href="#Obs-705"><span class="linenos">705</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="Obs-706"><a href="#Obs-706"><span class="linenos">706</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">y</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">])</span>
-</span><span id="Obs-707"><a href="#Obs-707"><span class="linenos">707</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-708"><a href="#Obs-708"><span class="linenos">708</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="Obs-709"><a href="#Obs-709"><span class="linenos">709</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">*</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="Obs-710"><a href="#Obs-710"><span class="linenos">710</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="nb">complex</span><span class="p">):</span>
-</span><span id="Obs-711"><a href="#Obs-711"><span class="linenos">711</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span> <span class="o">*</span> <span class="n">y</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">y</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="Obs-712"><a href="#Obs-712"><span class="linenos">712</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
-</span><span id="Obs-713"><a href="#Obs-713"><span class="linenos">713</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
-</span><span id="Obs-714"><a href="#Obs-714"><span class="linenos">714</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-715"><a href="#Obs-715"><span class="linenos">715</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">y</span><span class="p">])</span>
-</span><span id="Obs-716"><a href="#Obs-716"><span class="linenos">716</span></a>
-</span><span id="Obs-717"><a href="#Obs-717"><span class="linenos">717</span></a>    <span class="k">def</span> <span class="fm">__rmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Obs-718"><a href="#Obs-718"><span class="linenos">718</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">y</span>
-</span><span id="Obs-719"><a href="#Obs-719"><span class="linenos">719</span></a>
-</span><span id="Obs-720"><a href="#Obs-720"><span class="linenos">720</span></a>    <span class="k">def</span> <span class="fm">__sub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Obs-721"><a href="#Obs-721"><span class="linenos">721</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="Obs-722"><a href="#Obs-722"><span class="linenos">722</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="Obs-723"><a href="#Obs-723"><span class="linenos">723</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-724"><a href="#Obs-724"><span class="linenos">724</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="Obs-725"><a href="#Obs-725"><span class="linenos">725</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">-</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="Obs-726"><a href="#Obs-726"><span class="linenos">726</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
-</span><span id="Obs-727"><a href="#Obs-727"><span class="linenos">727</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
-</span><span id="Obs-728"><a href="#Obs-728"><span class="linenos">728</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-729"><a href="#Obs-729"><span class="linenos">729</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
-</span><span id="Obs-730"><a href="#Obs-730"><span class="linenos">730</span></a>
-</span><span id="Obs-731"><a href="#Obs-731"><span class="linenos">731</span></a>    <span class="k">def</span> <span class="fm">__rsub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Obs-732"><a href="#Obs-732"><span class="linenos">732</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">y</span><span class="p">)</span>
-</span><span id="Obs-733"><a href="#Obs-733"><span class="linenos">733</span></a>
-</span><span id="Obs-734"><a href="#Obs-734"><span class="linenos">734</span></a>    <span class="k">def</span> <span class="fm">__pos__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-735"><a href="#Obs-735"><span class="linenos">735</span></a>        <span class="k">return</span> <span class="bp">self</span>
-</span><span id="Obs-736"><a href="#Obs-736"><span class="linenos">736</span></a>
-</span><span id="Obs-737"><a href="#Obs-737"><span class="linenos">737</span></a>    <span class="k">def</span> <span class="fm">__neg__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-738"><a href="#Obs-738"><span class="linenos">738</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
-</span><span id="Obs-739"><a href="#Obs-739"><span class="linenos">739</span></a>
-</span><span id="Obs-740"><a href="#Obs-740"><span class="linenos">740</span></a>    <span class="k">def</span> <span class="fm">__truediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Obs-741"><a href="#Obs-741"><span class="linenos">741</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="Obs-742"><a href="#Obs-742"><span class="linenos">742</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">/</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="Obs-743"><a href="#Obs-743"><span class="linenos">743</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-744"><a href="#Obs-744"><span class="linenos">744</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="Obs-745"><a href="#Obs-745"><span class="linenos">745</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">/</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="Obs-746"><a href="#Obs-746"><span class="linenos">746</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
-</span><span id="Obs-747"><a href="#Obs-747"><span class="linenos">747</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
-</span><span id="Obs-748"><a href="#Obs-748"><span class="linenos">748</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-749"><a href="#Obs-749"><span class="linenos">749</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="Obs-750"><a href="#Obs-750"><span class="linenos">750</span></a>
-</span><span id="Obs-751"><a href="#Obs-751"><span class="linenos">751</span></a>    <span class="k">def</span> <span class="fm">__rtruediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Obs-752"><a href="#Obs-752"><span class="linenos">752</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="Obs-753"><a href="#Obs-753"><span class="linenos">753</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="n">y</span><span class="p">,</span> <span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="Obs-754"><a href="#Obs-754"><span class="linenos">754</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-755"><a href="#Obs-755"><span class="linenos">755</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="Obs-756"><a href="#Obs-756"><span class="linenos">756</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span> <span class="o">/</span> <span class="bp">self</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="Obs-757"><a href="#Obs-757"><span class="linenos">757</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
-</span><span id="Obs-758"><a href="#Obs-758"><span class="linenos">758</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
-</span><span id="Obs-759"><a href="#Obs-759"><span class="linenos">759</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-760"><a href="#Obs-760"><span class="linenos">760</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">y</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="o">-</span><span class="n">y</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="Obs-761"><a href="#Obs-761"><span class="linenos">761</span></a>
-</span><span id="Obs-762"><a href="#Obs-762"><span class="linenos">762</span></a>    <span class="k">def</span> <span class="fm">__pow__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Obs-763"><a href="#Obs-763"><span class="linenos">763</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="Obs-764"><a href="#Obs-764"><span class="linenos">764</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">**</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">])</span>
-</span><span id="Obs-765"><a href="#Obs-765"><span class="linenos">765</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-766"><a href="#Obs-766"><span class="linenos">766</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">**</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="Obs-767"><a href="#Obs-767"><span class="linenos">767</span></a>
-</span><span id="Obs-768"><a href="#Obs-768"><span class="linenos">768</span></a>    <span class="k">def</span> <span class="fm">__rpow__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="Obs-769"><a href="#Obs-769"><span class="linenos">769</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="Obs-770"><a href="#Obs-770"><span class="linenos">770</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">**</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="n">y</span><span class="p">,</span> <span class="bp">self</span><span class="p">])</span>
-</span><span id="Obs-771"><a href="#Obs-771"><span class="linenos">771</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs-772"><a href="#Obs-772"><span class="linenos">772</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">y</span> <span class="o">**</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="Obs-773"><a href="#Obs-773"><span class="linenos">773</span></a>
-</span><span id="Obs-774"><a href="#Obs-774"><span class="linenos">774</span></a>    <span class="k">def</span> <span class="fm">__abs__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-775"><a href="#Obs-775"><span class="linenos">775</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="Obs-776"><a href="#Obs-776"><span class="linenos">776</span></a>
-</span><span id="Obs-777"><a href="#Obs-777"><span class="linenos">777</span></a>    <span class="c1"># Overload numpy functions</span>
-</span><span id="Obs-778"><a href="#Obs-778"><span class="linenos">778</span></a>    <span class="k">def</span> <span class="nf">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-779"><a href="#Obs-779"><span class="linenos">779</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="Obs-780"><a href="#Obs-780"><span class="linenos">780</span></a>
-</span><span id="Obs-781"><a href="#Obs-781"><span class="linenos">781</span></a>    <span class="k">def</span> <span class="nf">log</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-782"><a href="#Obs-782"><span class="linenos">782</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">])</span>
-</span><span id="Obs-783"><a href="#Obs-783"><span class="linenos">783</span></a>
-</span><span id="Obs-784"><a href="#Obs-784"><span class="linenos">784</span></a>    <span class="k">def</span> <span class="nf">exp</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-785"><a href="#Obs-785"><span class="linenos">785</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="Obs-786"><a href="#Obs-786"><span class="linenos">786</span></a>
-</span><span id="Obs-787"><a href="#Obs-787"><span class="linenos">787</span></a>    <span class="k">def</span> <span class="nf">sin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-788"><a href="#Obs-788"><span class="linenos">788</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="Obs-789"><a href="#Obs-789"><span class="linenos">789</span></a>
-</span><span id="Obs-790"><a href="#Obs-790"><span class="linenos">790</span></a>    <span class="k">def</span> <span class="nf">cos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-791"><a href="#Obs-791"><span class="linenos">791</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="Obs-792"><a href="#Obs-792"><span class="linenos">792</span></a>
-</span><span id="Obs-793"><a href="#Obs-793"><span class="linenos">793</span></a>    <span class="k">def</span> <span class="nf">tan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-794"><a href="#Obs-794"><span class="linenos">794</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">tan</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="Obs-795"><a href="#Obs-795"><span class="linenos">795</span></a>
-</span><span id="Obs-796"><a href="#Obs-796"><span class="linenos">796</span></a>    <span class="k">def</span> <span class="nf">arcsin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-797"><a href="#Obs-797"><span class="linenos">797</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arcsin</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="Obs-798"><a href="#Obs-798"><span class="linenos">798</span></a>
-</span><span id="Obs-799"><a href="#Obs-799"><span class="linenos">799</span></a>    <span class="k">def</span> <span class="nf">arccos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-800"><a href="#Obs-800"><span class="linenos">800</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arccos</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="Obs-801"><a href="#Obs-801"><span class="linenos">801</span></a>
-</span><span id="Obs-802"><a href="#Obs-802"><span class="linenos">802</span></a>    <span class="k">def</span> <span class="nf">arctan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-803"><a href="#Obs-803"><span class="linenos">803</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arctan</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="Obs-804"><a href="#Obs-804"><span class="linenos">804</span></a>
-</span><span id="Obs-805"><a href="#Obs-805"><span class="linenos">805</span></a>    <span class="k">def</span> <span class="nf">sinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-806"><a href="#Obs-806"><span class="linenos">806</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="Obs-807"><a href="#Obs-807"><span class="linenos">807</span></a>
-</span><span id="Obs-808"><a href="#Obs-808"><span class="linenos">808</span></a>    <span class="k">def</span> <span class="nf">cosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-809"><a href="#Obs-809"><span class="linenos">809</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
-</span><span id="Obs-810"><a href="#Obs-810"><span class="linenos">810</span></a>
-</span><span id="Obs-811"><a href="#Obs-811"><span class="linenos">811</span></a>    <span class="k">def</span> <span class="nf">tanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-812"><a href="#Obs-812"><span class="linenos">812</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">tanh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
-</span><span id="Obs-813"><a href="#Obs-813"><span class="linenos">813</span></a>
-</span><span id="Obs-814"><a href="#Obs-814"><span class="linenos">814</span></a>    <span class="k">def</span> <span class="nf">arcsinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-815"><a href="#Obs-815"><span class="linenos">815</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arcsinh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="Obs-816"><a href="#Obs-816"><span class="linenos">816</span></a>
-</span><span id="Obs-817"><a href="#Obs-817"><span class="linenos">817</span></a>    <span class="k">def</span> <span class="nf">arccosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-818"><a href="#Obs-818"><span class="linenos">818</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arccosh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
-</span><span id="Obs-819"><a href="#Obs-819"><span class="linenos">819</span></a>
-</span><span id="Obs-820"><a href="#Obs-820"><span class="linenos">820</span></a>    <span class="k">def</span> <span class="nf">arctanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs-821"><a href="#Obs-821"><span class="linenos">821</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arctanh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+    <a class="headerlink" href="#Obs"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs-14"><a href="#Obs-14"><span class="linenos"> 14</span></a><span class="k">class</span> <span class="nc">Obs</span><span class="p">:</span>
+</span><span id="Obs-15"><a href="#Obs-15"><span class="linenos"> 15</span></a>    <span class="sd">&quot;&quot;&quot;Class for a general observable.</span>
+</span><span id="Obs-16"><a href="#Obs-16"><span class="linenos"> 16</span></a>
+</span><span id="Obs-17"><a href="#Obs-17"><span class="linenos"> 17</span></a><span class="sd">    Instances of Obs are the basic objects of a pyerrors error analysis.</span>
+</span><span id="Obs-18"><a href="#Obs-18"><span class="linenos"> 18</span></a><span class="sd">    They are initialized with a list which contains arrays of samples for</span>
+</span><span id="Obs-19"><a href="#Obs-19"><span class="linenos"> 19</span></a><span class="sd">    different ensembles/replica and another list of same length which contains</span>
+</span><span id="Obs-20"><a href="#Obs-20"><span class="linenos"> 20</span></a><span class="sd">    the names of the ensembles/replica. Mathematical operations can be</span>
+</span><span id="Obs-21"><a href="#Obs-21"><span class="linenos"> 21</span></a><span class="sd">    performed on instances. The result is another instance of Obs. The error of</span>
+</span><span id="Obs-22"><a href="#Obs-22"><span class="linenos"> 22</span></a><span class="sd">    an instance can be computed with the gamma_method. Also contains additional</span>
+</span><span id="Obs-23"><a href="#Obs-23"><span class="linenos"> 23</span></a><span class="sd">    methods for output and visualization of the error calculation.</span>
+</span><span id="Obs-24"><a href="#Obs-24"><span class="linenos"> 24</span></a>
+</span><span id="Obs-25"><a href="#Obs-25"><span class="linenos"> 25</span></a><span class="sd">    Attributes</span>
+</span><span id="Obs-26"><a href="#Obs-26"><span class="linenos"> 26</span></a><span class="sd">    ----------</span>
+</span><span id="Obs-27"><a href="#Obs-27"><span class="linenos"> 27</span></a><span class="sd">    S_global : float</span>
+</span><span id="Obs-28"><a href="#Obs-28"><span class="linenos"> 28</span></a><span class="sd">        Standard value for S (default 2.0)</span>
+</span><span id="Obs-29"><a href="#Obs-29"><span class="linenos"> 29</span></a><span class="sd">    S_dict : dict</span>
+</span><span id="Obs-30"><a href="#Obs-30"><span class="linenos"> 30</span></a><span class="sd">        Dictionary for S values. If an entry for a given ensemble</span>
+</span><span id="Obs-31"><a href="#Obs-31"><span class="linenos"> 31</span></a><span class="sd">        exists this overwrites the standard value for that ensemble.</span>
+</span><span id="Obs-32"><a href="#Obs-32"><span class="linenos"> 32</span></a><span class="sd">    tau_exp_global : float</span>
+</span><span id="Obs-33"><a href="#Obs-33"><span class="linenos"> 33</span></a><span class="sd">        Standard value for tau_exp (default 0.0)</span>
+</span><span id="Obs-34"><a href="#Obs-34"><span class="linenos"> 34</span></a><span class="sd">    tau_exp_dict : dict</span>
+</span><span id="Obs-35"><a href="#Obs-35"><span class="linenos"> 35</span></a><span class="sd">        Dictionary for tau_exp values. If an entry for a given ensemble exists</span>
+</span><span id="Obs-36"><a href="#Obs-36"><span class="linenos"> 36</span></a><span class="sd">        this overwrites the standard value for that ensemble.</span>
+</span><span id="Obs-37"><a href="#Obs-37"><span class="linenos"> 37</span></a><span class="sd">    N_sigma_global : float</span>
+</span><span id="Obs-38"><a href="#Obs-38"><span class="linenos"> 38</span></a><span class="sd">        Standard value for N_sigma (default 1.0)</span>
+</span><span id="Obs-39"><a href="#Obs-39"><span class="linenos"> 39</span></a><span class="sd">    N_sigma_dict : dict</span>
+</span><span id="Obs-40"><a href="#Obs-40"><span class="linenos"> 40</span></a><span class="sd">        Dictionary for N_sigma values. If an entry for a given ensemble exists</span>
+</span><span id="Obs-41"><a href="#Obs-41"><span class="linenos"> 41</span></a><span class="sd">        this overwrites the standard value for that ensemble.</span>
+</span><span id="Obs-42"><a href="#Obs-42"><span class="linenos"> 42</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="Obs-43"><a href="#Obs-43"><span class="linenos"> 43</span></a>    <span class="vm">__slots__</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;names&#39;</span><span class="p">,</span> <span class="s1">&#39;shape&#39;</span><span class="p">,</span> <span class="s1">&#39;r_values&#39;</span><span class="p">,</span> <span class="s1">&#39;deltas&#39;</span><span class="p">,</span> <span class="s1">&#39;N&#39;</span><span class="p">,</span> <span class="s1">&#39;_value&#39;</span><span class="p">,</span> <span class="s1">&#39;_dvalue&#39;</span><span class="p">,</span>
+</span><span id="Obs-44"><a href="#Obs-44"><span class="linenos"> 44</span></a>                 <span class="s1">&#39;ddvalue&#39;</span><span class="p">,</span> <span class="s1">&#39;reweighted&#39;</span><span class="p">,</span> <span class="s1">&#39;S&#39;</span><span class="p">,</span> <span class="s1">&#39;tau_exp&#39;</span><span class="p">,</span> <span class="s1">&#39;N_sigma&#39;</span><span class="p">,</span>
+</span><span id="Obs-45"><a href="#Obs-45"><span class="linenos"> 45</span></a>                 <span class="s1">&#39;e_dvalue&#39;</span><span class="p">,</span> <span class="s1">&#39;e_ddvalue&#39;</span><span class="p">,</span> <span class="s1">&#39;e_tauint&#39;</span><span class="p">,</span> <span class="s1">&#39;e_dtauint&#39;</span><span class="p">,</span>
+</span><span id="Obs-46"><a href="#Obs-46"><span class="linenos"> 46</span></a>                 <span class="s1">&#39;e_windowsize&#39;</span><span class="p">,</span> <span class="s1">&#39;e_rho&#39;</span><span class="p">,</span> <span class="s1">&#39;e_drho&#39;</span><span class="p">,</span> <span class="s1">&#39;e_n_tauint&#39;</span><span class="p">,</span> <span class="s1">&#39;e_n_dtauint&#39;</span><span class="p">,</span>
+</span><span id="Obs-47"><a href="#Obs-47"><span class="linenos"> 47</span></a>                 <span class="s1">&#39;idl&#39;</span><span class="p">,</span> <span class="s1">&#39;is_merged&#39;</span><span class="p">,</span> <span class="s1">&#39;tag&#39;</span><span class="p">,</span> <span class="s1">&#39;_covobs&#39;</span><span class="p">,</span> <span class="s1">&#39;__dict__&#39;</span><span class="p">]</span>
+</span><span id="Obs-48"><a href="#Obs-48"><span class="linenos"> 48</span></a>
+</span><span id="Obs-49"><a href="#Obs-49"><span class="linenos"> 49</span></a>    <span class="n">S_global</span> <span class="o">=</span> <span class="mf">2.0</span>
+</span><span id="Obs-50"><a href="#Obs-50"><span class="linenos"> 50</span></a>    <span class="n">S_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-51"><a href="#Obs-51"><span class="linenos"> 51</span></a>    <span class="n">tau_exp_global</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs-52"><a href="#Obs-52"><span class="linenos"> 52</span></a>    <span class="n">tau_exp_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-53"><a href="#Obs-53"><span class="linenos"> 53</span></a>    <span class="n">N_sigma_global</span> <span class="o">=</span> <span class="mf">1.0</span>
+</span><span id="Obs-54"><a href="#Obs-54"><span class="linenos"> 54</span></a>    <span class="n">N_sigma_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-55"><a href="#Obs-55"><span class="linenos"> 55</span></a>    <span class="n">filter_eps</span> <span class="o">=</span> <span class="mf">1e-10</span>
+</span><span id="Obs-56"><a href="#Obs-56"><span class="linenos"> 56</span></a>
+</span><span id="Obs-57"><a href="#Obs-57"><span class="linenos"> 57</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Obs-58"><a href="#Obs-58"><span class="linenos"> 58</span></a>        <span class="sd">&quot;&quot;&quot; Initialize Obs object.</span>
+</span><span id="Obs-59"><a href="#Obs-59"><span class="linenos"> 59</span></a>
+</span><span id="Obs-60"><a href="#Obs-60"><span class="linenos"> 60</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs-61"><a href="#Obs-61"><span class="linenos"> 61</span></a><span class="sd">        ----------</span>
+</span><span id="Obs-62"><a href="#Obs-62"><span class="linenos"> 62</span></a><span class="sd">        samples : list</span>
+</span><span id="Obs-63"><a href="#Obs-63"><span class="linenos"> 63</span></a><span class="sd">            list of numpy arrays containing the Monte Carlo samples</span>
+</span><span id="Obs-64"><a href="#Obs-64"><span class="linenos"> 64</span></a><span class="sd">        names : list</span>
+</span><span id="Obs-65"><a href="#Obs-65"><span class="linenos"> 65</span></a><span class="sd">            list of strings labeling the individual samples</span>
+</span><span id="Obs-66"><a href="#Obs-66"><span class="linenos"> 66</span></a><span class="sd">        idl : list, optional</span>
+</span><span id="Obs-67"><a href="#Obs-67"><span class="linenos"> 67</span></a><span class="sd">            list of ranges or lists on which the samples are defined</span>
+</span><span id="Obs-68"><a href="#Obs-68"><span class="linenos"> 68</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs-69"><a href="#Obs-69"><span class="linenos"> 69</span></a>
+</span><span id="Obs-70"><a href="#Obs-70"><span class="linenos"> 70</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">and</span> <span class="nb">len</span><span class="p">(</span><span class="n">samples</span><span class="p">):</span>
+</span><span id="Obs-71"><a href="#Obs-71"><span class="linenos"> 71</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">):</span>
+</span><span id="Obs-72"><a href="#Obs-72"><span class="linenos"> 72</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of samples and names incompatible.&#39;</span><span class="p">)</span>
+</span><span id="Obs-73"><a href="#Obs-73"><span class="linenos"> 73</span></a>            <span class="k">if</span> <span class="n">idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Obs-74"><a href="#Obs-74"><span class="linenos"> 74</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">):</span>
+</span><span id="Obs-75"><a href="#Obs-75"><span class="linenos"> 75</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of idl incompatible with samples and names.&#39;</span><span class="p">)</span>
+</span><span id="Obs-76"><a href="#Obs-76"><span class="linenos"> 76</span></a>            <span class="n">name_length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
+</span><span id="Obs-77"><a href="#Obs-77"><span class="linenos"> 77</span></a>            <span class="k">if</span> <span class="n">name_length</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs-78"><a href="#Obs-78"><span class="linenos"> 78</span></a>                <span class="k">if</span> <span class="n">name_length</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">names</span><span class="p">)):</span>
+</span><span id="Obs-79"><a href="#Obs-79"><span class="linenos"> 79</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;names are not unique.&#39;</span><span class="p">)</span>
+</span><span id="Obs-80"><a href="#Obs-80"><span class="linenos"> 80</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="nb">str</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">names</span><span class="p">):</span>
+</span><span id="Obs-81"><a href="#Obs-81"><span class="linenos"> 81</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;All names have to be strings.&#39;</span><span class="p">)</span>
+</span><span id="Obs-82"><a href="#Obs-82"><span class="linenos"> 82</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-83"><a href="#Obs-83"><span class="linenos"> 83</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="Obs-84"><a href="#Obs-84"><span class="linenos"> 84</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;All names have to be strings.&#39;</span><span class="p">)</span>
+</span><span id="Obs-85"><a href="#Obs-85"><span class="linenos"> 85</span></a>            <span class="k">if</span> <span class="nb">min</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">samples</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mi">4</span><span class="p">:</span>
+</span><span id="Obs-86"><a href="#Obs-86"><span class="linenos"> 86</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Samples have to have at least 5 entries.&#39;</span><span class="p">)</span>
+</span><span id="Obs-87"><a href="#Obs-87"><span class="linenos"> 87</span></a>
+</span><span id="Obs-88"><a href="#Obs-88"><span class="linenos"> 88</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
+</span><span id="Obs-89"><a href="#Obs-89"><span class="linenos"> 89</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">shape</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-90"><a href="#Obs-90"><span class="linenos"> 90</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-91"><a href="#Obs-91"><span class="linenos"> 91</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-92"><a href="#Obs-92"><span class="linenos"> 92</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-93"><a href="#Obs-93"><span class="linenos"> 93</span></a>
+</span><span id="Obs-94"><a href="#Obs-94"><span class="linenos"> 94</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs-95"><a href="#Obs-95"><span class="linenos"> 95</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs-96"><a href="#Obs-96"><span class="linenos"> 96</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-97"><a href="#Obs-97"><span class="linenos"> 97</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-98"><a href="#Obs-98"><span class="linenos"> 98</span></a>        <span class="k">if</span> <span class="n">idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Obs-99"><a href="#Obs-99"><span class="linenos"> 99</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">idx</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="p">)):</span>
+</span><span id="Obs-100"><a href="#Obs-100"><span class="linenos">100</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="Obs-101"><a href="#Obs-101"><span class="linenos">101</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">idx</span>
+</span><span id="Obs-102"><a href="#Obs-102"><span class="linenos">102</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="p">(</span><span class="nb">list</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)):</span>
+</span><span id="Obs-103"><a href="#Obs-103"><span class="linenos">103</span></a>                    <span class="n">dc</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">idx</span><span class="p">))</span>
+</span><span id="Obs-104"><a href="#Obs-104"><span class="linenos">104</span></a>                    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">dc</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">):</span>
+</span><span id="Obs-105"><a href="#Obs-105"><span class="linenos">105</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsorted idx for idl[</span><span class="si">%s</span><span class="s2">]&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
+</span><span id="Obs-106"><a href="#Obs-106"><span class="linenos">106</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">dc</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs-107"><a href="#Obs-107"><span class="linenos">107</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">idx</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">idx</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="Obs-108"><a href="#Obs-108"><span class="linenos">108</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-109"><a href="#Obs-109"><span class="linenos">109</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
+</span><span id="Obs-110"><a href="#Obs-110"><span class="linenos">110</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-111"><a href="#Obs-111"><span class="linenos">111</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;incompatible type for idl[</span><span class="si">%s</span><span class="s1">].&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
+</span><span id="Obs-112"><a href="#Obs-112"><span class="linenos">112</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-113"><a href="#Obs-113"><span class="linenos">113</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">)):</span>
+</span><span id="Obs-114"><a href="#Obs-114"><span class="linenos">114</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs-115"><a href="#Obs-115"><span class="linenos">115</span></a>
+</span><span id="Obs-116"><a href="#Obs-116"><span class="linenos">116</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Obs-117"><a href="#Obs-117"><span class="linenos">117</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span><span class="p">,</span> <span class="n">mean</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">))):</span>
+</span><span id="Obs-118"><a href="#Obs-118"><span class="linenos">118</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="Obs-119"><a href="#Obs-119"><span class="linenos">119</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="Obs-120"><a href="#Obs-120"><span class="linenos">120</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">mean</span>
+</span><span id="Obs-121"><a href="#Obs-121"><span class="linenos">121</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">sample</span>
+</span><span id="Obs-122"><a href="#Obs-122"><span class="linenos">122</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-123"><a href="#Obs-123"><span class="linenos">123</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">)):</span>
+</span><span id="Obs-124"><a href="#Obs-124"><span class="linenos">124</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="Obs-125"><a href="#Obs-125"><span class="linenos">125</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="Obs-126"><a href="#Obs-126"><span class="linenos">126</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="Obs-127"><a href="#Obs-127"><span class="linenos">127</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Incompatible samples and idx for </span><span class="si">%s</span><span class="s1">: </span><span class="si">%d</span><span class="s1"> vs. </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
+</span><span id="Obs-128"><a href="#Obs-128"><span class="linenos">128</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span>
+</span><span id="Obs-129"><a href="#Obs-129"><span class="linenos">129</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">sample</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="Obs-130"><a href="#Obs-130"><span class="linenos">130</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="Obs-131"><a href="#Obs-131"><span class="linenos">131</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">/=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span>
+</span><span id="Obs-132"><a href="#Obs-132"><span class="linenos">132</span></a>
+</span><span id="Obs-133"><a href="#Obs-133"><span class="linenos">133</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs-134"><a href="#Obs-134"><span class="linenos">134</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs-135"><a href="#Obs-135"><span class="linenos">135</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="Obs-136"><a href="#Obs-136"><span class="linenos">136</span></a>
+</span><span id="Obs-137"><a href="#Obs-137"><span class="linenos">137</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="Obs-138"><a href="#Obs-138"><span class="linenos">138</span></a>
+</span><span id="Obs-139"><a href="#Obs-139"><span class="linenos">139</span></a>    <span class="nd">@property</span>
+</span><span id="Obs-140"><a href="#Obs-140"><span class="linenos">140</span></a>    <span class="k">def</span> <span class="nf">value</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-141"><a href="#Obs-141"><span class="linenos">141</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_value</span>
+</span><span id="Obs-142"><a href="#Obs-142"><span class="linenos">142</span></a>
+</span><span id="Obs-143"><a href="#Obs-143"><span class="linenos">143</span></a>    <span class="nd">@property</span>
+</span><span id="Obs-144"><a href="#Obs-144"><span class="linenos">144</span></a>    <span class="k">def</span> <span class="nf">dvalue</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-145"><a href="#Obs-145"><span class="linenos">145</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
+</span><span id="Obs-146"><a href="#Obs-146"><span class="linenos">146</span></a>
+</span><span id="Obs-147"><a href="#Obs-147"><span class="linenos">147</span></a>    <span class="nd">@property</span>
+</span><span id="Obs-148"><a href="#Obs-148"><span class="linenos">148</span></a>    <span class="k">def</span> <span class="nf">e_names</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-149"><a href="#Obs-149"><span class="linenos">149</span></a>        <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">]))</span>
+</span><span id="Obs-150"><a href="#Obs-150"><span class="linenos">150</span></a>
+</span><span id="Obs-151"><a href="#Obs-151"><span class="linenos">151</span></a>    <span class="nd">@property</span>
+</span><span id="Obs-152"><a href="#Obs-152"><span class="linenos">152</span></a>    <span class="k">def</span> <span class="nf">cov_names</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-153"><a href="#Obs-153"><span class="linenos">153</span></a>        <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">()]))</span>
+</span><span id="Obs-154"><a href="#Obs-154"><span class="linenos">154</span></a>
+</span><span id="Obs-155"><a href="#Obs-155"><span class="linenos">155</span></a>    <span class="nd">@property</span>
+</span><span id="Obs-156"><a href="#Obs-156"><span class="linenos">156</span></a>    <span class="k">def</span> <span class="nf">mc_names</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-157"><a href="#Obs-157"><span class="linenos">157</span></a>        <span class="k">return</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;|&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span> <span class="k">if</span> <span class="n">o</span> <span class="ow">not</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">]))</span>
+</span><span id="Obs-158"><a href="#Obs-158"><span class="linenos">158</span></a>
+</span><span id="Obs-159"><a href="#Obs-159"><span class="linenos">159</span></a>    <span class="nd">@property</span>
+</span><span id="Obs-160"><a href="#Obs-160"><span class="linenos">160</span></a>    <span class="k">def</span> <span class="nf">e_content</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-161"><a href="#Obs-161"><span class="linenos">161</span></a>        <span class="n">res</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-162"><a href="#Obs-162"><span class="linenos">162</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
+</span><span id="Obs-163"><a href="#Obs-163"><span class="linenos">163</span></a>            <span class="n">res</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">startswith</span><span class="p">(</span><span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">))</span>
+</span><span id="Obs-164"><a href="#Obs-164"><span class="linenos">164</span></a>            <span class="k">if</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
+</span><span id="Obs-165"><a href="#Obs-165"><span class="linenos">165</span></a>                <span class="n">res</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">e_name</span><span class="p">)</span>
+</span><span id="Obs-166"><a href="#Obs-166"><span class="linenos">166</span></a>        <span class="k">return</span> <span class="n">res</span>
+</span><span id="Obs-167"><a href="#Obs-167"><span class="linenos">167</span></a>
+</span><span id="Obs-168"><a href="#Obs-168"><span class="linenos">168</span></a>    <span class="nd">@property</span>
+</span><span id="Obs-169"><a href="#Obs-169"><span class="linenos">169</span></a>    <span class="k">def</span> <span class="nf">covobs</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-170"><a href="#Obs-170"><span class="linenos">170</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_covobs</span>
+</span><span id="Obs-171"><a href="#Obs-171"><span class="linenos">171</span></a>
+</span><span id="Obs-172"><a href="#Obs-172"><span class="linenos">172</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Obs-173"><a href="#Obs-173"><span class="linenos">173</span></a>        <span class="sd">&quot;&quot;&quot;Estimate the error and related properties of the Obs.</span>
+</span><span id="Obs-174"><a href="#Obs-174"><span class="linenos">174</span></a>
+</span><span id="Obs-175"><a href="#Obs-175"><span class="linenos">175</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs-176"><a href="#Obs-176"><span class="linenos">176</span></a><span class="sd">        ----------</span>
+</span><span id="Obs-177"><a href="#Obs-177"><span class="linenos">177</span></a><span class="sd">        S : float</span>
+</span><span id="Obs-178"><a href="#Obs-178"><span class="linenos">178</span></a><span class="sd">            specifies a custom value for the parameter S (default 2.0).</span>
+</span><span id="Obs-179"><a href="#Obs-179"><span class="linenos">179</span></a><span class="sd">            If set to 0 it is assumed that the data exhibits no</span>
+</span><span id="Obs-180"><a href="#Obs-180"><span class="linenos">180</span></a><span class="sd">            autocorrelation. In this case the error estimates coincides</span>
+</span><span id="Obs-181"><a href="#Obs-181"><span class="linenos">181</span></a><span class="sd">            with the sample standard error.</span>
+</span><span id="Obs-182"><a href="#Obs-182"><span class="linenos">182</span></a><span class="sd">        tau_exp : float</span>
+</span><span id="Obs-183"><a href="#Obs-183"><span class="linenos">183</span></a><span class="sd">            positive value triggers the critical slowing down analysis</span>
+</span><span id="Obs-184"><a href="#Obs-184"><span class="linenos">184</span></a><span class="sd">            (default 0.0).</span>
+</span><span id="Obs-185"><a href="#Obs-185"><span class="linenos">185</span></a><span class="sd">        N_sigma : float</span>
+</span><span id="Obs-186"><a href="#Obs-186"><span class="linenos">186</span></a><span class="sd">            number of standard deviations from zero until the tail is</span>
+</span><span id="Obs-187"><a href="#Obs-187"><span class="linenos">187</span></a><span class="sd">            attached to the autocorrelation function (default 1).</span>
+</span><span id="Obs-188"><a href="#Obs-188"><span class="linenos">188</span></a><span class="sd">        fft : bool</span>
+</span><span id="Obs-189"><a href="#Obs-189"><span class="linenos">189</span></a><span class="sd">            determines whether the fft algorithm is used for the computation</span>
+</span><span id="Obs-190"><a href="#Obs-190"><span class="linenos">190</span></a><span class="sd">            of the autocorrelation function (default True)</span>
+</span><span id="Obs-191"><a href="#Obs-191"><span class="linenos">191</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs-192"><a href="#Obs-192"><span class="linenos">192</span></a>
+</span><span id="Obs-193"><a href="#Obs-193"><span class="linenos">193</span></a>        <span class="n">e_content</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_content</span>
+</span><span id="Obs-194"><a href="#Obs-194"><span class="linenos">194</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-195"><a href="#Obs-195"><span class="linenos">195</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-196"><a href="#Obs-196"><span class="linenos">196</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-197"><a href="#Obs-197"><span class="linenos">197</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-198"><a href="#Obs-198"><span class="linenos">198</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-199"><a href="#Obs-199"><span class="linenos">199</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-200"><a href="#Obs-200"><span class="linenos">200</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-201"><a href="#Obs-201"><span class="linenos">201</span></a>        <span class="n">e_gamma</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-202"><a href="#Obs-202"><span class="linenos">202</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-203"><a href="#Obs-203"><span class="linenos">203</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-204"><a href="#Obs-204"><span class="linenos">204</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs-205"><a href="#Obs-205"><span class="linenos">205</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs-206"><a href="#Obs-206"><span class="linenos">206</span></a>
+</span><span id="Obs-207"><a href="#Obs-207"><span class="linenos">207</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">S</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-208"><a href="#Obs-208"><span class="linenos">208</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-209"><a href="#Obs-209"><span class="linenos">209</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs-210"><a href="#Obs-210"><span class="linenos">210</span></a>
+</span><span id="Obs-211"><a href="#Obs-211"><span class="linenos">211</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;fft&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">False</span><span class="p">:</span>
+</span><span id="Obs-212"><a href="#Obs-212"><span class="linenos">212</span></a>            <span class="n">fft</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="Obs-213"><a href="#Obs-213"><span class="linenos">213</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-214"><a href="#Obs-214"><span class="linenos">214</span></a>            <span class="n">fft</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="Obs-215"><a href="#Obs-215"><span class="linenos">215</span></a>
+</span><span id="Obs-216"><a href="#Obs-216"><span class="linenos">216</span></a>        <span class="k">def</span> <span class="nf">_parse_kwarg</span><span class="p">(</span><span class="n">kwarg_name</span><span class="p">):</span>
+</span><span id="Obs-217"><a href="#Obs-217"><span class="linenos">217</span></a>            <span class="k">if</span> <span class="n">kwarg_name</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="Obs-218"><a href="#Obs-218"><span class="linenos">218</span></a>                <span class="n">tmp</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">kwarg_name</span><span class="p">)</span>
+</span><span id="Obs-219"><a href="#Obs-219"><span class="linenos">219</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
+</span><span id="Obs-220"><a href="#Obs-220"><span class="linenos">220</span></a>                    <span class="k">if</span> <span class="n">tmp</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Obs-221"><a href="#Obs-221"><span class="linenos">221</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39; has to be larger or equal to 0.&#39;</span><span class="p">)</span>
+</span><span id="Obs-222"><a href="#Obs-222"><span class="linenos">222</span></a>                    <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
+</span><span id="Obs-223"><a href="#Obs-223"><span class="linenos">223</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">tmp</span>
+</span><span id="Obs-224"><a href="#Obs-224"><span class="linenos">224</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-225"><a href="#Obs-225"><span class="linenos">225</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39; is not in proper format.&#39;</span><span class="p">)</span>
+</span><span id="Obs-226"><a href="#Obs-226"><span class="linenos">226</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-227"><a href="#Obs-227"><span class="linenos">227</span></a>                <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
+</span><span id="Obs-228"><a href="#Obs-228"><span class="linenos">228</span></a>                    <span class="k">if</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_dict&#39;</span><span class="p">):</span>
+</span><span id="Obs-229"><a href="#Obs-229"><span class="linenos">229</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_dict&#39;</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span>
+</span><span id="Obs-230"><a href="#Obs-230"><span class="linenos">230</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-231"><a href="#Obs-231"><span class="linenos">231</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_global&#39;</span><span class="p">)</span>
+</span><span id="Obs-232"><a href="#Obs-232"><span class="linenos">232</span></a>
+</span><span id="Obs-233"><a href="#Obs-233"><span class="linenos">233</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;S&#39;</span><span class="p">)</span>
+</span><span id="Obs-234"><a href="#Obs-234"><span class="linenos">234</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;tau_exp&#39;</span><span class="p">)</span>
+</span><span id="Obs-235"><a href="#Obs-235"><span class="linenos">235</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;N_sigma&#39;</span><span class="p">)</span>
+</span><span id="Obs-236"><a href="#Obs-236"><span class="linenos">236</span></a>
+</span><span id="Obs-237"><a href="#Obs-237"><span class="linenos">237</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="Obs-238"><a href="#Obs-238"><span class="linenos">238</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs-239"><a href="#Obs-239"><span class="linenos">239</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="Obs-240"><a href="#Obs-240"><span class="linenos">240</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="Obs-241"><a href="#Obs-241"><span class="linenos">241</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
+</span><span id="Obs-242"><a href="#Obs-242"><span class="linenos">242</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-243"><a href="#Obs-243"><span class="linenos">243</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="Obs-244"><a href="#Obs-244"><span class="linenos">244</span></a>
+</span><span id="Obs-245"><a href="#Obs-245"><span class="linenos">245</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]])</span>
+</span><span id="Obs-246"><a href="#Obs-246"><span class="linenos">246</span></a>            <span class="n">w_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span> <span class="o">//</span> <span class="mi">2</span>
+</span><span id="Obs-247"><a href="#Obs-247"><span class="linenos">247</span></a>            <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="Obs-248"><a href="#Obs-248"><span class="linenos">248</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="Obs-249"><a href="#Obs-249"><span class="linenos">249</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="Obs-250"><a href="#Obs-250"><span class="linenos">250</span></a>
+</span><span id="Obs-251"><a href="#Obs-251"><span class="linenos">251</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="Obs-252"><a href="#Obs-252"><span class="linenos">252</span></a>                <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_calc_gamma</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">)</span>
+</span><span id="Obs-253"><a href="#Obs-253"><span class="linenos">253</span></a>
+</span><span id="Obs-254"><a href="#Obs-254"><span class="linenos">254</span></a>            <span class="n">gamma_div</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="Obs-255"><a href="#Obs-255"><span class="linenos">255</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="Obs-256"><a href="#Obs-256"><span class="linenos">256</span></a>                <span class="n">gamma_div</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_calc_gamma</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">])),</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">)</span>
+</span><span id="Obs-257"><a href="#Obs-257"><span class="linenos">257</span></a>            <span class="n">gamma_div</span><span class="p">[</span><span class="n">gamma_div</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.0</span>
+</span><span id="Obs-258"><a href="#Obs-258"><span class="linenos">258</span></a>            <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">/=</span> <span class="n">gamma_div</span><span class="p">[:</span><span class="n">w_max</span><span class="p">]</span>
+</span><span id="Obs-259"><a href="#Obs-259"><span class="linenos">259</span></a>
+</span><span id="Obs-260"><a href="#Obs-260"><span class="linenos">260</span></a>            <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span> <span class="o">&lt;</span> <span class="mi">10</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="nb">float</span><span class="p">)</span><span class="o">.</span><span class="n">tiny</span><span class="p">:</span>  <span class="c1"># Prevent division by zero</span>
+</span><span id="Obs-261"><a href="#Obs-261"><span class="linenos">261</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span>
+</span><span id="Obs-262"><a href="#Obs-262"><span class="linenos">262</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs-263"><a href="#Obs-263"><span class="linenos">263</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs-264"><a href="#Obs-264"><span class="linenos">264</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs-265"><a href="#Obs-265"><span class="linenos">265</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs-266"><a href="#Obs-266"><span class="linenos">266</span></a>                <span class="k">continue</span>
+</span><span id="Obs-267"><a href="#Obs-267"><span class="linenos">267</span></a>
+</span><span id="Obs-268"><a href="#Obs-268"><span class="linenos">268</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="n">w_max</span><span class="p">]</span> <span class="o">/</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Obs-269"><a href="#Obs-269"><span class="linenos">269</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">cumsum</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(([</span><span class="mf">0.5</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:])))</span>
+</span><span id="Obs-270"><a href="#Obs-270"><span class="linenos">270</span></a>            <span class="c1"># Make sure no entry of tauint is smaller than 0.5</span>
+</span><span id="Obs-271"><a href="#Obs-271"><span class="linenos">271</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="mf">0.5</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span>
+</span><span id="Obs-272"><a href="#Obs-272"><span class="linenos">272</span></a>            <span class="c1"># hep-lat/0306017 eq. (42)</span>
+</span><span id="Obs-273"><a href="#Obs-273"><span class="linenos">273</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span> <span class="o">+</span> <span class="mf">0.5</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs-274"><a href="#Obs-274"><span class="linenos">274</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs-275"><a href="#Obs-275"><span class="linenos">275</span></a>
+</span><span id="Obs-276"><a href="#Obs-276"><span class="linenos">276</span></a>            <span class="k">def</span> <span class="nf">_compute_drho</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+</span><span id="Obs-277"><a href="#Obs-277"><span class="linenos">277</span></a>                <span class="n">tmp</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span><span class="n">w_max</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">::</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:</span><span class="n">w_max</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">i</span><span class="p">]])</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:</span><span class="n">w_max</span> <span class="o">-</span> <span class="n">i</span><span class="p">]</span>
+</span><span id="Obs-278"><a href="#Obs-278"><span class="linenos">278</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">tmp</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs-279"><a href="#Obs-279"><span class="linenos">279</span></a>
+</span><span id="Obs-280"><a href="#Obs-280"><span class="linenos">280</span></a>            <span class="n">_compute_drho</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs-281"><a href="#Obs-281"><span class="linenos">281</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Obs-282"><a href="#Obs-282"><span class="linenos">282</span></a>                <span class="n">texp</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span>
+</span><span id="Obs-283"><a href="#Obs-283"><span class="linenos">283</span></a>                <span class="c1"># Critical slowing down analysis</span>
+</span><span id="Obs-284"><a href="#Obs-284"><span class="linenos">284</span></a>                <span class="k">if</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">&lt;=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs-285"><a href="#Obs-285"><span class="linenos">285</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Need at least 8 samples for tau_exp error analysis&quot;</span><span class="p">)</span>
+</span><span id="Obs-286"><a href="#Obs-286"><span class="linenos">286</span></a>                <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="Obs-287"><a href="#Obs-287"><span class="linenos">287</span></a>                    <span class="n">_compute_drho</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs-288"><a href="#Obs-288"><span class="linenos">288</span></a>                    <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">])</span> <span class="o">&lt;</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="Obs-289"><a href="#Obs-289"><span class="linenos">289</span></a>                        <span class="c1"># Bias correction hep-lat/0306017 eq. (49) included</span>
+</span><span id="Obs-290"><a href="#Obs-290"><span class="linenos">290</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">+</span> <span class="n">texp</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span>  <span class="c1"># The absolute makes sure, that the tail contribution is always positive</span>
+</span><span id="Obs-291"><a href="#Obs-291"><span class="linenos">291</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">texp</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="Obs-292"><a href="#Obs-292"><span class="linenos">292</span></a>                        <span class="c1"># Error of tau_exp neglected so far, missing term: self.e_rho[e_name][n + 1] ** 2 * d_tau_exp ** 2</span>
+</span><span id="Obs-293"><a href="#Obs-293"><span class="linenos">293</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs-294"><a href="#Obs-294"><span class="linenos">294</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">n</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs-295"><a href="#Obs-295"><span class="linenos">295</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">n</span>
+</span><span id="Obs-296"><a href="#Obs-296"><span class="linenos">296</span></a>                        <span class="k">break</span>
+</span><span id="Obs-297"><a href="#Obs-297"><span class="linenos">297</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-298"><a href="#Obs-298"><span class="linenos">298</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="Obs-299"><a href="#Obs-299"><span class="linenos">299</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span>
+</span><span id="Obs-300"><a href="#Obs-300"><span class="linenos">300</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs-301"><a href="#Obs-301"><span class="linenos">301</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="p">(</span><span class="n">e_N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="Obs-302"><a href="#Obs-302"><span class="linenos">302</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs-303"><a href="#Obs-303"><span class="linenos">303</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs-304"><a href="#Obs-304"><span class="linenos">304</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-305"><a href="#Obs-305"><span class="linenos">305</span></a>                    <span class="c1"># Standard automatic windowing procedure</span>
+</span><span id="Obs-306"><a href="#Obs-306"><span class="linenos">306</span></a>                    <span class="n">tau</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">((</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="Obs-307"><a href="#Obs-307"><span class="linenos">307</span></a>                    <span class="n">g_w</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span> <span class="o">/</span> <span class="n">tau</span><span class="p">)</span> <span class="o">-</span> <span class="n">tau</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span> <span class="o">*</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs-308"><a href="#Obs-308"><span class="linenos">308</span></a>                    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">):</span>
+</span><span id="Obs-309"><a href="#Obs-309"><span class="linenos">309</span></a>                        <span class="k">if</span> <span class="n">n</span> <span class="o">&lt;</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="Obs-310"><a href="#Obs-310"><span class="linenos">310</span></a>                            <span class="n">_compute_drho</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs-311"><a href="#Obs-311"><span class="linenos">311</span></a>                        <span class="k">if</span> <span class="n">g_w</span><span class="p">[</span><span class="n">n</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">&lt;</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="n">w_max</span> <span class="o">-</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs-312"><a href="#Obs-312"><span class="linenos">312</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>  <span class="c1"># Bias correction hep-lat/0306017 eq. (49)</span>
+</span><span id="Obs-313"><a href="#Obs-313"><span class="linenos">313</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span>
+</span><span id="Obs-314"><a href="#Obs-314"><span class="linenos">314</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs-315"><a href="#Obs-315"><span class="linenos">315</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">n</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs-316"><a href="#Obs-316"><span class="linenos">316</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">n</span>
+</span><span id="Obs-317"><a href="#Obs-317"><span class="linenos">317</span></a>                            <span class="k">break</span>
+</span><span id="Obs-318"><a href="#Obs-318"><span class="linenos">318</span></a>
+</span><span id="Obs-319"><a href="#Obs-319"><span class="linenos">319</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="Obs-320"><a href="#Obs-320"><span class="linenos">320</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">+=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="Obs-321"><a href="#Obs-321"><span class="linenos">321</span></a>
+</span><span id="Obs-322"><a href="#Obs-322"><span class="linenos">322</span></a>        <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="Obs-323"><a href="#Obs-323"><span class="linenos">323</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">errsq</span><span class="p">())</span>
+</span><span id="Obs-324"><a href="#Obs-324"><span class="linenos">324</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs-325"><a href="#Obs-325"><span class="linenos">325</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">**</span><span class="mi">2</span>
+</span><span id="Obs-326"><a href="#Obs-326"><span class="linenos">326</span></a>
+</span><span id="Obs-327"><a href="#Obs-327"><span class="linenos">327</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
+</span><span id="Obs-328"><a href="#Obs-328"><span class="linenos">328</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="Obs-329"><a href="#Obs-329"><span class="linenos">329</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs-330"><a href="#Obs-330"><span class="linenos">330</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-331"><a href="#Obs-331"><span class="linenos">331</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span><span class="p">)</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
+</span><span id="Obs-332"><a href="#Obs-332"><span class="linenos">332</span></a>        <span class="k">return</span>
+</span><span id="Obs-333"><a href="#Obs-333"><span class="linenos">333</span></a>
+</span><span id="Obs-334"><a href="#Obs-334"><span class="linenos">334</span></a>    <span class="k">def</span> <span class="nf">_calc_gamma</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">shape</span><span class="p">,</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">):</span>
+</span><span id="Obs-335"><a href="#Obs-335"><span class="linenos">335</span></a>        <span class="sd">&quot;&quot;&quot;Calculate Gamma_{AA} from the deltas, which are defined on idx.</span>
+</span><span id="Obs-336"><a href="#Obs-336"><span class="linenos">336</span></a><span class="sd">           idx is assumed to be a contiguous range (possibly with a stepsize != 1)</span>
+</span><span id="Obs-337"><a href="#Obs-337"><span class="linenos">337</span></a>
+</span><span id="Obs-338"><a href="#Obs-338"><span class="linenos">338</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs-339"><a href="#Obs-339"><span class="linenos">339</span></a><span class="sd">        ----------</span>
+</span><span id="Obs-340"><a href="#Obs-340"><span class="linenos">340</span></a><span class="sd">        deltas : list</span>
+</span><span id="Obs-341"><a href="#Obs-341"><span class="linenos">341</span></a><span class="sd">            List of fluctuations</span>
+</span><span id="Obs-342"><a href="#Obs-342"><span class="linenos">342</span></a><span class="sd">        idx : list</span>
+</span><span id="Obs-343"><a href="#Obs-343"><span class="linenos">343</span></a><span class="sd">            List or range of configurations on which the deltas are defined.</span>
+</span><span id="Obs-344"><a href="#Obs-344"><span class="linenos">344</span></a><span class="sd">        shape : int</span>
+</span><span id="Obs-345"><a href="#Obs-345"><span class="linenos">345</span></a><span class="sd">            Number of configurations in idx.</span>
+</span><span id="Obs-346"><a href="#Obs-346"><span class="linenos">346</span></a><span class="sd">        w_max : int</span>
+</span><span id="Obs-347"><a href="#Obs-347"><span class="linenos">347</span></a><span class="sd">            Upper bound for the summation window.</span>
+</span><span id="Obs-348"><a href="#Obs-348"><span class="linenos">348</span></a><span class="sd">        fft : bool</span>
+</span><span id="Obs-349"><a href="#Obs-349"><span class="linenos">349</span></a><span class="sd">            determines whether the fft algorithm is used for the computation</span>
+</span><span id="Obs-350"><a href="#Obs-350"><span class="linenos">350</span></a><span class="sd">            of the autocorrelation function.</span>
+</span><span id="Obs-351"><a href="#Obs-351"><span class="linenos">351</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs-352"><a href="#Obs-352"><span class="linenos">352</span></a>        <span class="n">gamma</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="Obs-353"><a href="#Obs-353"><span class="linenos">353</span></a>        <span class="n">deltas</span> <span class="o">=</span> <span class="n">_expand_deltas</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">idx</span><span class="p">,</span> <span class="n">shape</span><span class="p">)</span>
+</span><span id="Obs-354"><a href="#Obs-354"><span class="linenos">354</span></a>        <span class="n">new_shape</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">)</span>
+</span><span id="Obs-355"><a href="#Obs-355"><span class="linenos">355</span></a>        <span class="k">if</span> <span class="n">fft</span><span class="p">:</span>
+</span><span id="Obs-356"><a href="#Obs-356"><span class="linenos">356</span></a>            <span class="n">max_gamma</span> <span class="o">=</span> <span class="nb">min</span><span class="p">(</span><span class="n">new_shape</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span>
+</span><span id="Obs-357"><a href="#Obs-357"><span class="linenos">357</span></a>            <span class="c1"># The padding for the fft has to be even</span>
+</span><span id="Obs-358"><a href="#Obs-358"><span class="linenos">358</span></a>            <span class="n">padding</span> <span class="o">=</span> <span class="n">new_shape</span> <span class="o">+</span> <span class="n">max_gamma</span> <span class="o">+</span> <span class="p">(</span><span class="n">new_shape</span> <span class="o">+</span> <span class="n">max_gamma</span><span class="p">)</span> <span class="o">%</span> <span class="mi">2</span>
+</span><span id="Obs-359"><a href="#Obs-359"><span class="linenos">359</span></a>            <span class="n">gamma</span><span class="p">[:</span><span class="n">max_gamma</span><span class="p">]</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">fft</span><span class="o">.</span><span class="n">irfft</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">fft</span><span class="o">.</span><span class="n">rfft</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">padding</span><span class="p">))</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)[:</span><span class="n">max_gamma</span><span class="p">]</span>
+</span><span id="Obs-360"><a href="#Obs-360"><span class="linenos">360</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-361"><a href="#Obs-361"><span class="linenos">361</span></a>            <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">w_max</span><span class="p">):</span>
+</span><span id="Obs-362"><a href="#Obs-362"><span class="linenos">362</span></a>                <span class="k">if</span> <span class="n">new_shape</span> <span class="o">-</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Obs-363"><a href="#Obs-363"><span class="linenos">363</span></a>                    <span class="n">gamma</span><span class="p">[</span><span class="n">n</span><span class="p">]</span> <span class="o">+=</span> <span class="n">deltas</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span><span class="n">new_shape</span> <span class="o">-</span> <span class="n">n</span><span class="p">]</span><span class="o">.</span><span class="n">dot</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">n</span><span class="p">:</span><span class="n">new_shape</span><span class="p">])</span>
+</span><span id="Obs-364"><a href="#Obs-364"><span class="linenos">364</span></a>
+</span><span id="Obs-365"><a href="#Obs-365"><span class="linenos">365</span></a>        <span class="k">return</span> <span class="n">gamma</span>
+</span><span id="Obs-366"><a href="#Obs-366"><span class="linenos">366</span></a>
+</span><span id="Obs-367"><a href="#Obs-367"><span class="linenos">367</span></a>    <span class="k">def</span> <span class="nf">details</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">ens_content</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="Obs-368"><a href="#Obs-368"><span class="linenos">368</span></a>        <span class="sd">&quot;&quot;&quot;Output detailed properties of the Obs.</span>
+</span><span id="Obs-369"><a href="#Obs-369"><span class="linenos">369</span></a>
+</span><span id="Obs-370"><a href="#Obs-370"><span class="linenos">370</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs-371"><a href="#Obs-371"><span class="linenos">371</span></a><span class="sd">        ----------</span>
+</span><span id="Obs-372"><a href="#Obs-372"><span class="linenos">372</span></a><span class="sd">        ens_content : bool</span>
+</span><span id="Obs-373"><a href="#Obs-373"><span class="linenos">373</span></a><span class="sd">            print details about the ensembles and replica if true.</span>
+</span><span id="Obs-374"><a href="#Obs-374"><span class="linenos">374</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs-375"><a href="#Obs-375"><span class="linenos">375</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Obs-376"><a href="#Obs-376"><span class="linenos">376</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Description:&quot;</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
+</span><span id="Obs-377"><a href="#Obs-377"><span class="linenos">377</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="Obs-378"><a href="#Obs-378"><span class="linenos">378</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Result</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">))</span>
+</span><span id="Obs-379"><a href="#Obs-379"><span class="linenos">379</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-380"><a href="#Obs-380"><span class="linenos">380</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="Obs-381"><a href="#Obs-381"><span class="linenos">381</span></a>                <span class="n">percentage</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">nan</span>
+</span><span id="Obs-382"><a href="#Obs-382"><span class="linenos">382</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-383"><a href="#Obs-383"><span class="linenos">383</span></a>                <span class="n">percentage</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">*</span> <span class="mi">100</span>
+</span><span id="Obs-384"><a href="#Obs-384"><span class="linenos">384</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Result</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> (</span><span class="si">%3.3f%%</span><span class="s1">)&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span><span class="p">,</span> <span class="n">percentage</span><span class="p">))</span>
+</span><span id="Obs-385"><a href="#Obs-385"><span class="linenos">385</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs-386"><a href="#Obs-386"><span class="linenos">386</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; Ensemble errors:&#39;</span><span class="p">)</span>
+</span><span id="Obs-387"><a href="#Obs-387"><span class="linenos">387</span></a>            <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
+</span><span id="Obs-388"><a href="#Obs-388"><span class="linenos">388</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs-389"><a href="#Obs-389"><span class="linenos">389</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs-390"><a href="#Obs-390"><span class="linenos">390</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Obs-391"><a href="#Obs-391"><span class="linenos">391</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; t_int</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> tau_exp = </span><span class="si">%3.2f</span><span class="s1">,  N_sigma = </span><span class="si">%1.0i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs-392"><a href="#Obs-392"><span class="linenos">392</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-393"><a href="#Obs-393"><span class="linenos">393</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; t_int</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> S = </span><span class="si">%3.2f</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs-394"><a href="#Obs-394"><span class="linenos">394</span></a>            <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="Obs-395"><a href="#Obs-395"><span class="linenos">395</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs-396"><a href="#Obs-396"><span class="linenos">396</span></a>        <span class="k">if</span> <span class="n">ens_content</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="Obs-397"><a href="#Obs-397"><span class="linenos">397</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs-398"><a href="#Obs-398"><span class="linenos">398</span></a>                <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="s1">&#39;samples in&#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">),</span> <span class="s1">&#39;ensemble:&#39;</span><span class="p">)</span>
+</span><span id="Obs-399"><a href="#Obs-399"><span class="linenos">399</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-400"><a href="#Obs-400"><span class="linenos">400</span></a>                <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="s1">&#39;samples in&#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">),</span> <span class="s1">&#39;ensembles:&#39;</span><span class="p">)</span>
+</span><span id="Obs-401"><a href="#Obs-401"><span class="linenos">401</span></a>            <span class="n">my_string_list</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs-402"><a href="#Obs-402"><span class="linenos">402</span></a>            <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">items</span><span class="p">()):</span>
+</span><span id="Obs-403"><a href="#Obs-403"><span class="linenos">403</span></a>                <span class="k">if</span> <span class="n">key</span> <span class="ow">not</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="p">:</span>
+</span><span id="Obs-404"><a href="#Obs-404"><span class="linenos">404</span></a>                    <span class="n">my_string</span> <span class="o">=</span> <span class="s1">&#39;  &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Ensemble &#39;&quot;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
+</span><span id="Obs-405"><a href="#Obs-405"><span class="linenos">405</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">value</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs-406"><a href="#Obs-406"><span class="linenos">406</span></a>                        <span class="n">my_string</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39;: </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="si">}</span><span class="s1"> configurations&#39;</span>
+</span><span id="Obs-407"><a href="#Obs-407"><span class="linenos">407</span></a>                        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]],</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="Obs-408"><a href="#Obs-408"><span class="linenos">408</span></a>                            <span class="n">my_string</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39; (from </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">start</span><span class="si">}</span><span class="s1"> to </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="sa">f</span><span class="s1">&#39; in steps of </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">step</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;)&#39;</span>
+</span><span id="Obs-409"><a href="#Obs-409"><span class="linenos">409</span></a>                        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-410"><a href="#Obs-410"><span class="linenos">410</span></a>                            <span class="n">my_string</span> <span class="o">+=</span> <span class="s1">&#39; (irregular range)&#39;</span>
+</span><span id="Obs-411"><a href="#Obs-411"><span class="linenos">411</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-412"><a href="#Obs-412"><span class="linenos">412</span></a>                        <span class="n">sublist</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs-413"><a href="#Obs-413"><span class="linenos">413</span></a>                        <span class="k">for</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">value</span><span class="p">:</span>
+</span><span id="Obs-414"><a href="#Obs-414"><span class="linenos">414</span></a>                            <span class="n">my_substring</span> <span class="o">=</span> <span class="s1">&#39;    &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Replicum &#39;&quot;</span> <span class="o">+</span> <span class="n">v</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">key</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
+</span><span id="Obs-415"><a href="#Obs-415"><span class="linenos">415</span></a>                            <span class="n">my_substring</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39;: </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="si">}</span><span class="s1"> configurations&#39;</span>
+</span><span id="Obs-416"><a href="#Obs-416"><span class="linenos">416</span></a>                            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">],</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="Obs-417"><a href="#Obs-417"><span class="linenos">417</span></a>                                <span class="n">my_substring</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39; (from </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">start</span><span class="si">}</span><span class="s1"> to </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="sa">f</span><span class="s1">&#39; in steps of </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">step</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;)&#39;</span>
+</span><span id="Obs-418"><a href="#Obs-418"><span class="linenos">418</span></a>                            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-419"><a href="#Obs-419"><span class="linenos">419</span></a>                                <span class="n">my_substring</span> <span class="o">+=</span> <span class="s1">&#39; (irregular range)&#39;</span>
+</span><span id="Obs-420"><a href="#Obs-420"><span class="linenos">420</span></a>                            <span class="n">sublist</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">my_substring</span><span class="p">)</span>
+</span><span id="Obs-421"><a href="#Obs-421"><span class="linenos">421</span></a>
+</span><span id="Obs-422"><a href="#Obs-422"><span class="linenos">422</span></a>                        <span class="n">my_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sublist</span><span class="p">)</span>
+</span><span id="Obs-423"><a href="#Obs-423"><span class="linenos">423</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-424"><a href="#Obs-424"><span class="linenos">424</span></a>                    <span class="n">my_string</span> <span class="o">=</span> <span class="s1">&#39;  &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Covobs   &#39;&quot;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
+</span><span id="Obs-425"><a href="#Obs-425"><span class="linenos">425</span></a>                <span class="n">my_string_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">my_string</span><span class="p">)</span>
+</span><span id="Obs-426"><a href="#Obs-426"><span class="linenos">426</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">my_string_list</span><span class="p">))</span>
+</span><span id="Obs-427"><a href="#Obs-427"><span class="linenos">427</span></a>
+</span><span id="Obs-428"><a href="#Obs-428"><span class="linenos">428</span></a>    <span class="k">def</span> <span class="nf">is_zero_within_error</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">sigma</span><span class="o">=</span><span class="mi">1</span><span class="p">):</span>
+</span><span id="Obs-429"><a href="#Obs-429"><span class="linenos">429</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether the observable is zero within &#39;sigma&#39; standard errors.</span>
+</span><span id="Obs-430"><a href="#Obs-430"><span class="linenos">430</span></a>
+</span><span id="Obs-431"><a href="#Obs-431"><span class="linenos">431</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs-432"><a href="#Obs-432"><span class="linenos">432</span></a><span class="sd">        ----------</span>
+</span><span id="Obs-433"><a href="#Obs-433"><span class="linenos">433</span></a><span class="sd">        sigma : int</span>
+</span><span id="Obs-434"><a href="#Obs-434"><span class="linenos">434</span></a><span class="sd">            Number of standard errors used for the check.</span>
+</span><span id="Obs-435"><a href="#Obs-435"><span class="linenos">435</span></a>
+</span><span id="Obs-436"><a href="#Obs-436"><span class="linenos">436</span></a><span class="sd">        Works only properly when the gamma method was run.</span>
+</span><span id="Obs-437"><a href="#Obs-437"><span class="linenos">437</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs-438"><a href="#Obs-438"><span class="linenos">438</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span> <span class="ow">or</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="n">sigma</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
+</span><span id="Obs-439"><a href="#Obs-439"><span class="linenos">439</span></a>
+</span><span id="Obs-440"><a href="#Obs-440"><span class="linenos">440</span></a>    <span class="k">def</span> <span class="nf">is_zero</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">atol</span><span class="o">=</span><span class="mf">1e-10</span><span class="p">):</span>
+</span><span id="Obs-441"><a href="#Obs-441"><span class="linenos">441</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether the observable is zero within a given tolerance.</span>
+</span><span id="Obs-442"><a href="#Obs-442"><span class="linenos">442</span></a>
+</span><span id="Obs-443"><a href="#Obs-443"><span class="linenos">443</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs-444"><a href="#Obs-444"><span class="linenos">444</span></a><span class="sd">        ----------</span>
+</span><span id="Obs-445"><a href="#Obs-445"><span class="linenos">445</span></a><span class="sd">        atol : float</span>
+</span><span id="Obs-446"><a href="#Obs-446"><span class="linenos">446</span></a><span class="sd">            Absolute tolerance (for details see numpy documentation).</span>
+</span><span id="Obs-447"><a href="#Obs-447"><span class="linenos">447</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs-448"><a href="#Obs-448"><span class="linenos">448</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">delta</span><span class="p">,</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="k">for</span> <span class="n">delta</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">values</span><span class="p">())</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">delta</span><span class="o">.</span><span class="n">errsq</span><span class="p">(),</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="k">for</span> <span class="n">delta</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">values</span><span class="p">())</span>
+</span><span id="Obs-449"><a href="#Obs-449"><span class="linenos">449</span></a>
+</span><span id="Obs-450"><a href="#Obs-450"><span class="linenos">450</span></a>    <span class="k">def</span> <span class="nf">plot_tauint</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Obs-451"><a href="#Obs-451"><span class="linenos">451</span></a>        <span class="sd">&quot;&quot;&quot;Plot integrated autocorrelation time for each ensemble.</span>
+</span><span id="Obs-452"><a href="#Obs-452"><span class="linenos">452</span></a>
+</span><span id="Obs-453"><a href="#Obs-453"><span class="linenos">453</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs-454"><a href="#Obs-454"><span class="linenos">454</span></a><span class="sd">        ----------</span>
+</span><span id="Obs-455"><a href="#Obs-455"><span class="linenos">455</span></a><span class="sd">        save : str</span>
+</span><span id="Obs-456"><a href="#Obs-456"><span class="linenos">456</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
+</span><span id="Obs-457"><a href="#Obs-457"><span class="linenos">457</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs-458"><a href="#Obs-458"><span class="linenos">458</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="Obs-459"><a href="#Obs-459"><span class="linenos">459</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="Obs-460"><a href="#Obs-460"><span class="linenos">460</span></a>
+</span><span id="Obs-461"><a href="#Obs-461"><span class="linenos">461</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="Obs-462"><a href="#Obs-462"><span class="linenos">462</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="Obs-463"><a href="#Obs-463"><span class="linenos">463</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$W$&#39;</span><span class="p">)</span>
+</span><span id="Obs-464"><a href="#Obs-464"><span class="linenos">464</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$\tau_\mathrm</span><span class="si">{int}</span><span class="s1">$&#39;</span><span class="p">)</span>
+</span><span id="Obs-465"><a href="#Obs-465"><span class="linenos">465</span></a>            <span class="n">length</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs-466"><a href="#Obs-466"><span class="linenos">466</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Obs-467"><a href="#Obs-467"><span class="linenos">467</span></a>                <span class="n">base</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]]</span>
+</span><span id="Obs-468"><a href="#Obs-468"><span class="linenos">468</span></a>                <span class="n">x_help</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span>
+</span><span id="Obs-469"><a href="#Obs-469"><span class="linenos">469</span></a>                <span class="n">y_help</span> <span class="o">=</span> <span class="p">(</span><span class="n">x_help</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">x_help</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)))</span> <span class="o">+</span> <span class="n">base</span>
+</span><span id="Obs-470"><a href="#Obs-470"><span class="linenos">470</span></a>                <span class="n">x_arr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span>
+</span><span id="Obs-471"><a href="#Obs-471"><span class="linenos">471</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_arr</span><span class="p">,</span> <span class="n">y_help</span><span class="p">,</span> <span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="Obs-472"><a href="#Obs-472"><span class="linenos">472</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span>
+</span><span id="Obs-473"><a href="#Obs-473"><span class="linenos">473</span></a>                             <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">,</span> <span class="n">mfc</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;axes.facecolor&#39;</span><span class="p">])</span>
+</span><span id="Obs-474"><a href="#Obs-474"><span class="linenos">474</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mf">1.5</span>
+</span><span id="Obs-475"><a href="#Obs-475"><span class="linenos">475</span></a>                <span class="n">label</span> <span class="o">=</span> <span class="n">e_name</span> <span class="o">+</span> <span class="sa">r</span><span class="s1">&#39;, $\tau_\mathrm</span><span class="si">{exp}</span><span class="s1">$=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">))</span>
+</span><span id="Obs-476"><a href="#Obs-476"><span class="linenos">476</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-477"><a href="#Obs-477"><span class="linenos">477</span></a>                <span class="n">label</span> <span class="o">=</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;, S=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">))</span>
+</span><span id="Obs-478"><a href="#Obs-478"><span class="linenos">478</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="mf">10.5</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
+</span><span id="Obs-479"><a href="#Obs-479"><span class="linenos">479</span></a>
+</span><span id="Obs-480"><a href="#Obs-480"><span class="linenos">480</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">length</span><span class="p">)[:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="n">label</span><span class="p">)</span>
+</span><span id="Obs-481"><a href="#Obs-481"><span class="linenos">481</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">)</span>
+</span><span id="Obs-482"><a href="#Obs-482"><span class="linenos">482</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
+</span><span id="Obs-483"><a href="#Obs-483"><span class="linenos">483</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">)</span>
+</span><span id="Obs-484"><a href="#Obs-484"><span class="linenos">484</span></a>            <span class="n">ylim</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">()</span>
+</span><span id="Obs-485"><a href="#Obs-485"><span class="linenos">485</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">(</span><span class="n">bottom</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="nb">max</span><span class="p">(</span><span class="mf">1.0</span><span class="p">,</span> <span class="n">ylim</span><span class="p">[</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="Obs-486"><a href="#Obs-486"><span class="linenos">486</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="Obs-487"><a href="#Obs-487"><span class="linenos">487</span></a>            <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
+</span><span id="Obs-488"><a href="#Obs-488"><span class="linenos">488</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span> <span class="o">+</span> <span class="s2">&quot;_&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
+</span><span id="Obs-489"><a href="#Obs-489"><span class="linenos">489</span></a>
+</span><span id="Obs-490"><a href="#Obs-490"><span class="linenos">490</span></a>    <span class="k">def</span> <span class="nf">plot_rho</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Obs-491"><a href="#Obs-491"><span class="linenos">491</span></a>        <span class="sd">&quot;&quot;&quot;Plot normalized autocorrelation function time for each ensemble.</span>
+</span><span id="Obs-492"><a href="#Obs-492"><span class="linenos">492</span></a>
+</span><span id="Obs-493"><a href="#Obs-493"><span class="linenos">493</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs-494"><a href="#Obs-494"><span class="linenos">494</span></a><span class="sd">        ----------</span>
+</span><span id="Obs-495"><a href="#Obs-495"><span class="linenos">495</span></a><span class="sd">        save : str</span>
+</span><span id="Obs-496"><a href="#Obs-496"><span class="linenos">496</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
+</span><span id="Obs-497"><a href="#Obs-497"><span class="linenos">497</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs-498"><a href="#Obs-498"><span class="linenos">498</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="Obs-499"><a href="#Obs-499"><span class="linenos">499</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="Obs-500"><a href="#Obs-500"><span class="linenos">500</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="Obs-501"><a href="#Obs-501"><span class="linenos">501</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="Obs-502"><a href="#Obs-502"><span class="linenos">502</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;W&#39;</span><span class="p">)</span>
+</span><span id="Obs-503"><a href="#Obs-503"><span class="linenos">503</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;rho&#39;</span><span class="p">)</span>
+</span><span id="Obs-504"><a href="#Obs-504"><span class="linenos">504</span></a>            <span class="n">length</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs-505"><a href="#Obs-505"><span class="linenos">505</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">length</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="n">length</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:],</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
+</span><span id="Obs-506"><a href="#Obs-506"><span class="linenos">506</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.25</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="Obs-507"><a href="#Obs-507"><span class="linenos">507</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Obs-508"><a href="#Obs-508"><span class="linenos">508</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span>
+</span><span id="Obs-509"><a href="#Obs-509"><span class="linenos">509</span></a>                         <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="mi">0</span><span class="p">],</span> <span class="s1">&#39;k-&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs-510"><a href="#Obs-510"><span class="linenos">510</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mf">1.5</span>
+</span><span id="Obs-511"><a href="#Obs-511"><span class="linenos">511</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Rho &#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="sa">r</span><span class="s1">&#39;, tau\_exp=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">)))</span>
+</span><span id="Obs-512"><a href="#Obs-512"><span class="linenos">512</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-513"><a href="#Obs-513"><span class="linenos">513</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="mf">10.5</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
+</span><span id="Obs-514"><a href="#Obs-514"><span class="linenos">514</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Rho &#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;, S=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">)))</span>
+</span><span id="Obs-515"><a href="#Obs-515"><span class="linenos">515</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">([</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="s1">&#39;k--&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs-516"><a href="#Obs-516"><span class="linenos">516</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">)</span>
+</span><span id="Obs-517"><a href="#Obs-517"><span class="linenos">517</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="Obs-518"><a href="#Obs-518"><span class="linenos">518</span></a>            <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
+</span><span id="Obs-519"><a href="#Obs-519"><span class="linenos">519</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span> <span class="o">+</span> <span class="s2">&quot;_&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
+</span><span id="Obs-520"><a href="#Obs-520"><span class="linenos">520</span></a>
+</span><span id="Obs-521"><a href="#Obs-521"><span class="linenos">521</span></a>    <span class="k">def</span> <span class="nf">plot_rep_dist</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-522"><a href="#Obs-522"><span class="linenos">522</span></a>        <span class="sd">&quot;&quot;&quot;Plot replica distribution for each ensemble with more than one replicum.&quot;&quot;&quot;</span>
+</span><span id="Obs-523"><a href="#Obs-523"><span class="linenos">523</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="Obs-524"><a href="#Obs-524"><span class="linenos">524</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="Obs-525"><a href="#Obs-525"><span class="linenos">525</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="Obs-526"><a href="#Obs-526"><span class="linenos">526</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs-527"><a href="#Obs-527"><span class="linenos">527</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;No replica distribution for a single replicum (&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;)&#39;</span><span class="p">)</span>
+</span><span id="Obs-528"><a href="#Obs-528"><span class="linenos">528</span></a>                <span class="k">continue</span>
+</span><span id="Obs-529"><a href="#Obs-529"><span class="linenos">529</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs-530"><a href="#Obs-530"><span class="linenos">530</span></a>            <span class="n">sub_r_mean</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs-531"><a href="#Obs-531"><span class="linenos">531</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
+</span><span id="Obs-532"><a href="#Obs-532"><span class="linenos">532</span></a>                <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
+</span><span id="Obs-533"><a href="#Obs-533"><span class="linenos">533</span></a>                <span class="n">sub_r_mean</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span>
+</span><span id="Obs-534"><a href="#Obs-534"><span class="linenos">534</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span>
+</span><span id="Obs-535"><a href="#Obs-535"><span class="linenos">535</span></a>            <span class="n">sub_r_mean</span> <span class="o">/=</span> <span class="n">e_N</span>
+</span><span id="Obs-536"><a href="#Obs-536"><span class="linenos">536</span></a>            <span class="n">arr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs-537"><a href="#Obs-537"><span class="linenos">537</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
+</span><span id="Obs-538"><a href="#Obs-538"><span class="linenos">538</span></a>                <span class="n">arr</span><span class="p">[</span><span class="n">r</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">-</span> <span class="n">sub_r_mean</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">e_N</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="Obs-539"><a href="#Obs-539"><span class="linenos">539</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">hist</span><span class="p">(</span><span class="n">arr</span><span class="p">,</span> <span class="n">rwidth</span><span class="o">=</span><span class="mf">0.8</span><span class="p">,</span> <span class="n">bins</span><span class="o">=</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs-540"><a href="#Obs-540"><span class="linenos">540</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Replica distribution&#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39; (mean=0, var=1)&#39;</span><span class="p">)</span>
+</span><span id="Obs-541"><a href="#Obs-541"><span class="linenos">541</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="Obs-542"><a href="#Obs-542"><span class="linenos">542</span></a>
+</span><span id="Obs-543"><a href="#Obs-543"><span class="linenos">543</span></a>    <span class="k">def</span> <span class="nf">plot_history</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">expand</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="Obs-544"><a href="#Obs-544"><span class="linenos">544</span></a>        <span class="sd">&quot;&quot;&quot;Plot derived Monte Carlo history for each ensemble</span>
+</span><span id="Obs-545"><a href="#Obs-545"><span class="linenos">545</span></a>
+</span><span id="Obs-546"><a href="#Obs-546"><span class="linenos">546</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs-547"><a href="#Obs-547"><span class="linenos">547</span></a><span class="sd">        ----------</span>
+</span><span id="Obs-548"><a href="#Obs-548"><span class="linenos">548</span></a><span class="sd">        expand : bool</span>
+</span><span id="Obs-549"><a href="#Obs-549"><span class="linenos">549</span></a><span class="sd">            show expanded history for irregular Monte Carlo chains (default: True).</span>
+</span><span id="Obs-550"><a href="#Obs-550"><span class="linenos">550</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs-551"><a href="#Obs-551"><span class="linenos">551</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="Obs-552"><a href="#Obs-552"><span class="linenos">552</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="Obs-553"><a href="#Obs-553"><span class="linenos">553</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs-554"><a href="#Obs-554"><span class="linenos">554</span></a>            <span class="n">tmp</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs-555"><a href="#Obs-555"><span class="linenos">555</span></a>            <span class="n">tmp_expanded</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs-556"><a href="#Obs-556"><span class="linenos">556</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
+</span><span id="Obs-557"><a href="#Obs-557"><span class="linenos">557</span></a>                <span class="n">tmp</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
+</span><span id="Obs-558"><a href="#Obs-558"><span class="linenos">558</span></a>                <span class="k">if</span> <span class="n">expand</span><span class="p">:</span>
+</span><span id="Obs-559"><a href="#Obs-559"><span class="linenos">559</span></a>                    <span class="n">tmp_expanded</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_expand_deltas</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]),</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
+</span><span id="Obs-560"><a href="#Obs-560"><span class="linenos">560</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp_expanded</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="Obs-561"><a href="#Obs-561"><span class="linenos">561</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-562"><a href="#Obs-562"><span class="linenos">562</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="Obs-563"><a href="#Obs-563"><span class="linenos">563</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span>
+</span><span id="Obs-564"><a href="#Obs-564"><span class="linenos">564</span></a>            <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs-565"><a href="#Obs-565"><span class="linenos">565</span></a>            <span class="n">y_test</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="Obs-566"><a href="#Obs-566"><span class="linenos">566</span></a>            <span class="k">if</span> <span class="n">expand</span><span class="p">:</span>
+</span><span id="Obs-567"><a href="#Obs-567"><span class="linenos">567</span></a>                <span class="n">y</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">tmp_expanded</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="Obs-568"><a href="#Obs-568"><span class="linenos">568</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-569"><a href="#Obs-569"><span class="linenos">569</span></a>                <span class="n">y</span> <span class="o">=</span> <span class="n">y_test</span>
+</span><span id="Obs-570"><a href="#Obs-570"><span class="linenos">570</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;.&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">3</span><span class="p">)</span>
+</span><span id="Obs-571"><a href="#Obs-571"><span class="linenos">571</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">e_N</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
+</span><span id="Obs-572"><a href="#Obs-572"><span class="linenos">572</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">e_name</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">skew: </span><span class="si">{</span><span class="n">skew</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1"> (p=</span><span class="si">{</span><span class="n">skewtest</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="o">.</span><span class="n">pvalue</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1">), kurtosis: </span><span class="si">{</span><span class="n">kurtosis</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1"> (p=</span><span class="si">{</span><span class="n">kurtosistest</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="o">.</span><span class="n">pvalue</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1">)&#39;</span><span class="p">)</span>
+</span><span id="Obs-573"><a href="#Obs-573"><span class="linenos">573</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="Obs-574"><a href="#Obs-574"><span class="linenos">574</span></a>
+</span><span id="Obs-575"><a href="#Obs-575"><span class="linenos">575</span></a>    <span class="k">def</span> <span class="nf">plot_piechart</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Obs-576"><a href="#Obs-576"><span class="linenos">576</span></a>        <span class="sd">&quot;&quot;&quot;Plot piechart which shows the fractional contribution of each</span>
+</span><span id="Obs-577"><a href="#Obs-577"><span class="linenos">577</span></a><span class="sd">        ensemble to the error and returns a dictionary containing the fractions.</span>
+</span><span id="Obs-578"><a href="#Obs-578"><span class="linenos">578</span></a>
+</span><span id="Obs-579"><a href="#Obs-579"><span class="linenos">579</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs-580"><a href="#Obs-580"><span class="linenos">580</span></a><span class="sd">        ----------</span>
+</span><span id="Obs-581"><a href="#Obs-581"><span class="linenos">581</span></a><span class="sd">        save : str</span>
+</span><span id="Obs-582"><a href="#Obs-582"><span class="linenos">582</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
+</span><span id="Obs-583"><a href="#Obs-583"><span class="linenos">583</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs-584"><a href="#Obs-584"><span class="linenos">584</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="Obs-585"><a href="#Obs-585"><span class="linenos">585</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="Obs-586"><a href="#Obs-586"><span class="linenos">586</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">,</span> <span class="n">atol</span><span class="o">=</span><span class="mf">1e-15</span><span class="p">):</span>
+</span><span id="Obs-587"><a href="#Obs-587"><span class="linenos">587</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error is 0.0&#39;</span><span class="p">)</span>
+</span><span id="Obs-588"><a href="#Obs-588"><span class="linenos">588</span></a>        <span class="n">labels</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_names</span>
+</span><span id="Obs-589"><a href="#Obs-589"><span class="linenos">589</span></a>        <span class="n">sizes</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">labels</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="Obs-590"><a href="#Obs-590"><span class="linenos">590</span></a>        <span class="n">fig1</span><span class="p">,</span> <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplots</span><span class="p">()</span>
+</span><span id="Obs-591"><a href="#Obs-591"><span class="linenos">591</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">pie</span><span class="p">(</span><span class="n">sizes</span><span class="p">,</span> <span class="n">labels</span><span class="o">=</span><span class="n">labels</span><span class="p">,</span> <span class="n">startangle</span><span class="o">=</span><span class="mi">90</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="Obs-592"><a href="#Obs-592"><span class="linenos">592</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">axis</span><span class="p">(</span><span class="s1">&#39;equal&#39;</span><span class="p">)</span>
+</span><span id="Obs-593"><a href="#Obs-593"><span class="linenos">593</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="Obs-594"><a href="#Obs-594"><span class="linenos">594</span></a>        <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
+</span><span id="Obs-595"><a href="#Obs-595"><span class="linenos">595</span></a>            <span class="n">fig1</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span><span class="p">)</span>
+</span><span id="Obs-596"><a href="#Obs-596"><span class="linenos">596</span></a>
+</span><span id="Obs-597"><a href="#Obs-597"><span class="linenos">597</span></a>        <span class="k">return</span> <span class="nb">dict</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">,</span> <span class="n">sizes</span><span class="p">))</span>
+</span><span id="Obs-598"><a href="#Obs-598"><span class="linenos">598</span></a>
+</span><span id="Obs-599"><a href="#Obs-599"><span class="linenos">599</span></a>    <span class="k">def</span> <span class="nf">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="n">datatype</span><span class="o">=</span><span class="s2">&quot;json.gz&quot;</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s2">&quot;&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Obs-600"><a href="#Obs-600"><span class="linenos">600</span></a>        <span class="sd">&quot;&quot;&quot;Dump the Obs to a file &#39;name&#39; of chosen format.</span>
+</span><span id="Obs-601"><a href="#Obs-601"><span class="linenos">601</span></a>
+</span><span id="Obs-602"><a href="#Obs-602"><span class="linenos">602</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs-603"><a href="#Obs-603"><span class="linenos">603</span></a><span class="sd">        ----------</span>
+</span><span id="Obs-604"><a href="#Obs-604"><span class="linenos">604</span></a><span class="sd">        filename : str</span>
+</span><span id="Obs-605"><a href="#Obs-605"><span class="linenos">605</span></a><span class="sd">            name of the file to be saved.</span>
+</span><span id="Obs-606"><a href="#Obs-606"><span class="linenos">606</span></a><span class="sd">        datatype : str</span>
+</span><span id="Obs-607"><a href="#Obs-607"><span class="linenos">607</span></a><span class="sd">            Format of the exported file. Supported formats include</span>
+</span><span id="Obs-608"><a href="#Obs-608"><span class="linenos">608</span></a><span class="sd">            &quot;json.gz&quot; and &quot;pickle&quot;</span>
+</span><span id="Obs-609"><a href="#Obs-609"><span class="linenos">609</span></a><span class="sd">        description : str</span>
+</span><span id="Obs-610"><a href="#Obs-610"><span class="linenos">610</span></a><span class="sd">            Description for output file, only relevant for json.gz format.</span>
+</span><span id="Obs-611"><a href="#Obs-611"><span class="linenos">611</span></a><span class="sd">        path : str</span>
+</span><span id="Obs-612"><a href="#Obs-612"><span class="linenos">612</span></a><span class="sd">            specifies a custom path for the file (default &#39;.&#39;)</span>
+</span><span id="Obs-613"><a href="#Obs-613"><span class="linenos">613</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs-614"><a href="#Obs-614"><span class="linenos">614</span></a>        <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="Obs-615"><a href="#Obs-615"><span class="linenos">615</span></a>            <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">filename</span>
+</span><span id="Obs-616"><a href="#Obs-616"><span class="linenos">616</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-617"><a href="#Obs-617"><span class="linenos">617</span></a>            <span class="n">file_name</span> <span class="o">=</span> <span class="n">filename</span>
+</span><span id="Obs-618"><a href="#Obs-618"><span class="linenos">618</span></a>
+</span><span id="Obs-619"><a href="#Obs-619"><span class="linenos">619</span></a>        <span class="k">if</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;json.gz&quot;</span><span class="p">:</span>
+</span><span id="Obs-620"><a href="#Obs-620"><span class="linenos">620</span></a>            <span class="kn">from</span> <span class="nn">.input.json</span> <span class="kn">import</span> <span class="n">dump_to_json</span>
+</span><span id="Obs-621"><a href="#Obs-621"><span class="linenos">621</span></a>            <span class="n">dump_to_json</span><span class="p">([</span><span class="bp">self</span><span class="p">],</span> <span class="n">file_name</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="n">description</span><span class="p">)</span>
+</span><span id="Obs-622"><a href="#Obs-622"><span class="linenos">622</span></a>        <span class="k">elif</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;pickle&quot;</span><span class="p">:</span>
+</span><span id="Obs-623"><a href="#Obs-623"><span class="linenos">623</span></a>            <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">file_name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fb</span><span class="p">:</span>
+</span><span id="Obs-624"><a href="#Obs-624"><span class="linenos">624</span></a>                <span class="n">pickle</span><span class="o">.</span><span class="n">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">fb</span><span class="p">)</span>
+</span><span id="Obs-625"><a href="#Obs-625"><span class="linenos">625</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-626"><a href="#Obs-626"><span class="linenos">626</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown datatype &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">datatype</span><span class="p">))</span>
+</span><span id="Obs-627"><a href="#Obs-627"><span class="linenos">627</span></a>
+</span><span id="Obs-628"><a href="#Obs-628"><span class="linenos">628</span></a>    <span class="k">def</span> <span class="nf">export_jackknife</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-629"><a href="#Obs-629"><span class="linenos">629</span></a>        <span class="sd">&quot;&quot;&quot;Export jackknife samples from the Obs</span>
+</span><span id="Obs-630"><a href="#Obs-630"><span class="linenos">630</span></a>
+</span><span id="Obs-631"><a href="#Obs-631"><span class="linenos">631</span></a><span class="sd">        Returns</span>
+</span><span id="Obs-632"><a href="#Obs-632"><span class="linenos">632</span></a><span class="sd">        -------</span>
+</span><span id="Obs-633"><a href="#Obs-633"><span class="linenos">633</span></a><span class="sd">        numpy.ndarray</span>
+</span><span id="Obs-634"><a href="#Obs-634"><span class="linenos">634</span></a><span class="sd">            Returns a numpy array of length N + 1 where N is the number of samples</span>
+</span><span id="Obs-635"><a href="#Obs-635"><span class="linenos">635</span></a><span class="sd">            for the given ensemble and replicum. The zeroth entry of the array contains</span>
+</span><span id="Obs-636"><a href="#Obs-636"><span class="linenos">636</span></a><span class="sd">            the mean value of the Obs, entries 1 to N contain the N jackknife samples</span>
+</span><span id="Obs-637"><a href="#Obs-637"><span class="linenos">637</span></a><span class="sd">            derived from the Obs. The current implementation only works for observables</span>
+</span><span id="Obs-638"><a href="#Obs-638"><span class="linenos">638</span></a><span class="sd">            defined on exactly one ensemble and replicum. The derived jackknife samples</span>
+</span><span id="Obs-639"><a href="#Obs-639"><span class="linenos">639</span></a><span class="sd">            should agree with samples from a full jackknife analysis up to O(1/N).</span>
+</span><span id="Obs-640"><a href="#Obs-640"><span class="linenos">640</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs-641"><a href="#Obs-641"><span class="linenos">641</span></a>
+</span><span id="Obs-642"><a href="#Obs-642"><span class="linenos">642</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs-643"><a href="#Obs-643"><span class="linenos">643</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;export_jackknife&#39; is only implemented for Obs defined on one ensemble and replicum.&quot;</span><span class="p">)</span>
+</span><span id="Obs-644"><a href="#Obs-644"><span class="linenos">644</span></a>
+</span><span id="Obs-645"><a href="#Obs-645"><span class="linenos">645</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Obs-646"><a href="#Obs-646"><span class="linenos">646</span></a>        <span class="n">full_data</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="Obs-647"><a href="#Obs-647"><span class="linenos">647</span></a>        <span class="n">n</span> <span class="o">=</span> <span class="n">full_data</span><span class="o">.</span><span class="n">size</span>
+</span><span id="Obs-648"><a href="#Obs-648"><span class="linenos">648</span></a>        <span class="n">mean</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span>
+</span><span id="Obs-649"><a href="#Obs-649"><span class="linenos">649</span></a>        <span class="n">tmp_jacks</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs-650"><a href="#Obs-650"><span class="linenos">650</span></a>        <span class="n">tmp_jacks</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="n">mean</span>
+</span><span id="Obs-651"><a href="#Obs-651"><span class="linenos">651</span></a>        <span class="n">tmp_jacks</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="o">=</span> <span class="p">(</span><span class="n">n</span> <span class="o">*</span> <span class="n">mean</span> <span class="o">-</span> <span class="n">full_data</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">n</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs-652"><a href="#Obs-652"><span class="linenos">652</span></a>        <span class="k">return</span> <span class="n">tmp_jacks</span>
+</span><span id="Obs-653"><a href="#Obs-653"><span class="linenos">653</span></a>
+</span><span id="Obs-654"><a href="#Obs-654"><span class="linenos">654</span></a>    <span class="k">def</span> <span class="fm">__float__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-655"><a href="#Obs-655"><span class="linenos">655</span></a>        <span class="k">return</span> <span class="nb">float</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
+</span><span id="Obs-656"><a href="#Obs-656"><span class="linenos">656</span></a>
+</span><span id="Obs-657"><a href="#Obs-657"><span class="linenos">657</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-658"><a href="#Obs-658"><span class="linenos">658</span></a>        <span class="k">return</span> <span class="s1">&#39;Obs[&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;]&#39;</span>
+</span><span id="Obs-659"><a href="#Obs-659"><span class="linenos">659</span></a>
+</span><span id="Obs-660"><a href="#Obs-660"><span class="linenos">660</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-661"><a href="#Obs-661"><span class="linenos">661</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="Obs-662"><a href="#Obs-662"><span class="linenos">662</span></a>            <span class="k">return</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
+</span><span id="Obs-663"><a href="#Obs-663"><span class="linenos">663</span></a>        <span class="n">fexp</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">floor</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">log10</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">))</span>
+</span><span id="Obs-664"><a href="#Obs-664"><span class="linenos">664</span></a>        <span class="k">if</span> <span class="n">fexp</span> <span class="o">&lt;</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="Obs-665"><a href="#Obs-665"><span class="linenos">665</span></a>            <span class="k">return</span> <span class="s1">&#39;{:</span><span class="si">{form}</span><span class="s1">}(</span><span class="si">{:2.0f}</span><span class="s1">)&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">*</span> <span class="mi">10</span> <span class="o">**</span> <span class="p">(</span><span class="o">-</span><span class="n">fexp</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">form</span><span class="o">=</span><span class="s1">&#39;.&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="o">-</span><span class="nb">int</span><span class="p">(</span><span class="n">fexp</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;f&#39;</span><span class="p">)</span>
+</span><span id="Obs-666"><a href="#Obs-666"><span class="linenos">666</span></a>        <span class="k">elif</span> <span class="n">fexp</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="Obs-667"><a href="#Obs-667"><span class="linenos">667</span></a>            <span class="k">return</span> <span class="s1">&#39;</span><span class="si">{:.1f}</span><span class="s1">(</span><span class="si">{:1.1f}</span><span class="s1">)&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
+</span><span id="Obs-668"><a href="#Obs-668"><span class="linenos">668</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-669"><a href="#Obs-669"><span class="linenos">669</span></a>            <span class="k">return</span> <span class="s1">&#39;</span><span class="si">{:.0f}</span><span class="s1">(</span><span class="si">{:2.0f}</span><span class="s1">)&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
+</span><span id="Obs-670"><a href="#Obs-670"><span class="linenos">670</span></a>
+</span><span id="Obs-671"><a href="#Obs-671"><span class="linenos">671</span></a>    <span class="c1"># Overload comparisons</span>
+</span><span id="Obs-672"><a href="#Obs-672"><span class="linenos">672</span></a>    <span class="k">def</span> <span class="fm">__lt__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="Obs-673"><a href="#Obs-673"><span class="linenos">673</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&lt;</span> <span class="n">other</span>
+</span><span id="Obs-674"><a href="#Obs-674"><span class="linenos">674</span></a>
+</span><span id="Obs-675"><a href="#Obs-675"><span class="linenos">675</span></a>    <span class="k">def</span> <span class="fm">__le__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="Obs-676"><a href="#Obs-676"><span class="linenos">676</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&lt;=</span> <span class="n">other</span>
+</span><span id="Obs-677"><a href="#Obs-677"><span class="linenos">677</span></a>
+</span><span id="Obs-678"><a href="#Obs-678"><span class="linenos">678</span></a>    <span class="k">def</span> <span class="fm">__gt__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="Obs-679"><a href="#Obs-679"><span class="linenos">679</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&gt;</span> <span class="n">other</span>
+</span><span id="Obs-680"><a href="#Obs-680"><span class="linenos">680</span></a>
+</span><span id="Obs-681"><a href="#Obs-681"><span class="linenos">681</span></a>    <span class="k">def</span> <span class="fm">__ge__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="Obs-682"><a href="#Obs-682"><span class="linenos">682</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">&gt;=</span> <span class="n">other</span>
+</span><span id="Obs-683"><a href="#Obs-683"><span class="linenos">683</span></a>
+</span><span id="Obs-684"><a href="#Obs-684"><span class="linenos">684</span></a>    <span class="k">def</span> <span class="fm">__eq__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="Obs-685"><a href="#Obs-685"><span class="linenos">685</span></a>        <span class="k">return</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">other</span><span class="p">)</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span>
+</span><span id="Obs-686"><a href="#Obs-686"><span class="linenos">686</span></a>
+</span><span id="Obs-687"><a href="#Obs-687"><span class="linenos">687</span></a>    <span class="k">def</span> <span class="fm">__ne__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="Obs-688"><a href="#Obs-688"><span class="linenos">688</span></a>        <span class="k">return</span> <span class="ow">not</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">other</span><span class="p">)</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span>
+</span><span id="Obs-689"><a href="#Obs-689"><span class="linenos">689</span></a>
+</span><span id="Obs-690"><a href="#Obs-690"><span class="linenos">690</span></a>    <span class="c1"># Overload math operations</span>
+</span><span id="Obs-691"><a href="#Obs-691"><span class="linenos">691</span></a>    <span class="k">def</span> <span class="fm">__add__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Obs-692"><a href="#Obs-692"><span class="linenos">692</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="Obs-693"><a href="#Obs-693"><span class="linenos">693</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">])</span>
+</span><span id="Obs-694"><a href="#Obs-694"><span class="linenos">694</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-695"><a href="#Obs-695"><span class="linenos">695</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="Obs-696"><a href="#Obs-696"><span class="linenos">696</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">+</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="Obs-697"><a href="#Obs-697"><span class="linenos">697</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
+</span><span id="Obs-698"><a href="#Obs-698"><span class="linenos">698</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
+</span><span id="Obs-699"><a href="#Obs-699"><span class="linenos">699</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-700"><a href="#Obs-700"><span class="linenos">700</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="Obs-701"><a href="#Obs-701"><span class="linenos">701</span></a>
+</span><span id="Obs-702"><a href="#Obs-702"><span class="linenos">702</span></a>    <span class="k">def</span> <span class="fm">__radd__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Obs-703"><a href="#Obs-703"><span class="linenos">703</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
+</span><span id="Obs-704"><a href="#Obs-704"><span class="linenos">704</span></a>
+</span><span id="Obs-705"><a href="#Obs-705"><span class="linenos">705</span></a>    <span class="k">def</span> <span class="fm">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Obs-706"><a href="#Obs-706"><span class="linenos">706</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="Obs-707"><a href="#Obs-707"><span class="linenos">707</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">y</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">])</span>
+</span><span id="Obs-708"><a href="#Obs-708"><span class="linenos">708</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-709"><a href="#Obs-709"><span class="linenos">709</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="Obs-710"><a href="#Obs-710"><span class="linenos">710</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">*</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="Obs-711"><a href="#Obs-711"><span class="linenos">711</span></a>            <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="nb">complex</span><span class="p">):</span>
+</span><span id="Obs-712"><a href="#Obs-712"><span class="linenos">712</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span> <span class="o">*</span> <span class="n">y</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">y</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="Obs-713"><a href="#Obs-713"><span class="linenos">713</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
+</span><span id="Obs-714"><a href="#Obs-714"><span class="linenos">714</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
+</span><span id="Obs-715"><a href="#Obs-715"><span class="linenos">715</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-716"><a href="#Obs-716"><span class="linenos">716</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">y</span><span class="p">])</span>
+</span><span id="Obs-717"><a href="#Obs-717"><span class="linenos">717</span></a>
+</span><span id="Obs-718"><a href="#Obs-718"><span class="linenos">718</span></a>    <span class="k">def</span> <span class="fm">__rmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Obs-719"><a href="#Obs-719"><span class="linenos">719</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">y</span>
+</span><span id="Obs-720"><a href="#Obs-720"><span class="linenos">720</span></a>
+</span><span id="Obs-721"><a href="#Obs-721"><span class="linenos">721</span></a>    <span class="k">def</span> <span class="fm">__sub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Obs-722"><a href="#Obs-722"><span class="linenos">722</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="Obs-723"><a href="#Obs-723"><span class="linenos">723</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="Obs-724"><a href="#Obs-724"><span class="linenos">724</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-725"><a href="#Obs-725"><span class="linenos">725</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="Obs-726"><a href="#Obs-726"><span class="linenos">726</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">-</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="Obs-727"><a href="#Obs-727"><span class="linenos">727</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
+</span><span id="Obs-728"><a href="#Obs-728"><span class="linenos">728</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
+</span><span id="Obs-729"><a href="#Obs-729"><span class="linenos">729</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-730"><a href="#Obs-730"><span class="linenos">730</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
+</span><span id="Obs-731"><a href="#Obs-731"><span class="linenos">731</span></a>
+</span><span id="Obs-732"><a href="#Obs-732"><span class="linenos">732</span></a>    <span class="k">def</span> <span class="fm">__rsub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Obs-733"><a href="#Obs-733"><span class="linenos">733</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">y</span><span class="p">)</span>
+</span><span id="Obs-734"><a href="#Obs-734"><span class="linenos">734</span></a>
+</span><span id="Obs-735"><a href="#Obs-735"><span class="linenos">735</span></a>    <span class="k">def</span> <span class="fm">__pos__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-736"><a href="#Obs-736"><span class="linenos">736</span></a>        <span class="k">return</span> <span class="bp">self</span>
+</span><span id="Obs-737"><a href="#Obs-737"><span class="linenos">737</span></a>
+</span><span id="Obs-738"><a href="#Obs-738"><span class="linenos">738</span></a>    <span class="k">def</span> <span class="fm">__neg__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-739"><a href="#Obs-739"><span class="linenos">739</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
+</span><span id="Obs-740"><a href="#Obs-740"><span class="linenos">740</span></a>
+</span><span id="Obs-741"><a href="#Obs-741"><span class="linenos">741</span></a>    <span class="k">def</span> <span class="fm">__truediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Obs-742"><a href="#Obs-742"><span class="linenos">742</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="Obs-743"><a href="#Obs-743"><span class="linenos">743</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">/</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="Obs-744"><a href="#Obs-744"><span class="linenos">744</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-745"><a href="#Obs-745"><span class="linenos">745</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="Obs-746"><a href="#Obs-746"><span class="linenos">746</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="bp">self</span> <span class="o">/</span> <span class="n">o</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="Obs-747"><a href="#Obs-747"><span class="linenos">747</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
+</span><span id="Obs-748"><a href="#Obs-748"><span class="linenos">748</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
+</span><span id="Obs-749"><a href="#Obs-749"><span class="linenos">749</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-750"><a href="#Obs-750"><span class="linenos">750</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="Obs-751"><a href="#Obs-751"><span class="linenos">751</span></a>
+</span><span id="Obs-752"><a href="#Obs-752"><span class="linenos">752</span></a>    <span class="k">def</span> <span class="fm">__rtruediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Obs-753"><a href="#Obs-753"><span class="linenos">753</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="Obs-754"><a href="#Obs-754"><span class="linenos">754</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="n">y</span><span class="p">,</span> <span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span> <span class="n">y</span><span class="o">.</span><span class="n">value</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="Obs-755"><a href="#Obs-755"><span class="linenos">755</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-756"><a href="#Obs-756"><span class="linenos">756</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="Obs-757"><a href="#Obs-757"><span class="linenos">757</span></a>                <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span> <span class="o">/</span> <span class="bp">self</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="Obs-758"><a href="#Obs-758"><span class="linenos">758</span></a>            <span class="k">elif</span> <span class="n">y</span><span class="o">.</span><span class="vm">__class__</span><span class="o">.</span><span class="vm">__name__</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;Corr&#39;</span><span class="p">,</span> <span class="s1">&#39;CObs&#39;</span><span class="p">]:</span>
+</span><span id="Obs-759"><a href="#Obs-759"><span class="linenos">759</span></a>                <span class="k">return</span> <span class="bp">NotImplemented</span>
+</span><span id="Obs-760"><a href="#Obs-760"><span class="linenos">760</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-761"><a href="#Obs-761"><span class="linenos">761</span></a>                <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">y</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="o">-</span><span class="n">y</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="Obs-762"><a href="#Obs-762"><span class="linenos">762</span></a>
+</span><span id="Obs-763"><a href="#Obs-763"><span class="linenos">763</span></a>    <span class="k">def</span> <span class="fm">__pow__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Obs-764"><a href="#Obs-764"><span class="linenos">764</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="Obs-765"><a href="#Obs-765"><span class="linenos">765</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">**</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">])</span>
+</span><span id="Obs-766"><a href="#Obs-766"><span class="linenos">766</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-767"><a href="#Obs-767"><span class="linenos">767</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">**</span> <span class="n">y</span><span class="p">,</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="Obs-768"><a href="#Obs-768"><span class="linenos">768</span></a>
+</span><span id="Obs-769"><a href="#Obs-769"><span class="linenos">769</span></a>    <span class="k">def</span> <span class="fm">__rpow__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="Obs-770"><a href="#Obs-770"><span class="linenos">770</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">y</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="Obs-771"><a href="#Obs-771"><span class="linenos">771</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">**</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="n">y</span><span class="p">,</span> <span class="bp">self</span><span class="p">])</span>
+</span><span id="Obs-772"><a href="#Obs-772"><span class="linenos">772</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs-773"><a href="#Obs-773"><span class="linenos">773</span></a>            <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">y</span> <span class="o">**</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="Obs-774"><a href="#Obs-774"><span class="linenos">774</span></a>
+</span><span id="Obs-775"><a href="#Obs-775"><span class="linenos">775</span></a>    <span class="k">def</span> <span class="fm">__abs__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-776"><a href="#Obs-776"><span class="linenos">776</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="Obs-777"><a href="#Obs-777"><span class="linenos">777</span></a>
+</span><span id="Obs-778"><a href="#Obs-778"><span class="linenos">778</span></a>    <span class="c1"># Overload numpy functions</span>
+</span><span id="Obs-779"><a href="#Obs-779"><span class="linenos">779</span></a>    <span class="k">def</span> <span class="nf">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-780"><a href="#Obs-780"><span class="linenos">780</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="Obs-781"><a href="#Obs-781"><span class="linenos">781</span></a>
+</span><span id="Obs-782"><a href="#Obs-782"><span class="linenos">782</span></a>    <span class="k">def</span> <span class="nf">log</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-783"><a href="#Obs-783"><span class="linenos">783</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">])</span>
+</span><span id="Obs-784"><a href="#Obs-784"><span class="linenos">784</span></a>
+</span><span id="Obs-785"><a href="#Obs-785"><span class="linenos">785</span></a>    <span class="k">def</span> <span class="nf">exp</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-786"><a href="#Obs-786"><span class="linenos">786</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="Obs-787"><a href="#Obs-787"><span class="linenos">787</span></a>
+</span><span id="Obs-788"><a href="#Obs-788"><span class="linenos">788</span></a>    <span class="k">def</span> <span class="nf">sin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-789"><a href="#Obs-789"><span class="linenos">789</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="Obs-790"><a href="#Obs-790"><span class="linenos">790</span></a>
+</span><span id="Obs-791"><a href="#Obs-791"><span class="linenos">791</span></a>    <span class="k">def</span> <span class="nf">cos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-792"><a href="#Obs-792"><span class="linenos">792</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="Obs-793"><a href="#Obs-793"><span class="linenos">793</span></a>
+</span><span id="Obs-794"><a href="#Obs-794"><span class="linenos">794</span></a>    <span class="k">def</span> <span class="nf">tan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-795"><a href="#Obs-795"><span class="linenos">795</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">tan</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="Obs-796"><a href="#Obs-796"><span class="linenos">796</span></a>
+</span><span id="Obs-797"><a href="#Obs-797"><span class="linenos">797</span></a>    <span class="k">def</span> <span class="nf">arcsin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-798"><a href="#Obs-798"><span class="linenos">798</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arcsin</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="Obs-799"><a href="#Obs-799"><span class="linenos">799</span></a>
+</span><span id="Obs-800"><a href="#Obs-800"><span class="linenos">800</span></a>    <span class="k">def</span> <span class="nf">arccos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-801"><a href="#Obs-801"><span class="linenos">801</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arccos</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="Obs-802"><a href="#Obs-802"><span class="linenos">802</span></a>
+</span><span id="Obs-803"><a href="#Obs-803"><span class="linenos">803</span></a>    <span class="k">def</span> <span class="nf">arctan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-804"><a href="#Obs-804"><span class="linenos">804</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arctan</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="Obs-805"><a href="#Obs-805"><span class="linenos">805</span></a>
+</span><span id="Obs-806"><a href="#Obs-806"><span class="linenos">806</span></a>    <span class="k">def</span> <span class="nf">sinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-807"><a href="#Obs-807"><span class="linenos">807</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="Obs-808"><a href="#Obs-808"><span class="linenos">808</span></a>
+</span><span id="Obs-809"><a href="#Obs-809"><span class="linenos">809</span></a>    <span class="k">def</span> <span class="nf">cosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-810"><a href="#Obs-810"><span class="linenos">810</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+</span><span id="Obs-811"><a href="#Obs-811"><span class="linenos">811</span></a>
+</span><span id="Obs-812"><a href="#Obs-812"><span class="linenos">812</span></a>    <span class="k">def</span> <span class="nf">tanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-813"><a href="#Obs-813"><span class="linenos">813</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">tanh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
+</span><span id="Obs-814"><a href="#Obs-814"><span class="linenos">814</span></a>
+</span><span id="Obs-815"><a href="#Obs-815"><span class="linenos">815</span></a>    <span class="k">def</span> <span class="nf">arcsinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-816"><a href="#Obs-816"><span class="linenos">816</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arcsinh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="Obs-817"><a href="#Obs-817"><span class="linenos">817</span></a>
+</span><span id="Obs-818"><a href="#Obs-818"><span class="linenos">818</span></a>    <span class="k">def</span> <span class="nf">arccosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-819"><a href="#Obs-819"><span class="linenos">819</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arccosh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+</span><span id="Obs-820"><a href="#Obs-820"><span class="linenos">820</span></a>
+</span><span id="Obs-821"><a href="#Obs-821"><span class="linenos">821</span></a>    <span class="k">def</span> <span class="nf">arctanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs-822"><a href="#Obs-822"><span class="linenos">822</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arctanh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Class for a general observable.</p>
 
@@ -2746,98 +2749,98 @@ this overwrites the standard value for that ensemble.</li>
 
 
                             <div id="Obs.__init__" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.__init__">#&nbsp;&nbsp</a>
+                                        <input id="Obs.__init__-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="name">Obs</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">samples</span>, </span><span class="param"><span class="n">names</span>, </span><span class="param"><span class="n">idl</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.__init__-view-source"><span>View Source</span></label>
 
-        
-            <span class="name">Obs</span><span class="signature">(samples, names, idl=None, **kwargs)</span>
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.__init__-56"><a href="#Obs.__init__-56"><span class="linenos"> 56</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Obs.__init__-57"><a href="#Obs.__init__-57"><span class="linenos"> 57</span></a>        <span class="sd">&quot;&quot;&quot; Initialize Obs object.</span>
-</span><span id="Obs.__init__-58"><a href="#Obs.__init__-58"><span class="linenos"> 58</span></a>
-</span><span id="Obs.__init__-59"><a href="#Obs.__init__-59"><span class="linenos"> 59</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs.__init__-60"><a href="#Obs.__init__-60"><span class="linenos"> 60</span></a><span class="sd">        ----------</span>
-</span><span id="Obs.__init__-61"><a href="#Obs.__init__-61"><span class="linenos"> 61</span></a><span class="sd">        samples : list</span>
-</span><span id="Obs.__init__-62"><a href="#Obs.__init__-62"><span class="linenos"> 62</span></a><span class="sd">            list of numpy arrays containing the Monte Carlo samples</span>
-</span><span id="Obs.__init__-63"><a href="#Obs.__init__-63"><span class="linenos"> 63</span></a><span class="sd">        names : list</span>
-</span><span id="Obs.__init__-64"><a href="#Obs.__init__-64"><span class="linenos"> 64</span></a><span class="sd">            list of strings labeling the individual samples</span>
-</span><span id="Obs.__init__-65"><a href="#Obs.__init__-65"><span class="linenos"> 65</span></a><span class="sd">        idl : list, optional</span>
-</span><span id="Obs.__init__-66"><a href="#Obs.__init__-66"><span class="linenos"> 66</span></a><span class="sd">            list of ranges or lists on which the samples are defined</span>
-</span><span id="Obs.__init__-67"><a href="#Obs.__init__-67"><span class="linenos"> 67</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs.__init__-68"><a href="#Obs.__init__-68"><span class="linenos"> 68</span></a>
-</span><span id="Obs.__init__-69"><a href="#Obs.__init__-69"><span class="linenos"> 69</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">and</span> <span class="nb">len</span><span class="p">(</span><span class="n">samples</span><span class="p">):</span>
-</span><span id="Obs.__init__-70"><a href="#Obs.__init__-70"><span class="linenos"> 70</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">):</span>
-</span><span id="Obs.__init__-71"><a href="#Obs.__init__-71"><span class="linenos"> 71</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of samples and names incompatible.&#39;</span><span class="p">)</span>
-</span><span id="Obs.__init__-72"><a href="#Obs.__init__-72"><span class="linenos"> 72</span></a>            <span class="k">if</span> <span class="n">idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Obs.__init__-73"><a href="#Obs.__init__-73"><span class="linenos"> 73</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">):</span>
-</span><span id="Obs.__init__-74"><a href="#Obs.__init__-74"><span class="linenos"> 74</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of idl incompatible with samples and names.&#39;</span><span class="p">)</span>
-</span><span id="Obs.__init__-75"><a href="#Obs.__init__-75"><span class="linenos"> 75</span></a>            <span class="n">name_length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
-</span><span id="Obs.__init__-76"><a href="#Obs.__init__-76"><span class="linenos"> 76</span></a>            <span class="k">if</span> <span class="n">name_length</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs.__init__-77"><a href="#Obs.__init__-77"><span class="linenos"> 77</span></a>                <span class="k">if</span> <span class="n">name_length</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">names</span><span class="p">)):</span>
-</span><span id="Obs.__init__-78"><a href="#Obs.__init__-78"><span class="linenos"> 78</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;names are not unique.&#39;</span><span class="p">)</span>
-</span><span id="Obs.__init__-79"><a href="#Obs.__init__-79"><span class="linenos"> 79</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="nb">str</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">names</span><span class="p">):</span>
-</span><span id="Obs.__init__-80"><a href="#Obs.__init__-80"><span class="linenos"> 80</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;All names have to be strings.&#39;</span><span class="p">)</span>
-</span><span id="Obs.__init__-81"><a href="#Obs.__init__-81"><span class="linenos"> 81</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.__init__-82"><a href="#Obs.__init__-82"><span class="linenos"> 82</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">str</span><span class="p">):</span>
-</span><span id="Obs.__init__-83"><a href="#Obs.__init__-83"><span class="linenos"> 83</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;All names have to be strings.&#39;</span><span class="p">)</span>
-</span><span id="Obs.__init__-84"><a href="#Obs.__init__-84"><span class="linenos"> 84</span></a>            <span class="k">if</span> <span class="nb">min</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">samples</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mi">4</span><span class="p">:</span>
-</span><span id="Obs.__init__-85"><a href="#Obs.__init__-85"><span class="linenos"> 85</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Samples have to have at least 5 entries.&#39;</span><span class="p">)</span>
-</span><span id="Obs.__init__-86"><a href="#Obs.__init__-86"><span class="linenos"> 86</span></a>
-</span><span id="Obs.__init__-87"><a href="#Obs.__init__-87"><span class="linenos"> 87</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
-</span><span id="Obs.__init__-88"><a href="#Obs.__init__-88"><span class="linenos"> 88</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">shape</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.__init__-89"><a href="#Obs.__init__-89"><span class="linenos"> 89</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.__init__-90"><a href="#Obs.__init__-90"><span class="linenos"> 90</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.__init__-91"><a href="#Obs.__init__-91"><span class="linenos"> 91</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.__init__-92"><a href="#Obs.__init__-92"><span class="linenos"> 92</span></a>
-</span><span id="Obs.__init__-93"><a href="#Obs.__init__-93"><span class="linenos"> 93</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs.__init__-94"><a href="#Obs.__init__-94"><span class="linenos"> 94</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs.__init__-95"><a href="#Obs.__init__-95"><span class="linenos"> 95</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.__init__-96"><a href="#Obs.__init__-96"><span class="linenos"> 96</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.__init__-97"><a href="#Obs.__init__-97"><span class="linenos"> 97</span></a>        <span class="k">if</span> <span class="n">idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Obs.__init__-98"><a href="#Obs.__init__-98"><span class="linenos"> 98</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">idx</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="p">)):</span>
-</span><span id="Obs.__init__-99"><a href="#Obs.__init__-99"><span class="linenos"> 99</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="Obs.__init__-100"><a href="#Obs.__init__-100"><span class="linenos">100</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">idx</span>
-</span><span id="Obs.__init__-101"><a href="#Obs.__init__-101"><span class="linenos">101</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="p">(</span><span class="nb">list</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)):</span>
-</span><span id="Obs.__init__-102"><a href="#Obs.__init__-102"><span class="linenos">102</span></a>                    <span class="n">dc</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">idx</span><span class="p">))</span>
-</span><span id="Obs.__init__-103"><a href="#Obs.__init__-103"><span class="linenos">103</span></a>                    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">dc</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">):</span>
-</span><span id="Obs.__init__-104"><a href="#Obs.__init__-104"><span class="linenos">104</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsorted idx for idl[</span><span class="si">%s</span><span class="s2">]&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
-</span><span id="Obs.__init__-105"><a href="#Obs.__init__-105"><span class="linenos">105</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">dc</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs.__init__-106"><a href="#Obs.__init__-106"><span class="linenos">106</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">idx</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">idx</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="Obs.__init__-107"><a href="#Obs.__init__-107"><span class="linenos">107</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.__init__-108"><a href="#Obs.__init__-108"><span class="linenos">108</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
-</span><span id="Obs.__init__-109"><a href="#Obs.__init__-109"><span class="linenos">109</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.__init__-110"><a href="#Obs.__init__-110"><span class="linenos">110</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;incompatible type for idl[</span><span class="si">%s</span><span class="s1">].&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
-</span><span id="Obs.__init__-111"><a href="#Obs.__init__-111"><span class="linenos">111</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.__init__-112"><a href="#Obs.__init__-112"><span class="linenos">112</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">)):</span>
-</span><span id="Obs.__init__-113"><a href="#Obs.__init__-113"><span class="linenos">113</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs.__init__-114"><a href="#Obs.__init__-114"><span class="linenos">114</span></a>
-</span><span id="Obs.__init__-115"><a href="#Obs.__init__-115"><span class="linenos">115</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Obs.__init__-116"><a href="#Obs.__init__-116"><span class="linenos">116</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span><span class="p">,</span> <span class="n">mean</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">))):</span>
-</span><span id="Obs.__init__-117"><a href="#Obs.__init__-117"><span class="linenos">117</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="Obs.__init__-118"><a href="#Obs.__init__-118"><span class="linenos">118</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="Obs.__init__-119"><a href="#Obs.__init__-119"><span class="linenos">119</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">mean</span>
-</span><span id="Obs.__init__-120"><a href="#Obs.__init__-120"><span class="linenos">120</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">sample</span>
-</span><span id="Obs.__init__-121"><a href="#Obs.__init__-121"><span class="linenos">121</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.__init__-122"><a href="#Obs.__init__-122"><span class="linenos">122</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">)):</span>
-</span><span id="Obs.__init__-123"><a href="#Obs.__init__-123"><span class="linenos">123</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="Obs.__init__-124"><a href="#Obs.__init__-124"><span class="linenos">124</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="Obs.__init__-125"><a href="#Obs.__init__-125"><span class="linenos">125</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="Obs.__init__-126"><a href="#Obs.__init__-126"><span class="linenos">126</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Incompatible samples and idx for </span><span class="si">%s</span><span class="s1">: </span><span class="si">%d</span><span class="s1"> vs. </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
-</span><span id="Obs.__init__-127"><a href="#Obs.__init__-127"><span class="linenos">127</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span>
-</span><span id="Obs.__init__-128"><a href="#Obs.__init__-128"><span class="linenos">128</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">sample</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="Obs.__init__-129"><a href="#Obs.__init__-129"><span class="linenos">129</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="Obs.__init__-130"><a href="#Obs.__init__-130"><span class="linenos">130</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">/=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span>
-</span><span id="Obs.__init__-131"><a href="#Obs.__init__-131"><span class="linenos">131</span></a>
-</span><span id="Obs.__init__-132"><a href="#Obs.__init__-132"><span class="linenos">132</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs.__init__-133"><a href="#Obs.__init__-133"><span class="linenos">133</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs.__init__-134"><a href="#Obs.__init__-134"><span class="linenos">134</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="Obs.__init__-135"><a href="#Obs.__init__-135"><span class="linenos">135</span></a>
-</span><span id="Obs.__init__-136"><a href="#Obs.__init__-136"><span class="linenos">136</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
+    <a class="headerlink" href="#Obs.__init__"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.__init__-57"><a href="#Obs.__init__-57"><span class="linenos"> 57</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Obs.__init__-58"><a href="#Obs.__init__-58"><span class="linenos"> 58</span></a>        <span class="sd">&quot;&quot;&quot; Initialize Obs object.</span>
+</span><span id="Obs.__init__-59"><a href="#Obs.__init__-59"><span class="linenos"> 59</span></a>
+</span><span id="Obs.__init__-60"><a href="#Obs.__init__-60"><span class="linenos"> 60</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs.__init__-61"><a href="#Obs.__init__-61"><span class="linenos"> 61</span></a><span class="sd">        ----------</span>
+</span><span id="Obs.__init__-62"><a href="#Obs.__init__-62"><span class="linenos"> 62</span></a><span class="sd">        samples : list</span>
+</span><span id="Obs.__init__-63"><a href="#Obs.__init__-63"><span class="linenos"> 63</span></a><span class="sd">            list of numpy arrays containing the Monte Carlo samples</span>
+</span><span id="Obs.__init__-64"><a href="#Obs.__init__-64"><span class="linenos"> 64</span></a><span class="sd">        names : list</span>
+</span><span id="Obs.__init__-65"><a href="#Obs.__init__-65"><span class="linenos"> 65</span></a><span class="sd">            list of strings labeling the individual samples</span>
+</span><span id="Obs.__init__-66"><a href="#Obs.__init__-66"><span class="linenos"> 66</span></a><span class="sd">        idl : list, optional</span>
+</span><span id="Obs.__init__-67"><a href="#Obs.__init__-67"><span class="linenos"> 67</span></a><span class="sd">            list of ranges or lists on which the samples are defined</span>
+</span><span id="Obs.__init__-68"><a href="#Obs.__init__-68"><span class="linenos"> 68</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs.__init__-69"><a href="#Obs.__init__-69"><span class="linenos"> 69</span></a>
+</span><span id="Obs.__init__-70"><a href="#Obs.__init__-70"><span class="linenos"> 70</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">and</span> <span class="nb">len</span><span class="p">(</span><span class="n">samples</span><span class="p">):</span>
+</span><span id="Obs.__init__-71"><a href="#Obs.__init__-71"><span class="linenos"> 71</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">):</span>
+</span><span id="Obs.__init__-72"><a href="#Obs.__init__-72"><span class="linenos"> 72</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of samples and names incompatible.&#39;</span><span class="p">)</span>
+</span><span id="Obs.__init__-73"><a href="#Obs.__init__-73"><span class="linenos"> 73</span></a>            <span class="k">if</span> <span class="n">idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Obs.__init__-74"><a href="#Obs.__init__-74"><span class="linenos"> 74</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">):</span>
+</span><span id="Obs.__init__-75"><a href="#Obs.__init__-75"><span class="linenos"> 75</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Length of idl incompatible with samples and names.&#39;</span><span class="p">)</span>
+</span><span id="Obs.__init__-76"><a href="#Obs.__init__-76"><span class="linenos"> 76</span></a>            <span class="n">name_length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
+</span><span id="Obs.__init__-77"><a href="#Obs.__init__-77"><span class="linenos"> 77</span></a>            <span class="k">if</span> <span class="n">name_length</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs.__init__-78"><a href="#Obs.__init__-78"><span class="linenos"> 78</span></a>                <span class="k">if</span> <span class="n">name_length</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">names</span><span class="p">)):</span>
+</span><span id="Obs.__init__-79"><a href="#Obs.__init__-79"><span class="linenos"> 79</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;names are not unique.&#39;</span><span class="p">)</span>
+</span><span id="Obs.__init__-80"><a href="#Obs.__init__-80"><span class="linenos"> 80</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="nb">str</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">names</span><span class="p">):</span>
+</span><span id="Obs.__init__-81"><a href="#Obs.__init__-81"><span class="linenos"> 81</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;All names have to be strings.&#39;</span><span class="p">)</span>
+</span><span id="Obs.__init__-82"><a href="#Obs.__init__-82"><span class="linenos"> 82</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.__init__-83"><a href="#Obs.__init__-83"><span class="linenos"> 83</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="nb">str</span><span class="p">):</span>
+</span><span id="Obs.__init__-84"><a href="#Obs.__init__-84"><span class="linenos"> 84</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="s1">&#39;All names have to be strings.&#39;</span><span class="p">)</span>
+</span><span id="Obs.__init__-85"><a href="#Obs.__init__-85"><span class="linenos"> 85</span></a>            <span class="k">if</span> <span class="nb">min</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">samples</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="mi">4</span><span class="p">:</span>
+</span><span id="Obs.__init__-86"><a href="#Obs.__init__-86"><span class="linenos"> 86</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Samples have to have at least 5 entries.&#39;</span><span class="p">)</span>
+</span><span id="Obs.__init__-87"><a href="#Obs.__init__-87"><span class="linenos"> 87</span></a>
+</span><span id="Obs.__init__-88"><a href="#Obs.__init__-88"><span class="linenos"> 88</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
+</span><span id="Obs.__init__-89"><a href="#Obs.__init__-89"><span class="linenos"> 89</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">shape</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.__init__-90"><a href="#Obs.__init__-90"><span class="linenos"> 90</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.__init__-91"><a href="#Obs.__init__-91"><span class="linenos"> 91</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.__init__-92"><a href="#Obs.__init__-92"><span class="linenos"> 92</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.__init__-93"><a href="#Obs.__init__-93"><span class="linenos"> 93</span></a>
+</span><span id="Obs.__init__-94"><a href="#Obs.__init__-94"><span class="linenos"> 94</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs.__init__-95"><a href="#Obs.__init__-95"><span class="linenos"> 95</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs.__init__-96"><a href="#Obs.__init__-96"><span class="linenos"> 96</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.__init__-97"><a href="#Obs.__init__-97"><span class="linenos"> 97</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.__init__-98"><a href="#Obs.__init__-98"><span class="linenos"> 98</span></a>        <span class="k">if</span> <span class="n">idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Obs.__init__-99"><a href="#Obs.__init__-99"><span class="linenos"> 99</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">idx</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="p">)):</span>
+</span><span id="Obs.__init__-100"><a href="#Obs.__init__-100"><span class="linenos">100</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="Obs.__init__-101"><a href="#Obs.__init__-101"><span class="linenos">101</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">idx</span>
+</span><span id="Obs.__init__-102"><a href="#Obs.__init__-102"><span class="linenos">102</span></a>                <span class="k">elif</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">idx</span><span class="p">,</span> <span class="p">(</span><span class="nb">list</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">)):</span>
+</span><span id="Obs.__init__-103"><a href="#Obs.__init__-103"><span class="linenos">103</span></a>                    <span class="n">dc</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">idx</span><span class="p">))</span>
+</span><span id="Obs.__init__-104"><a href="#Obs.__init__-104"><span class="linenos">104</span></a>                    <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">(</span><span class="n">dc</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">):</span>
+</span><span id="Obs.__init__-105"><a href="#Obs.__init__-105"><span class="linenos">105</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unsorted idx for idl[</span><span class="si">%s</span><span class="s2">]&quot;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
+</span><span id="Obs.__init__-106"><a href="#Obs.__init__-106"><span class="linenos">106</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">dc</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs.__init__-107"><a href="#Obs.__init__-107"><span class="linenos">107</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="n">idx</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">idx</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">dc</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="Obs.__init__-108"><a href="#Obs.__init__-108"><span class="linenos">108</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.__init__-109"><a href="#Obs.__init__-109"><span class="linenos">109</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span>
+</span><span id="Obs.__init__-110"><a href="#Obs.__init__-110"><span class="linenos">110</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.__init__-111"><a href="#Obs.__init__-111"><span class="linenos">111</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;incompatible type for idl[</span><span class="si">%s</span><span class="s1">].&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
+</span><span id="Obs.__init__-112"><a href="#Obs.__init__-112"><span class="linenos">112</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.__init__-113"><a href="#Obs.__init__-113"><span class="linenos">113</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">)):</span>
+</span><span id="Obs.__init__-114"><a href="#Obs.__init__-114"><span class="linenos">114</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs.__init__-115"><a href="#Obs.__init__-115"><span class="linenos">115</span></a>
+</span><span id="Obs.__init__-116"><a href="#Obs.__init__-116"><span class="linenos">116</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">)</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Obs.__init__-117"><a href="#Obs.__init__-117"><span class="linenos">117</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span><span class="p">,</span> <span class="n">mean</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">,</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;means&quot;</span><span class="p">))):</span>
+</span><span id="Obs.__init__-118"><a href="#Obs.__init__-118"><span class="linenos">118</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="Obs.__init__-119"><a href="#Obs.__init__-119"><span class="linenos">119</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="Obs.__init__-120"><a href="#Obs.__init__-120"><span class="linenos">120</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">mean</span>
+</span><span id="Obs.__init__-121"><a href="#Obs.__init__-121"><span class="linenos">121</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">sample</span>
+</span><span id="Obs.__init__-122"><a href="#Obs.__init__-122"><span class="linenos">122</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.__init__-123"><a href="#Obs.__init__-123"><span class="linenos">123</span></a>            <span class="k">for</span> <span class="n">name</span><span class="p">,</span> <span class="n">sample</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="n">names</span><span class="p">,</span> <span class="n">samples</span><span class="p">)):</span>
+</span><span id="Obs.__init__-124"><a href="#Obs.__init__-124"><span class="linenos">124</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="Obs.__init__-125"><a href="#Obs.__init__-125"><span class="linenos">125</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">N</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="Obs.__init__-126"><a href="#Obs.__init__-126"><span class="linenos">126</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span> <span class="o">!=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="Obs.__init__-127"><a href="#Obs.__init__-127"><span class="linenos">127</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Incompatible samples and idx for </span><span class="si">%s</span><span class="s1">: </span><span class="si">%d</span><span class="s1"> vs. </span><span class="si">%d</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">sample</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
+</span><span id="Obs.__init__-128"><a href="#Obs.__init__-128"><span class="linenos">128</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">sample</span><span class="p">)</span>
+</span><span id="Obs.__init__-129"><a href="#Obs.__init__-129"><span class="linenos">129</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">sample</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="Obs.__init__-130"><a href="#Obs.__init__-130"><span class="linenos">130</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="Obs.__init__-131"><a href="#Obs.__init__-131"><span class="linenos">131</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_value</span> <span class="o">/=</span> <span class="bp">self</span><span class="o">.</span><span class="n">N</span>
+</span><span id="Obs.__init__-132"><a href="#Obs.__init__-132"><span class="linenos">132</span></a>
+</span><span id="Obs.__init__-133"><a href="#Obs.__init__-133"><span class="linenos">133</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs.__init__-134"><a href="#Obs.__init__-134"><span class="linenos">134</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs.__init__-135"><a href="#Obs.__init__-135"><span class="linenos">135</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="Obs.__init__-136"><a href="#Obs.__init__-136"><span class="linenos">136</span></a>
+</span><span id="Obs.__init__-137"><a href="#Obs.__init__-137"><span class="linenos">137</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Initialize Obs object.</p>
 
@@ -2856,419 +2859,443 @@ list of ranges or lists on which the samples are defined</li>
 
                             </div>
                             <div id="Obs.S_global" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.S_global">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">S_global</span><span class="default_value"> = 2.0</span>
 
-        <span class="name">S_global</span><span class="default_value"> = 2.0</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.S_global"></a>
     
     
 
                             </div>
                             <div id="Obs.S_dict" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.S_dict">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">S_dict</span><span class="default_value"> = {}</span>
 
-        <span class="name">S_dict</span><span class="default_value"> = {}</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.S_dict"></a>
     
     
 
                             </div>
                             <div id="Obs.tau_exp_global" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.tau_exp_global">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">tau_exp_global</span><span class="default_value"> = 0.0</span>
 
-        <span class="name">tau_exp_global</span><span class="default_value"> = 0.0</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.tau_exp_global"></a>
     
     
 
                             </div>
                             <div id="Obs.tau_exp_dict" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.tau_exp_dict">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">tau_exp_dict</span><span class="default_value"> = {}</span>
 
-        <span class="name">tau_exp_dict</span><span class="default_value"> = {}</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.tau_exp_dict"></a>
     
     
 
                             </div>
                             <div id="Obs.N_sigma_global" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.N_sigma_global">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">N_sigma_global</span><span class="default_value"> = 1.0</span>
 
-        <span class="name">N_sigma_global</span><span class="default_value"> = 1.0</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.N_sigma_global"></a>
     
     
 
                             </div>
                             <div id="Obs.N_sigma_dict" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.N_sigma_dict">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">N_sigma_dict</span><span class="default_value"> = {}</span>
 
-        <span class="name">N_sigma_dict</span><span class="default_value"> = {}</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.N_sigma_dict"></a>
     
     
 
                             </div>
                             <div id="Obs.filter_eps" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.filter_eps">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">filter_eps</span><span class="default_value"> = 1e-10</span>
 
-        <span class="name">filter_eps</span><span class="default_value"> = 1e-10</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.filter_eps"></a>
     
     
 
                             </div>
                             <div id="Obs.names" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.names">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">names</span>
 
-        <span class="name">names</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.names"></a>
     
     
 
                             </div>
                             <div id="Obs.shape" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.shape">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">shape</span>
 
-        <span class="name">shape</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.shape"></a>
     
     
 
                             </div>
                             <div id="Obs.r_values" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.r_values">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">r_values</span>
 
-        <span class="name">r_values</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.r_values"></a>
     
     
 
                             </div>
                             <div id="Obs.deltas" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.deltas">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">deltas</span>
 
-        <span class="name">deltas</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.deltas"></a>
     
     
 
                             </div>
                             <div id="Obs.N" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.N">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">N</span>
 
-        <span class="name">N</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.N"></a>
     
     
 
                             </div>
                             <div id="Obs.is_merged" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.is_merged">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">is_merged</span>
 
-        <span class="name">is_merged</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.is_merged"></a>
     
     
 
                             </div>
                             <div id="Obs.idl" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.idl">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">idl</span>
 
-        <span class="name">idl</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.idl"></a>
     
     
 
                             </div>
                             <div id="Obs.ddvalue" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.ddvalue">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">ddvalue</span>
 
-        <span class="name">ddvalue</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.ddvalue"></a>
     
     
 
                             </div>
                             <div id="Obs.reweighted" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.reweighted">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">reweighted</span>
 
-        <span class="name">reweighted</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.reweighted"></a>
     
     
 
                             </div>
                             <div id="Obs.tag" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.tag">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">tag</span>
 
-        <span class="name">tag</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.tag"></a>
     
     
 
                             </div>
                             <div id="Obs.value" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.value">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">value</span>
 
-        <span class="name">value</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.value"></a>
     
     
 
                             </div>
                             <div id="Obs.dvalue" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.dvalue">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">dvalue</span>
 
-        <span class="name">dvalue</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.dvalue"></a>
     
     
 
                             </div>
                             <div id="Obs.e_names" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.e_names">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">e_names</span>
 
-        <span class="name">e_names</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.e_names"></a>
     
     
 
                             </div>
                             <div id="Obs.cov_names" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.cov_names">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">cov_names</span>
 
-        <span class="name">cov_names</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.cov_names"></a>
     
     
 
                             </div>
                             <div id="Obs.mc_names" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.mc_names">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">mc_names</span>
 
-        <span class="name">mc_names</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.mc_names"></a>
     
     
 
                             </div>
                             <div id="Obs.e_content" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.e_content">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">e_content</span>
 
-        <span class="name">e_content</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.e_content"></a>
     
     
 
                             </div>
                             <div id="Obs.covobs" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.covobs">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">covobs</span>
 
-        <span class="name">covobs</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.covobs"></a>
     
     
 
                             </div>
                             <div id="Obs.gamma_method" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.gamma_method">#&nbsp;&nbsp</a>
+                                        <input id="Obs.gamma_method-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">gamma_method</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.gamma_method-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">gamma_method</span><span class="signature">(self, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.gamma_method-171"><a href="#Obs.gamma_method-171"><span class="linenos">171</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Obs.gamma_method-172"><a href="#Obs.gamma_method-172"><span class="linenos">172</span></a>        <span class="sd">&quot;&quot;&quot;Estimate the error and related properties of the Obs.</span>
-</span><span id="Obs.gamma_method-173"><a href="#Obs.gamma_method-173"><span class="linenos">173</span></a>
-</span><span id="Obs.gamma_method-174"><a href="#Obs.gamma_method-174"><span class="linenos">174</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs.gamma_method-175"><a href="#Obs.gamma_method-175"><span class="linenos">175</span></a><span class="sd">        ----------</span>
-</span><span id="Obs.gamma_method-176"><a href="#Obs.gamma_method-176"><span class="linenos">176</span></a><span class="sd">        S : float</span>
-</span><span id="Obs.gamma_method-177"><a href="#Obs.gamma_method-177"><span class="linenos">177</span></a><span class="sd">            specifies a custom value for the parameter S (default 2.0).</span>
-</span><span id="Obs.gamma_method-178"><a href="#Obs.gamma_method-178"><span class="linenos">178</span></a><span class="sd">            If set to 0 it is assumed that the data exhibits no</span>
-</span><span id="Obs.gamma_method-179"><a href="#Obs.gamma_method-179"><span class="linenos">179</span></a><span class="sd">            autocorrelation. In this case the error estimates coincides</span>
-</span><span id="Obs.gamma_method-180"><a href="#Obs.gamma_method-180"><span class="linenos">180</span></a><span class="sd">            with the sample standard error.</span>
-</span><span id="Obs.gamma_method-181"><a href="#Obs.gamma_method-181"><span class="linenos">181</span></a><span class="sd">        tau_exp : float</span>
-</span><span id="Obs.gamma_method-182"><a href="#Obs.gamma_method-182"><span class="linenos">182</span></a><span class="sd">            positive value triggers the critical slowing down analysis</span>
-</span><span id="Obs.gamma_method-183"><a href="#Obs.gamma_method-183"><span class="linenos">183</span></a><span class="sd">            (default 0.0).</span>
-</span><span id="Obs.gamma_method-184"><a href="#Obs.gamma_method-184"><span class="linenos">184</span></a><span class="sd">        N_sigma : float</span>
-</span><span id="Obs.gamma_method-185"><a href="#Obs.gamma_method-185"><span class="linenos">185</span></a><span class="sd">            number of standard deviations from zero until the tail is</span>
-</span><span id="Obs.gamma_method-186"><a href="#Obs.gamma_method-186"><span class="linenos">186</span></a><span class="sd">            attached to the autocorrelation function (default 1).</span>
-</span><span id="Obs.gamma_method-187"><a href="#Obs.gamma_method-187"><span class="linenos">187</span></a><span class="sd">        fft : bool</span>
-</span><span id="Obs.gamma_method-188"><a href="#Obs.gamma_method-188"><span class="linenos">188</span></a><span class="sd">            determines whether the fft algorithm is used for the computation</span>
-</span><span id="Obs.gamma_method-189"><a href="#Obs.gamma_method-189"><span class="linenos">189</span></a><span class="sd">            of the autocorrelation function (default True)</span>
-</span><span id="Obs.gamma_method-190"><a href="#Obs.gamma_method-190"><span class="linenos">190</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs.gamma_method-191"><a href="#Obs.gamma_method-191"><span class="linenos">191</span></a>
-</span><span id="Obs.gamma_method-192"><a href="#Obs.gamma_method-192"><span class="linenos">192</span></a>        <span class="n">e_content</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_content</span>
-</span><span id="Obs.gamma_method-193"><a href="#Obs.gamma_method-193"><span class="linenos">193</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-194"><a href="#Obs.gamma_method-194"><span class="linenos">194</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-195"><a href="#Obs.gamma_method-195"><span class="linenos">195</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-196"><a href="#Obs.gamma_method-196"><span class="linenos">196</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-197"><a href="#Obs.gamma_method-197"><span class="linenos">197</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-198"><a href="#Obs.gamma_method-198"><span class="linenos">198</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-199"><a href="#Obs.gamma_method-199"><span class="linenos">199</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-200"><a href="#Obs.gamma_method-200"><span class="linenos">200</span></a>        <span class="n">e_gamma</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-201"><a href="#Obs.gamma_method-201"><span class="linenos">201</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-202"><a href="#Obs.gamma_method-202"><span class="linenos">202</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-203"><a href="#Obs.gamma_method-203"><span class="linenos">203</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs.gamma_method-204"><a href="#Obs.gamma_method-204"><span class="linenos">204</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs.gamma_method-205"><a href="#Obs.gamma_method-205"><span class="linenos">205</span></a>
-</span><span id="Obs.gamma_method-206"><a href="#Obs.gamma_method-206"><span class="linenos">206</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">S</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-207"><a href="#Obs.gamma_method-207"><span class="linenos">207</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-208"><a href="#Obs.gamma_method-208"><span class="linenos">208</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="Obs.gamma_method-209"><a href="#Obs.gamma_method-209"><span class="linenos">209</span></a>
-</span><span id="Obs.gamma_method-210"><a href="#Obs.gamma_method-210"><span class="linenos">210</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;fft&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">False</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-211"><a href="#Obs.gamma_method-211"><span class="linenos">211</span></a>            <span class="n">fft</span> <span class="o">=</span> <span class="kc">False</span>
-</span><span id="Obs.gamma_method-212"><a href="#Obs.gamma_method-212"><span class="linenos">212</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-213"><a href="#Obs.gamma_method-213"><span class="linenos">213</span></a>            <span class="n">fft</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="Obs.gamma_method-214"><a href="#Obs.gamma_method-214"><span class="linenos">214</span></a>
-</span><span id="Obs.gamma_method-215"><a href="#Obs.gamma_method-215"><span class="linenos">215</span></a>        <span class="k">def</span> <span class="nf">_parse_kwarg</span><span class="p">(</span><span class="n">kwarg_name</span><span class="p">):</span>
-</span><span id="Obs.gamma_method-216"><a href="#Obs.gamma_method-216"><span class="linenos">216</span></a>            <span class="k">if</span> <span class="n">kwarg_name</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-217"><a href="#Obs.gamma_method-217"><span class="linenos">217</span></a>                <span class="n">tmp</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">kwarg_name</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-218"><a href="#Obs.gamma_method-218"><span class="linenos">218</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
-</span><span id="Obs.gamma_method-219"><a href="#Obs.gamma_method-219"><span class="linenos">219</span></a>                    <span class="k">if</span> <span class="n">tmp</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-220"><a href="#Obs.gamma_method-220"><span class="linenos">220</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39; has to be larger or equal to 0.&#39;</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-221"><a href="#Obs.gamma_method-221"><span class="linenos">221</span></a>                    <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
-</span><span id="Obs.gamma_method-222"><a href="#Obs.gamma_method-222"><span class="linenos">222</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">tmp</span>
-</span><span id="Obs.gamma_method-223"><a href="#Obs.gamma_method-223"><span class="linenos">223</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-224"><a href="#Obs.gamma_method-224"><span class="linenos">224</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39; is not in proper format.&#39;</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-225"><a href="#Obs.gamma_method-225"><span class="linenos">225</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-226"><a href="#Obs.gamma_method-226"><span class="linenos">226</span></a>                <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
-</span><span id="Obs.gamma_method-227"><a href="#Obs.gamma_method-227"><span class="linenos">227</span></a>                    <span class="k">if</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_dict&#39;</span><span class="p">):</span>
-</span><span id="Obs.gamma_method-228"><a href="#Obs.gamma_method-228"><span class="linenos">228</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_dict&#39;</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span>
-</span><span id="Obs.gamma_method-229"><a href="#Obs.gamma_method-229"><span class="linenos">229</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-230"><a href="#Obs.gamma_method-230"><span class="linenos">230</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_global&#39;</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-231"><a href="#Obs.gamma_method-231"><span class="linenos">231</span></a>
-</span><span id="Obs.gamma_method-232"><a href="#Obs.gamma_method-232"><span class="linenos">232</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;S&#39;</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-233"><a href="#Obs.gamma_method-233"><span class="linenos">233</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;tau_exp&#39;</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-234"><a href="#Obs.gamma_method-234"><span class="linenos">234</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;N_sigma&#39;</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-235"><a href="#Obs.gamma_method-235"><span class="linenos">235</span></a>
-</span><span id="Obs.gamma_method-236"><a href="#Obs.gamma_method-236"><span class="linenos">236</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="Obs.gamma_method-237"><a href="#Obs.gamma_method-237"><span class="linenos">237</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs.gamma_method-238"><a href="#Obs.gamma_method-238"><span class="linenos">238</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="Obs.gamma_method-239"><a href="#Obs.gamma_method-239"><span class="linenos">239</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="Obs.gamma_method-240"><a href="#Obs.gamma_method-240"><span class="linenos">240</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
-</span><span id="Obs.gamma_method-241"><a href="#Obs.gamma_method-241"><span class="linenos">241</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-242"><a href="#Obs.gamma_method-242"><span class="linenos">242</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="Obs.gamma_method-243"><a href="#Obs.gamma_method-243"><span class="linenos">243</span></a>
-</span><span id="Obs.gamma_method-244"><a href="#Obs.gamma_method-244"><span class="linenos">244</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]])</span>
-</span><span id="Obs.gamma_method-245"><a href="#Obs.gamma_method-245"><span class="linenos">245</span></a>            <span class="n">w_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span> <span class="o">//</span> <span class="mi">2</span>
-</span><span id="Obs.gamma_method-246"><a href="#Obs.gamma_method-246"><span class="linenos">246</span></a>            <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-247"><a href="#Obs.gamma_method-247"><span class="linenos">247</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-248"><a href="#Obs.gamma_method-248"><span class="linenos">248</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-249"><a href="#Obs.gamma_method-249"><span class="linenos">249</span></a>
-</span><span id="Obs.gamma_method-250"><a href="#Obs.gamma_method-250"><span class="linenos">250</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="Obs.gamma_method-251"><a href="#Obs.gamma_method-251"><span class="linenos">251</span></a>                <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_calc_gamma</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-252"><a href="#Obs.gamma_method-252"><span class="linenos">252</span></a>
-</span><span id="Obs.gamma_method-253"><a href="#Obs.gamma_method-253"><span class="linenos">253</span></a>            <span class="n">gamma_div</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-254"><a href="#Obs.gamma_method-254"><span class="linenos">254</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
-</span><span id="Obs.gamma_method-255"><a href="#Obs.gamma_method-255"><span class="linenos">255</span></a>                <span class="n">gamma_div</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_calc_gamma</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">])),</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-256"><a href="#Obs.gamma_method-256"><span class="linenos">256</span></a>            <span class="n">gamma_div</span><span class="p">[</span><span class="n">gamma_div</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.0</span>
-</span><span id="Obs.gamma_method-257"><a href="#Obs.gamma_method-257"><span class="linenos">257</span></a>            <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">/=</span> <span class="n">gamma_div</span><span class="p">[:</span><span class="n">w_max</span><span class="p">]</span>
-</span><span id="Obs.gamma_method-258"><a href="#Obs.gamma_method-258"><span class="linenos">258</span></a>
-</span><span id="Obs.gamma_method-259"><a href="#Obs.gamma_method-259"><span class="linenos">259</span></a>            <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span> <span class="o">&lt;</span> <span class="mi">10</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="nb">float</span><span class="p">)</span><span class="o">.</span><span class="n">tiny</span><span class="p">:</span>  <span class="c1"># Prevent division by zero</span>
-</span><span id="Obs.gamma_method-260"><a href="#Obs.gamma_method-260"><span class="linenos">260</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span>
-</span><span id="Obs.gamma_method-261"><a href="#Obs.gamma_method-261"><span class="linenos">261</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs.gamma_method-262"><a href="#Obs.gamma_method-262"><span class="linenos">262</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs.gamma_method-263"><a href="#Obs.gamma_method-263"><span class="linenos">263</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs.gamma_method-264"><a href="#Obs.gamma_method-264"><span class="linenos">264</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs.gamma_method-265"><a href="#Obs.gamma_method-265"><span class="linenos">265</span></a>                <span class="k">continue</span>
-</span><span id="Obs.gamma_method-266"><a href="#Obs.gamma_method-266"><span class="linenos">266</span></a>
-</span><span id="Obs.gamma_method-267"><a href="#Obs.gamma_method-267"><span class="linenos">267</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="n">w_max</span><span class="p">]</span> <span class="o">/</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Obs.gamma_method-268"><a href="#Obs.gamma_method-268"><span class="linenos">268</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">cumsum</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(([</span><span class="mf">0.5</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:])))</span>
-</span><span id="Obs.gamma_method-269"><a href="#Obs.gamma_method-269"><span class="linenos">269</span></a>            <span class="c1"># Make sure no entry of tauint is smaller than 0.5</span>
-</span><span id="Obs.gamma_method-270"><a href="#Obs.gamma_method-270"><span class="linenos">270</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="mf">0.5</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span>
-</span><span id="Obs.gamma_method-271"><a href="#Obs.gamma_method-271"><span class="linenos">271</span></a>            <span class="c1"># hep-lat/0306017 eq. (42)</span>
-</span><span id="Obs.gamma_method-272"><a href="#Obs.gamma_method-272"><span class="linenos">272</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span> <span class="o">+</span> <span class="mf">0.5</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-273"><a href="#Obs.gamma_method-273"><span class="linenos">273</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs.gamma_method-274"><a href="#Obs.gamma_method-274"><span class="linenos">274</span></a>
-</span><span id="Obs.gamma_method-275"><a href="#Obs.gamma_method-275"><span class="linenos">275</span></a>            <span class="k">def</span> <span class="nf">_compute_drho</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
-</span><span id="Obs.gamma_method-276"><a href="#Obs.gamma_method-276"><span class="linenos">276</span></a>                <span class="n">tmp</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span><span class="n">w_max</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">::</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:</span><span class="n">w_max</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">i</span><span class="p">]])</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:</span><span class="n">w_max</span> <span class="o">-</span> <span class="n">i</span><span class="p">]</span>
-</span><span id="Obs.gamma_method-277"><a href="#Obs.gamma_method-277"><span class="linenos">277</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">tmp</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-278"><a href="#Obs.gamma_method-278"><span class="linenos">278</span></a>
-</span><span id="Obs.gamma_method-279"><a href="#Obs.gamma_method-279"><span class="linenos">279</span></a>            <span class="n">_compute_drho</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-280"><a href="#Obs.gamma_method-280"><span class="linenos">280</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-281"><a href="#Obs.gamma_method-281"><span class="linenos">281</span></a>                <span class="n">texp</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span>
-</span><span id="Obs.gamma_method-282"><a href="#Obs.gamma_method-282"><span class="linenos">282</span></a>                <span class="c1"># Critical slowing down analysis</span>
-</span><span id="Obs.gamma_method-283"><a href="#Obs.gamma_method-283"><span class="linenos">283</span></a>                <span class="k">if</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">&lt;=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-284"><a href="#Obs.gamma_method-284"><span class="linenos">284</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Need at least 8 samples for tau_exp error analysis&quot;</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-285"><a href="#Obs.gamma_method-285"><span class="linenos">285</span></a>                <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span><span class="p">):</span>
-</span><span id="Obs.gamma_method-286"><a href="#Obs.gamma_method-286"><span class="linenos">286</span></a>                    <span class="n">_compute_drho</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-287"><a href="#Obs.gamma_method-287"><span class="linenos">287</span></a>                    <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">])</span> <span class="o">&lt;</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-288"><a href="#Obs.gamma_method-288"><span class="linenos">288</span></a>                        <span class="c1"># Bias correction hep-lat/0306017 eq. (49) included</span>
-</span><span id="Obs.gamma_method-289"><a href="#Obs.gamma_method-289"><span class="linenos">289</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">+</span> <span class="n">texp</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span>  <span class="c1"># The absolute makes sure, that the tail contribution is always positive</span>
-</span><span id="Obs.gamma_method-290"><a href="#Obs.gamma_method-290"><span class="linenos">290</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">texp</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-291"><a href="#Obs.gamma_method-291"><span class="linenos">291</span></a>                        <span class="c1"># Error of tau_exp neglected so far, missing term: self.e_rho[e_name][n + 1] ** 2 * d_tau_exp ** 2</span>
-</span><span id="Obs.gamma_method-292"><a href="#Obs.gamma_method-292"><span class="linenos">292</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-293"><a href="#Obs.gamma_method-293"><span class="linenos">293</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">n</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-294"><a href="#Obs.gamma_method-294"><span class="linenos">294</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">n</span>
-</span><span id="Obs.gamma_method-295"><a href="#Obs.gamma_method-295"><span class="linenos">295</span></a>                        <span class="k">break</span>
-</span><span id="Obs.gamma_method-296"><a href="#Obs.gamma_method-296"><span class="linenos">296</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-297"><a href="#Obs.gamma_method-297"><span class="linenos">297</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-298"><a href="#Obs.gamma_method-298"><span class="linenos">298</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span>
-</span><span id="Obs.gamma_method-299"><a href="#Obs.gamma_method-299"><span class="linenos">299</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs.gamma_method-300"><a href="#Obs.gamma_method-300"><span class="linenos">300</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="p">(</span><span class="n">e_N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="Obs.gamma_method-301"><a href="#Obs.gamma_method-301"><span class="linenos">301</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-302"><a href="#Obs.gamma_method-302"><span class="linenos">302</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs.gamma_method-303"><a href="#Obs.gamma_method-303"><span class="linenos">303</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-304"><a href="#Obs.gamma_method-304"><span class="linenos">304</span></a>                    <span class="c1"># Standard automatic windowing procedure</span>
-</span><span id="Obs.gamma_method-305"><a href="#Obs.gamma_method-305"><span class="linenos">305</span></a>                    <span class="n">tau</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">((</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="Obs.gamma_method-306"><a href="#Obs.gamma_method-306"><span class="linenos">306</span></a>                    <span class="n">g_w</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span> <span class="o">/</span> <span class="n">tau</span><span class="p">)</span> <span class="o">-</span> <span class="n">tau</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span> <span class="o">*</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-307"><a href="#Obs.gamma_method-307"><span class="linenos">307</span></a>                    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">):</span>
-</span><span id="Obs.gamma_method-308"><a href="#Obs.gamma_method-308"><span class="linenos">308</span></a>                        <span class="k">if</span> <span class="n">n</span> <span class="o">&lt;</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-309"><a href="#Obs.gamma_method-309"><span class="linenos">309</span></a>                            <span class="n">_compute_drho</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-310"><a href="#Obs.gamma_method-310"><span class="linenos">310</span></a>                        <span class="k">if</span> <span class="n">g_w</span><span class="p">[</span><span class="n">n</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">&lt;</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="n">w_max</span> <span class="o">-</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-311"><a href="#Obs.gamma_method-311"><span class="linenos">311</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>  <span class="c1"># Bias correction hep-lat/0306017 eq. (49)</span>
-</span><span id="Obs.gamma_method-312"><a href="#Obs.gamma_method-312"><span class="linenos">312</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span>
-</span><span id="Obs.gamma_method-313"><a href="#Obs.gamma_method-313"><span class="linenos">313</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-314"><a href="#Obs.gamma_method-314"><span class="linenos">314</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">n</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-315"><a href="#Obs.gamma_method-315"><span class="linenos">315</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">n</span>
-</span><span id="Obs.gamma_method-316"><a href="#Obs.gamma_method-316"><span class="linenos">316</span></a>                            <span class="k">break</span>
-</span><span id="Obs.gamma_method-317"><a href="#Obs.gamma_method-317"><span class="linenos">317</span></a>
-</span><span id="Obs.gamma_method-318"><a href="#Obs.gamma_method-318"><span class="linenos">318</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="Obs.gamma_method-319"><a href="#Obs.gamma_method-319"><span class="linenos">319</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">+=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="Obs.gamma_method-320"><a href="#Obs.gamma_method-320"><span class="linenos">320</span></a>
-</span><span id="Obs.gamma_method-321"><a href="#Obs.gamma_method-321"><span class="linenos">321</span></a>        <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-322"><a href="#Obs.gamma_method-322"><span class="linenos">322</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">errsq</span><span class="p">())</span>
-</span><span id="Obs.gamma_method-323"><a href="#Obs.gamma_method-323"><span class="linenos">323</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs.gamma_method-324"><a href="#Obs.gamma_method-324"><span class="linenos">324</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">**</span><span class="mi">2</span>
-</span><span id="Obs.gamma_method-325"><a href="#Obs.gamma_method-325"><span class="linenos">325</span></a>
-</span><span id="Obs.gamma_method-326"><a href="#Obs.gamma_method-326"><span class="linenos">326</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
-</span><span id="Obs.gamma_method-327"><a href="#Obs.gamma_method-327"><span class="linenos">327</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-328"><a href="#Obs.gamma_method-328"><span class="linenos">328</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
-</span><span id="Obs.gamma_method-329"><a href="#Obs.gamma_method-329"><span class="linenos">329</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.gamma_method-330"><a href="#Obs.gamma_method-330"><span class="linenos">330</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span><span class="p">)</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
-</span><span id="Obs.gamma_method-331"><a href="#Obs.gamma_method-331"><span class="linenos">331</span></a>        <span class="k">return</span>
+    <a class="headerlink" href="#Obs.gamma_method"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.gamma_method-172"><a href="#Obs.gamma_method-172"><span class="linenos">172</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Obs.gamma_method-173"><a href="#Obs.gamma_method-173"><span class="linenos">173</span></a>        <span class="sd">&quot;&quot;&quot;Estimate the error and related properties of the Obs.</span>
+</span><span id="Obs.gamma_method-174"><a href="#Obs.gamma_method-174"><span class="linenos">174</span></a>
+</span><span id="Obs.gamma_method-175"><a href="#Obs.gamma_method-175"><span class="linenos">175</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs.gamma_method-176"><a href="#Obs.gamma_method-176"><span class="linenos">176</span></a><span class="sd">        ----------</span>
+</span><span id="Obs.gamma_method-177"><a href="#Obs.gamma_method-177"><span class="linenos">177</span></a><span class="sd">        S : float</span>
+</span><span id="Obs.gamma_method-178"><a href="#Obs.gamma_method-178"><span class="linenos">178</span></a><span class="sd">            specifies a custom value for the parameter S (default 2.0).</span>
+</span><span id="Obs.gamma_method-179"><a href="#Obs.gamma_method-179"><span class="linenos">179</span></a><span class="sd">            If set to 0 it is assumed that the data exhibits no</span>
+</span><span id="Obs.gamma_method-180"><a href="#Obs.gamma_method-180"><span class="linenos">180</span></a><span class="sd">            autocorrelation. In this case the error estimates coincides</span>
+</span><span id="Obs.gamma_method-181"><a href="#Obs.gamma_method-181"><span class="linenos">181</span></a><span class="sd">            with the sample standard error.</span>
+</span><span id="Obs.gamma_method-182"><a href="#Obs.gamma_method-182"><span class="linenos">182</span></a><span class="sd">        tau_exp : float</span>
+</span><span id="Obs.gamma_method-183"><a href="#Obs.gamma_method-183"><span class="linenos">183</span></a><span class="sd">            positive value triggers the critical slowing down analysis</span>
+</span><span id="Obs.gamma_method-184"><a href="#Obs.gamma_method-184"><span class="linenos">184</span></a><span class="sd">            (default 0.0).</span>
+</span><span id="Obs.gamma_method-185"><a href="#Obs.gamma_method-185"><span class="linenos">185</span></a><span class="sd">        N_sigma : float</span>
+</span><span id="Obs.gamma_method-186"><a href="#Obs.gamma_method-186"><span class="linenos">186</span></a><span class="sd">            number of standard deviations from zero until the tail is</span>
+</span><span id="Obs.gamma_method-187"><a href="#Obs.gamma_method-187"><span class="linenos">187</span></a><span class="sd">            attached to the autocorrelation function (default 1).</span>
+</span><span id="Obs.gamma_method-188"><a href="#Obs.gamma_method-188"><span class="linenos">188</span></a><span class="sd">        fft : bool</span>
+</span><span id="Obs.gamma_method-189"><a href="#Obs.gamma_method-189"><span class="linenos">189</span></a><span class="sd">            determines whether the fft algorithm is used for the computation</span>
+</span><span id="Obs.gamma_method-190"><a href="#Obs.gamma_method-190"><span class="linenos">190</span></a><span class="sd">            of the autocorrelation function (default True)</span>
+</span><span id="Obs.gamma_method-191"><a href="#Obs.gamma_method-191"><span class="linenos">191</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs.gamma_method-192"><a href="#Obs.gamma_method-192"><span class="linenos">192</span></a>
+</span><span id="Obs.gamma_method-193"><a href="#Obs.gamma_method-193"><span class="linenos">193</span></a>        <span class="n">e_content</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_content</span>
+</span><span id="Obs.gamma_method-194"><a href="#Obs.gamma_method-194"><span class="linenos">194</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-195"><a href="#Obs.gamma_method-195"><span class="linenos">195</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-196"><a href="#Obs.gamma_method-196"><span class="linenos">196</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-197"><a href="#Obs.gamma_method-197"><span class="linenos">197</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-198"><a href="#Obs.gamma_method-198"><span class="linenos">198</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-199"><a href="#Obs.gamma_method-199"><span class="linenos">199</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-200"><a href="#Obs.gamma_method-200"><span class="linenos">200</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-201"><a href="#Obs.gamma_method-201"><span class="linenos">201</span></a>        <span class="n">e_gamma</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-202"><a href="#Obs.gamma_method-202"><span class="linenos">202</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-203"><a href="#Obs.gamma_method-203"><span class="linenos">203</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-204"><a href="#Obs.gamma_method-204"><span class="linenos">204</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs.gamma_method-205"><a href="#Obs.gamma_method-205"><span class="linenos">205</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs.gamma_method-206"><a href="#Obs.gamma_method-206"><span class="linenos">206</span></a>
+</span><span id="Obs.gamma_method-207"><a href="#Obs.gamma_method-207"><span class="linenos">207</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">S</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-208"><a href="#Obs.gamma_method-208"><span class="linenos">208</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-209"><a href="#Obs.gamma_method-209"><span class="linenos">209</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="Obs.gamma_method-210"><a href="#Obs.gamma_method-210"><span class="linenos">210</span></a>
+</span><span id="Obs.gamma_method-211"><a href="#Obs.gamma_method-211"><span class="linenos">211</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;fft&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">False</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-212"><a href="#Obs.gamma_method-212"><span class="linenos">212</span></a>            <span class="n">fft</span> <span class="o">=</span> <span class="kc">False</span>
+</span><span id="Obs.gamma_method-213"><a href="#Obs.gamma_method-213"><span class="linenos">213</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-214"><a href="#Obs.gamma_method-214"><span class="linenos">214</span></a>            <span class="n">fft</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="Obs.gamma_method-215"><a href="#Obs.gamma_method-215"><span class="linenos">215</span></a>
+</span><span id="Obs.gamma_method-216"><a href="#Obs.gamma_method-216"><span class="linenos">216</span></a>        <span class="k">def</span> <span class="nf">_parse_kwarg</span><span class="p">(</span><span class="n">kwarg_name</span><span class="p">):</span>
+</span><span id="Obs.gamma_method-217"><a href="#Obs.gamma_method-217"><span class="linenos">217</span></a>            <span class="k">if</span> <span class="n">kwarg_name</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-218"><a href="#Obs.gamma_method-218"><span class="linenos">218</span></a>                <span class="n">tmp</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">kwarg_name</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-219"><a href="#Obs.gamma_method-219"><span class="linenos">219</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
+</span><span id="Obs.gamma_method-220"><a href="#Obs.gamma_method-220"><span class="linenos">220</span></a>                    <span class="k">if</span> <span class="n">tmp</span> <span class="o">&lt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-221"><a href="#Obs.gamma_method-221"><span class="linenos">221</span></a>                        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39; has to be larger or equal to 0.&#39;</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-222"><a href="#Obs.gamma_method-222"><span class="linenos">222</span></a>                    <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
+</span><span id="Obs.gamma_method-223"><a href="#Obs.gamma_method-223"><span class="linenos">223</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">tmp</span>
+</span><span id="Obs.gamma_method-224"><a href="#Obs.gamma_method-224"><span class="linenos">224</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-225"><a href="#Obs.gamma_method-225"><span class="linenos">225</span></a>                    <span class="k">raise</span> <span class="ne">TypeError</span><span class="p">(</span><span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39; is not in proper format.&#39;</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-226"><a href="#Obs.gamma_method-226"><span class="linenos">226</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-227"><a href="#Obs.gamma_method-227"><span class="linenos">227</span></a>                <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">):</span>
+</span><span id="Obs.gamma_method-228"><a href="#Obs.gamma_method-228"><span class="linenos">228</span></a>                    <span class="k">if</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_dict&#39;</span><span class="p">):</span>
+</span><span id="Obs.gamma_method-229"><a href="#Obs.gamma_method-229"><span class="linenos">229</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_dict&#39;</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span>
+</span><span id="Obs.gamma_method-230"><a href="#Obs.gamma_method-230"><span class="linenos">230</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-231"><a href="#Obs.gamma_method-231"><span class="linenos">231</span></a>                        <span class="nb">getattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">kwarg_name</span><span class="p">)[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">Obs</span><span class="p">,</span> <span class="n">kwarg_name</span> <span class="o">+</span> <span class="s1">&#39;_global&#39;</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-232"><a href="#Obs.gamma_method-232"><span class="linenos">232</span></a>
+</span><span id="Obs.gamma_method-233"><a href="#Obs.gamma_method-233"><span class="linenos">233</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;S&#39;</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-234"><a href="#Obs.gamma_method-234"><span class="linenos">234</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;tau_exp&#39;</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-235"><a href="#Obs.gamma_method-235"><span class="linenos">235</span></a>        <span class="n">_parse_kwarg</span><span class="p">(</span><span class="s1">&#39;N_sigma&#39;</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-236"><a href="#Obs.gamma_method-236"><span class="linenos">236</span></a>
+</span><span id="Obs.gamma_method-237"><a href="#Obs.gamma_method-237"><span class="linenos">237</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="Obs.gamma_method-238"><a href="#Obs.gamma_method-238"><span class="linenos">238</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs.gamma_method-239"><a href="#Obs.gamma_method-239"><span class="linenos">239</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="Obs.gamma_method-240"><a href="#Obs.gamma_method-240"><span class="linenos">240</span></a>                <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="Obs.gamma_method-241"><a href="#Obs.gamma_method-241"><span class="linenos">241</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
+</span><span id="Obs.gamma_method-242"><a href="#Obs.gamma_method-242"><span class="linenos">242</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-243"><a href="#Obs.gamma_method-243"><span class="linenos">243</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="Obs.gamma_method-244"><a href="#Obs.gamma_method-244"><span class="linenos">244</span></a>
+</span><span id="Obs.gamma_method-245"><a href="#Obs.gamma_method-245"><span class="linenos">245</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]])</span>
+</span><span id="Obs.gamma_method-246"><a href="#Obs.gamma_method-246"><span class="linenos">246</span></a>            <span class="n">w_max</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span> <span class="o">//</span> <span class="mi">2</span>
+</span><span id="Obs.gamma_method-247"><a href="#Obs.gamma_method-247"><span class="linenos">247</span></a>            <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-248"><a href="#Obs.gamma_method-248"><span class="linenos">248</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-249"><a href="#Obs.gamma_method-249"><span class="linenos">249</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-250"><a href="#Obs.gamma_method-250"><span class="linenos">250</span></a>
+</span><span id="Obs.gamma_method-251"><a href="#Obs.gamma_method-251"><span class="linenos">251</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="Obs.gamma_method-252"><a href="#Obs.gamma_method-252"><span class="linenos">252</span></a>                <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_calc_gamma</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-253"><a href="#Obs.gamma_method-253"><span class="linenos">253</span></a>
+</span><span id="Obs.gamma_method-254"><a href="#Obs.gamma_method-254"><span class="linenos">254</span></a>            <span class="n">gamma_div</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-255"><a href="#Obs.gamma_method-255"><span class="linenos">255</span></a>            <span class="k">for</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]:</span>
+</span><span id="Obs.gamma_method-256"><a href="#Obs.gamma_method-256"><span class="linenos">256</span></a>                <span class="n">gamma_div</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">_calc_gamma</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">])),</span> <span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="n">w_max</span><span class="p">,</span> <span class="n">fft</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-257"><a href="#Obs.gamma_method-257"><span class="linenos">257</span></a>            <span class="n">gamma_div</span><span class="p">[</span><span class="n">gamma_div</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="mf">1.0</span>
+</span><span id="Obs.gamma_method-258"><a href="#Obs.gamma_method-258"><span class="linenos">258</span></a>            <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">/=</span> <span class="n">gamma_div</span><span class="p">[:</span><span class="n">w_max</span><span class="p">]</span>
+</span><span id="Obs.gamma_method-259"><a href="#Obs.gamma_method-259"><span class="linenos">259</span></a>
+</span><span id="Obs.gamma_method-260"><a href="#Obs.gamma_method-260"><span class="linenos">260</span></a>            <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span> <span class="o">&lt;</span> <span class="mi">10</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="nb">float</span><span class="p">)</span><span class="o">.</span><span class="n">tiny</span><span class="p">:</span>  <span class="c1"># Prevent division by zero</span>
+</span><span id="Obs.gamma_method-261"><a href="#Obs.gamma_method-261"><span class="linenos">261</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span>
+</span><span id="Obs.gamma_method-262"><a href="#Obs.gamma_method-262"><span class="linenos">262</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs.gamma_method-263"><a href="#Obs.gamma_method-263"><span class="linenos">263</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs.gamma_method-264"><a href="#Obs.gamma_method-264"><span class="linenos">264</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs.gamma_method-265"><a href="#Obs.gamma_method-265"><span class="linenos">265</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs.gamma_method-266"><a href="#Obs.gamma_method-266"><span class="linenos">266</span></a>                <span class="k">continue</span>
+</span><span id="Obs.gamma_method-267"><a href="#Obs.gamma_method-267"><span class="linenos">267</span></a>
+</span><span id="Obs.gamma_method-268"><a href="#Obs.gamma_method-268"><span class="linenos">268</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="n">w_max</span><span class="p">]</span> <span class="o">/</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Obs.gamma_method-269"><a href="#Obs.gamma_method-269"><span class="linenos">269</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">cumsum</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(([</span><span class="mf">0.5</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:])))</span>
+</span><span id="Obs.gamma_method-270"><a href="#Obs.gamma_method-270"><span class="linenos">270</span></a>            <span class="c1"># Make sure no entry of tauint is smaller than 0.5</span>
+</span><span id="Obs.gamma_method-271"><a href="#Obs.gamma_method-271"><span class="linenos">271</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&lt;=</span> <span class="mf">0.5</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span>
+</span><span id="Obs.gamma_method-272"><a href="#Obs.gamma_method-272"><span class="linenos">272</span></a>            <span class="c1"># hep-lat/0306017 eq. (42)</span>
+</span><span id="Obs.gamma_method-273"><a href="#Obs.gamma_method-273"><span class="linenos">273</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">w_max</span><span class="p">)</span> <span class="o">+</span> <span class="mf">0.5</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-274"><a href="#Obs.gamma_method-274"><span class="linenos">274</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs.gamma_method-275"><a href="#Obs.gamma_method-275"><span class="linenos">275</span></a>
+</span><span id="Obs.gamma_method-276"><a href="#Obs.gamma_method-276"><span class="linenos">276</span></a>            <span class="k">def</span> <span class="nf">_compute_drho</span><span class="p">(</span><span class="n">i</span><span class="p">):</span>
+</span><span id="Obs.gamma_method-277"><a href="#Obs.gamma_method-277"><span class="linenos">277</span></a>                <span class="n">tmp</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:</span><span class="n">w_max</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">::</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:</span><span class="n">w_max</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">i</span><span class="p">]])</span> <span class="o">-</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:</span><span class="n">w_max</span> <span class="o">-</span> <span class="n">i</span><span class="p">]</span>
+</span><span id="Obs.gamma_method-278"><a href="#Obs.gamma_method-278"><span class="linenos">278</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">tmp</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-279"><a href="#Obs.gamma_method-279"><span class="linenos">279</span></a>
+</span><span id="Obs.gamma_method-280"><a href="#Obs.gamma_method-280"><span class="linenos">280</span></a>            <span class="n">_compute_drho</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-281"><a href="#Obs.gamma_method-281"><span class="linenos">281</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-282"><a href="#Obs.gamma_method-282"><span class="linenos">282</span></a>                <span class="n">texp</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span>
+</span><span id="Obs.gamma_method-283"><a href="#Obs.gamma_method-283"><span class="linenos">283</span></a>                <span class="c1"># Critical slowing down analysis</span>
+</span><span id="Obs.gamma_method-284"><a href="#Obs.gamma_method-284"><span class="linenos">284</span></a>                <span class="k">if</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">&lt;=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-285"><a href="#Obs.gamma_method-285"><span class="linenos">285</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Need at least 8 samples for tau_exp error analysis&quot;</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-286"><a href="#Obs.gamma_method-286"><span class="linenos">286</span></a>                <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span><span class="p">):</span>
+</span><span id="Obs.gamma_method-287"><a href="#Obs.gamma_method-287"><span class="linenos">287</span></a>                    <span class="n">_compute_drho</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-288"><a href="#Obs.gamma_method-288"><span class="linenos">288</span></a>                    <span class="k">if</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">])</span> <span class="o">&lt;</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-289"><a href="#Obs.gamma_method-289"><span class="linenos">289</span></a>                        <span class="c1"># Bias correction hep-lat/0306017 eq. (49) included</span>
+</span><span id="Obs.gamma_method-290"><a href="#Obs.gamma_method-290"><span class="linenos">290</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">+</span> <span class="n">texp</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span>  <span class="c1"># The absolute makes sure, that the tail contribution is always positive</span>
+</span><span id="Obs.gamma_method-291"><a href="#Obs.gamma_method-291"><span class="linenos">291</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">texp</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-292"><a href="#Obs.gamma_method-292"><span class="linenos">292</span></a>                        <span class="c1"># Error of tau_exp neglected so far, missing term: self.e_rho[e_name][n + 1] ** 2 * d_tau_exp ** 2</span>
+</span><span id="Obs.gamma_method-293"><a href="#Obs.gamma_method-293"><span class="linenos">293</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-294"><a href="#Obs.gamma_method-294"><span class="linenos">294</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">n</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-295"><a href="#Obs.gamma_method-295"><span class="linenos">295</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">n</span>
+</span><span id="Obs.gamma_method-296"><a href="#Obs.gamma_method-296"><span class="linenos">296</span></a>                        <span class="k">break</span>
+</span><span id="Obs.gamma_method-297"><a href="#Obs.gamma_method-297"><span class="linenos">297</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-298"><a href="#Obs.gamma_method-298"><span class="linenos">298</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-299"><a href="#Obs.gamma_method-299"><span class="linenos">299</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.5</span>
+</span><span id="Obs.gamma_method-300"><a href="#Obs.gamma_method-300"><span class="linenos">300</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs.gamma_method-301"><a href="#Obs.gamma_method-301"><span class="linenos">301</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="p">(</span><span class="n">e_N</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="Obs.gamma_method-302"><a href="#Obs.gamma_method-302"><span class="linenos">302</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mf">0.5</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-303"><a href="#Obs.gamma_method-303"><span class="linenos">303</span></a>                    <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs.gamma_method-304"><a href="#Obs.gamma_method-304"><span class="linenos">304</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-305"><a href="#Obs.gamma_method-305"><span class="linenos">305</span></a>                    <span class="c1"># Standard automatic windowing procedure</span>
+</span><span id="Obs.gamma_method-306"><a href="#Obs.gamma_method-306"><span class="linenos">306</span></a>                    <span class="n">tau</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">((</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">1</span><span class="p">:]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="Obs.gamma_method-307"><a href="#Obs.gamma_method-307"><span class="linenos">307</span></a>                    <span class="n">g_w</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span> <span class="o">/</span> <span class="n">tau</span><span class="p">)</span> <span class="o">-</span> <span class="n">tau</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">)</span> <span class="o">*</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-308"><a href="#Obs.gamma_method-308"><span class="linenos">308</span></a>                    <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">w_max</span><span class="p">):</span>
+</span><span id="Obs.gamma_method-309"><a href="#Obs.gamma_method-309"><span class="linenos">309</span></a>                        <span class="k">if</span> <span class="n">n</span> <span class="o">&lt;</span> <span class="n">w_max</span> <span class="o">//</span> <span class="mi">2</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-310"><a href="#Obs.gamma_method-310"><span class="linenos">310</span></a>                            <span class="n">_compute_drho</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-311"><a href="#Obs.gamma_method-311"><span class="linenos">311</span></a>                        <span class="k">if</span> <span class="n">g_w</span><span class="p">[</span><span class="n">n</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]</span> <span class="o">&lt;</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">n</span> <span class="o">&gt;=</span> <span class="n">w_max</span> <span class="o">-</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-312"><a href="#Obs.gamma_method-312"><span class="linenos">312</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>  <span class="c1"># Bias correction hep-lat/0306017 eq. (49)</span>
+</span><span id="Obs.gamma_method-313"><a href="#Obs.gamma_method-313"><span class="linenos">313</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="n">n</span><span class="p">]</span>
+</span><span id="Obs.gamma_method-314"><a href="#Obs.gamma_method-314"><span class="linenos">314</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">e_gamma</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-315"><a href="#Obs.gamma_method-315"><span class="linenos">315</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">n</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">)</span> <span class="o">/</span> <span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-316"><a href="#Obs.gamma_method-316"><span class="linenos">316</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">n</span>
+</span><span id="Obs.gamma_method-317"><a href="#Obs.gamma_method-317"><span class="linenos">317</span></a>                            <span class="k">break</span>
+</span><span id="Obs.gamma_method-318"><a href="#Obs.gamma_method-318"><span class="linenos">318</span></a>
+</span><span id="Obs.gamma_method-319"><a href="#Obs.gamma_method-319"><span class="linenos">319</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="Obs.gamma_method-320"><a href="#Obs.gamma_method-320"><span class="linenos">320</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">+=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="Obs.gamma_method-321"><a href="#Obs.gamma_method-321"><span class="linenos">321</span></a>
+</span><span id="Obs.gamma_method-322"><a href="#Obs.gamma_method-322"><span class="linenos">322</span></a>        <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-323"><a href="#Obs.gamma_method-323"><span class="linenos">323</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">.</span><span class="n">errsq</span><span class="p">())</span>
+</span><span id="Obs.gamma_method-324"><a href="#Obs.gamma_method-324"><span class="linenos">324</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs.gamma_method-325"><a href="#Obs.gamma_method-325"><span class="linenos">325</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span><span class="o">**</span><span class="mi">2</span>
+</span><span id="Obs.gamma_method-326"><a href="#Obs.gamma_method-326"><span class="linenos">326</span></a>
+</span><span id="Obs.gamma_method-327"><a href="#Obs.gamma_method-327"><span class="linenos">327</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">)</span>
+</span><span id="Obs.gamma_method-328"><a href="#Obs.gamma_method-328"><span class="linenos">328</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-329"><a href="#Obs.gamma_method-329"><span class="linenos">329</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="mf">0.0</span>
+</span><span id="Obs.gamma_method-330"><a href="#Obs.gamma_method-330"><span class="linenos">330</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.gamma_method-331"><a href="#Obs.gamma_method-331"><span class="linenos">331</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span><span class="p">)</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
+</span><span id="Obs.gamma_method-332"><a href="#Obs.gamma_method-332"><span class="linenos">332</span></a>        <span class="k">return</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Estimate the error and related properties of the Obs.</p>
 
@@ -3295,78 +3322,78 @@ of the autocorrelation function (default True)</li>
 
                             </div>
                             <div id="Obs.details" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.details">#&nbsp;&nbsp</a>
+                                        <input id="Obs.details-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">details</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">ens_content</span><span class="o">=</span><span class="kc">True</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.details-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">details</span><span class="signature">(self, ens_content=True)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.details-366"><a href="#Obs.details-366"><span class="linenos">366</span></a>    <span class="k">def</span> <span class="nf">details</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">ens_content</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="Obs.details-367"><a href="#Obs.details-367"><span class="linenos">367</span></a>        <span class="sd">&quot;&quot;&quot;Output detailed properties of the Obs.</span>
-</span><span id="Obs.details-368"><a href="#Obs.details-368"><span class="linenos">368</span></a>
-</span><span id="Obs.details-369"><a href="#Obs.details-369"><span class="linenos">369</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs.details-370"><a href="#Obs.details-370"><span class="linenos">370</span></a><span class="sd">        ----------</span>
-</span><span id="Obs.details-371"><a href="#Obs.details-371"><span class="linenos">371</span></a><span class="sd">        ens_content : bool</span>
-</span><span id="Obs.details-372"><a href="#Obs.details-372"><span class="linenos">372</span></a><span class="sd">            print details about the ensembles and replica if true.</span>
-</span><span id="Obs.details-373"><a href="#Obs.details-373"><span class="linenos">373</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs.details-374"><a href="#Obs.details-374"><span class="linenos">374</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="Obs.details-375"><a href="#Obs.details-375"><span class="linenos">375</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Description:&quot;</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
-</span><span id="Obs.details-376"><a href="#Obs.details-376"><span class="linenos">376</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="Obs.details-377"><a href="#Obs.details-377"><span class="linenos">377</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Result</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">))</span>
-</span><span id="Obs.details-378"><a href="#Obs.details-378"><span class="linenos">378</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.details-379"><a href="#Obs.details-379"><span class="linenos">379</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
-</span><span id="Obs.details-380"><a href="#Obs.details-380"><span class="linenos">380</span></a>                <span class="n">percentage</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">nan</span>
-</span><span id="Obs.details-381"><a href="#Obs.details-381"><span class="linenos">381</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.details-382"><a href="#Obs.details-382"><span class="linenos">382</span></a>                <span class="n">percentage</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">*</span> <span class="mi">100</span>
-</span><span id="Obs.details-383"><a href="#Obs.details-383"><span class="linenos">383</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Result</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> (</span><span class="si">%3.3f%%</span><span class="s1">)&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span><span class="p">,</span> <span class="n">percentage</span><span class="p">))</span>
-</span><span id="Obs.details-384"><a href="#Obs.details-384"><span class="linenos">384</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs.details-385"><a href="#Obs.details-385"><span class="linenos">385</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; Ensemble errors:&#39;</span><span class="p">)</span>
-</span><span id="Obs.details-386"><a href="#Obs.details-386"><span class="linenos">386</span></a>            <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
-</span><span id="Obs.details-387"><a href="#Obs.details-387"><span class="linenos">387</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs.details-388"><a href="#Obs.details-388"><span class="linenos">388</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs.details-389"><a href="#Obs.details-389"><span class="linenos">389</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Obs.details-390"><a href="#Obs.details-390"><span class="linenos">390</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; t_int</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> tau_exp = </span><span class="si">%3.2f</span><span class="s1">,  N_sigma = </span><span class="si">%1.0i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs.details-391"><a href="#Obs.details-391"><span class="linenos">391</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.details-392"><a href="#Obs.details-392"><span class="linenos">392</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; t_int</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> S = </span><span class="si">%3.2f</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs.details-393"><a href="#Obs.details-393"><span class="linenos">393</span></a>            <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="Obs.details-394"><a href="#Obs.details-394"><span class="linenos">394</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs.details-395"><a href="#Obs.details-395"><span class="linenos">395</span></a>        <span class="k">if</span> <span class="n">ens_content</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="Obs.details-396"><a href="#Obs.details-396"><span class="linenos">396</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs.details-397"><a href="#Obs.details-397"><span class="linenos">397</span></a>                <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="s1">&#39;samples in&#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">),</span> <span class="s1">&#39;ensemble:&#39;</span><span class="p">)</span>
-</span><span id="Obs.details-398"><a href="#Obs.details-398"><span class="linenos">398</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.details-399"><a href="#Obs.details-399"><span class="linenos">399</span></a>                <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="s1">&#39;samples in&#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">),</span> <span class="s1">&#39;ensembles:&#39;</span><span class="p">)</span>
-</span><span id="Obs.details-400"><a href="#Obs.details-400"><span class="linenos">400</span></a>            <span class="n">my_string_list</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs.details-401"><a href="#Obs.details-401"><span class="linenos">401</span></a>            <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">items</span><span class="p">()):</span>
-</span><span id="Obs.details-402"><a href="#Obs.details-402"><span class="linenos">402</span></a>                <span class="k">if</span> <span class="n">key</span> <span class="ow">not</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="p">:</span>
-</span><span id="Obs.details-403"><a href="#Obs.details-403"><span class="linenos">403</span></a>                    <span class="n">my_string</span> <span class="o">=</span> <span class="s1">&#39;  &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Ensemble &#39;&quot;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
-</span><span id="Obs.details-404"><a href="#Obs.details-404"><span class="linenos">404</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">value</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs.details-405"><a href="#Obs.details-405"><span class="linenos">405</span></a>                        <span class="n">my_string</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39;: </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="si">}</span><span class="s1"> configurations&#39;</span>
-</span><span id="Obs.details-406"><a href="#Obs.details-406"><span class="linenos">406</span></a>                        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]],</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="Obs.details-407"><a href="#Obs.details-407"><span class="linenos">407</span></a>                            <span class="n">my_string</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39; (from </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">start</span><span class="si">}</span><span class="s1"> to </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="sa">f</span><span class="s1">&#39; in steps of </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">step</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;)&#39;</span>
-</span><span id="Obs.details-408"><a href="#Obs.details-408"><span class="linenos">408</span></a>                        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.details-409"><a href="#Obs.details-409"><span class="linenos">409</span></a>                            <span class="n">my_string</span> <span class="o">+=</span> <span class="s1">&#39; (irregular range)&#39;</span>
-</span><span id="Obs.details-410"><a href="#Obs.details-410"><span class="linenos">410</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.details-411"><a href="#Obs.details-411"><span class="linenos">411</span></a>                        <span class="n">sublist</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs.details-412"><a href="#Obs.details-412"><span class="linenos">412</span></a>                        <span class="k">for</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">value</span><span class="p">:</span>
-</span><span id="Obs.details-413"><a href="#Obs.details-413"><span class="linenos">413</span></a>                            <span class="n">my_substring</span> <span class="o">=</span> <span class="s1">&#39;    &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Replicum &#39;&quot;</span> <span class="o">+</span> <span class="n">v</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">key</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
-</span><span id="Obs.details-414"><a href="#Obs.details-414"><span class="linenos">414</span></a>                            <span class="n">my_substring</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39;: </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="si">}</span><span class="s1"> configurations&#39;</span>
-</span><span id="Obs.details-415"><a href="#Obs.details-415"><span class="linenos">415</span></a>                            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">],</span> <span class="nb">range</span><span class="p">):</span>
-</span><span id="Obs.details-416"><a href="#Obs.details-416"><span class="linenos">416</span></a>                                <span class="n">my_substring</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39; (from </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">start</span><span class="si">}</span><span class="s1"> to </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="sa">f</span><span class="s1">&#39; in steps of </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">step</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;)&#39;</span>
-</span><span id="Obs.details-417"><a href="#Obs.details-417"><span class="linenos">417</span></a>                            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.details-418"><a href="#Obs.details-418"><span class="linenos">418</span></a>                                <span class="n">my_substring</span> <span class="o">+=</span> <span class="s1">&#39; (irregular range)&#39;</span>
-</span><span id="Obs.details-419"><a href="#Obs.details-419"><span class="linenos">419</span></a>                            <span class="n">sublist</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">my_substring</span><span class="p">)</span>
-</span><span id="Obs.details-420"><a href="#Obs.details-420"><span class="linenos">420</span></a>
-</span><span id="Obs.details-421"><a href="#Obs.details-421"><span class="linenos">421</span></a>                        <span class="n">my_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sublist</span><span class="p">)</span>
-</span><span id="Obs.details-422"><a href="#Obs.details-422"><span class="linenos">422</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.details-423"><a href="#Obs.details-423"><span class="linenos">423</span></a>                    <span class="n">my_string</span> <span class="o">=</span> <span class="s1">&#39;  &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Covobs   &#39;&quot;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
-</span><span id="Obs.details-424"><a href="#Obs.details-424"><span class="linenos">424</span></a>                <span class="n">my_string_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">my_string</span><span class="p">)</span>
-</span><span id="Obs.details-425"><a href="#Obs.details-425"><span class="linenos">425</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">my_string_list</span><span class="p">))</span>
+    <a class="headerlink" href="#Obs.details"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.details-367"><a href="#Obs.details-367"><span class="linenos">367</span></a>    <span class="k">def</span> <span class="nf">details</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">ens_content</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="Obs.details-368"><a href="#Obs.details-368"><span class="linenos">368</span></a>        <span class="sd">&quot;&quot;&quot;Output detailed properties of the Obs.</span>
+</span><span id="Obs.details-369"><a href="#Obs.details-369"><span class="linenos">369</span></a>
+</span><span id="Obs.details-370"><a href="#Obs.details-370"><span class="linenos">370</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs.details-371"><a href="#Obs.details-371"><span class="linenos">371</span></a><span class="sd">        ----------</span>
+</span><span id="Obs.details-372"><a href="#Obs.details-372"><span class="linenos">372</span></a><span class="sd">        ens_content : bool</span>
+</span><span id="Obs.details-373"><a href="#Obs.details-373"><span class="linenos">373</span></a><span class="sd">            print details about the ensembles and replica if true.</span>
+</span><span id="Obs.details-374"><a href="#Obs.details-374"><span class="linenos">374</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs.details-375"><a href="#Obs.details-375"><span class="linenos">375</span></a>        <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="Obs.details-376"><a href="#Obs.details-376"><span class="linenos">376</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Description:&quot;</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">tag</span><span class="p">)</span>
+</span><span id="Obs.details-377"><a href="#Obs.details-377"><span class="linenos">377</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="Obs.details-378"><a href="#Obs.details-378"><span class="linenos">378</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Result</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">))</span>
+</span><span id="Obs.details-379"><a href="#Obs.details-379"><span class="linenos">379</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.details-380"><a href="#Obs.details-380"><span class="linenos">380</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span> <span class="o">==</span> <span class="mf">0.0</span><span class="p">:</span>
+</span><span id="Obs.details-381"><a href="#Obs.details-381"><span class="linenos">381</span></a>                <span class="n">percentage</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">nan</span>
+</span><span id="Obs.details-382"><a href="#Obs.details-382"><span class="linenos">382</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.details-383"><a href="#Obs.details-383"><span class="linenos">383</span></a>                <span class="n">percentage</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">*</span> <span class="mi">100</span>
+</span><span id="Obs.details-384"><a href="#Obs.details-384"><span class="linenos">384</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Result</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> (</span><span class="si">%3.3f%%</span><span class="s1">)&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">ddvalue</span><span class="p">,</span> <span class="n">percentage</span><span class="p">))</span>
+</span><span id="Obs.details-385"><a href="#Obs.details-385"><span class="linenos">385</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs.details-386"><a href="#Obs.details-386"><span class="linenos">386</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; Ensemble errors:&#39;</span><span class="p">)</span>
+</span><span id="Obs.details-387"><a href="#Obs.details-387"><span class="linenos">387</span></a>            <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">:</span>
+</span><span id="Obs.details-388"><a href="#Obs.details-388"><span class="linenos">388</span></a>                <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs.details-389"><a href="#Obs.details-389"><span class="linenos">389</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_ddvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs.details-390"><a href="#Obs.details-390"><span class="linenos">390</span></a>                <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Obs.details-391"><a href="#Obs.details-391"><span class="linenos">391</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; t_int</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> tau_exp = </span><span class="si">%3.2f</span><span class="s1">,  N_sigma = </span><span class="si">%1.0i</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">N_sigma</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs.details-392"><a href="#Obs.details-392"><span class="linenos">392</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.details-393"><a href="#Obs.details-393"><span class="linenos">393</span></a>                    <span class="nb">print</span><span class="p">(</span><span class="s1">&#39; t_int</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1"> +/- </span><span class="si">%3.8e</span><span class="s1"> S = </span><span class="si">%3.2f</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs.details-394"><a href="#Obs.details-394"><span class="linenos">394</span></a>            <span class="k">for</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="Obs.details-395"><a href="#Obs.details-395"><span class="linenos">395</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;</span><span class="se">\t</span><span class="s1"> </span><span class="si">%3.8e</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs.details-396"><a href="#Obs.details-396"><span class="linenos">396</span></a>        <span class="k">if</span> <span class="n">ens_content</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="Obs.details-397"><a href="#Obs.details-397"><span class="linenos">397</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs.details-398"><a href="#Obs.details-398"><span class="linenos">398</span></a>                <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="s1">&#39;samples in&#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">),</span> <span class="s1">&#39;ensemble:&#39;</span><span class="p">)</span>
+</span><span id="Obs.details-399"><a href="#Obs.details-399"><span class="linenos">399</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.details-400"><a href="#Obs.details-400"><span class="linenos">400</span></a>                <span class="nb">print</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">N</span><span class="p">,</span> <span class="s1">&#39;samples in&#39;</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">),</span> <span class="s1">&#39;ensembles:&#39;</span><span class="p">)</span>
+</span><span id="Obs.details-401"><a href="#Obs.details-401"><span class="linenos">401</span></a>            <span class="n">my_string_list</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs.details-402"><a href="#Obs.details-402"><span class="linenos">402</span></a>            <span class="k">for</span> <span class="n">key</span><span class="p">,</span> <span class="n">value</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="o">.</span><span class="n">items</span><span class="p">()):</span>
+</span><span id="Obs.details-403"><a href="#Obs.details-403"><span class="linenos">403</span></a>                <span class="k">if</span> <span class="n">key</span> <span class="ow">not</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="p">:</span>
+</span><span id="Obs.details-404"><a href="#Obs.details-404"><span class="linenos">404</span></a>                    <span class="n">my_string</span> <span class="o">=</span> <span class="s1">&#39;  &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Ensemble &#39;&quot;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
+</span><span id="Obs.details-405"><a href="#Obs.details-405"><span class="linenos">405</span></a>                    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">value</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs.details-406"><a href="#Obs.details-406"><span class="linenos">406</span></a>                        <span class="n">my_string</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39;: </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="si">}</span><span class="s1"> configurations&#39;</span>
+</span><span id="Obs.details-407"><a href="#Obs.details-407"><span class="linenos">407</span></a>                        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]],</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="Obs.details-408"><a href="#Obs.details-408"><span class="linenos">408</span></a>                            <span class="n">my_string</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39; (from </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">start</span><span class="si">}</span><span class="s1"> to </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="sa">f</span><span class="s1">&#39; in steps of </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">value</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span><span class="o">.</span><span class="n">step</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;)&#39;</span>
+</span><span id="Obs.details-409"><a href="#Obs.details-409"><span class="linenos">409</span></a>                        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.details-410"><a href="#Obs.details-410"><span class="linenos">410</span></a>                            <span class="n">my_string</span> <span class="o">+=</span> <span class="s1">&#39; (irregular range)&#39;</span>
+</span><span id="Obs.details-411"><a href="#Obs.details-411"><span class="linenos">411</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.details-412"><a href="#Obs.details-412"><span class="linenos">412</span></a>                        <span class="n">sublist</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs.details-413"><a href="#Obs.details-413"><span class="linenos">413</span></a>                        <span class="k">for</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">value</span><span class="p">:</span>
+</span><span id="Obs.details-414"><a href="#Obs.details-414"><span class="linenos">414</span></a>                            <span class="n">my_substring</span> <span class="o">=</span> <span class="s1">&#39;    &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Replicum &#39;&quot;</span> <span class="o">+</span> <span class="n">v</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">key</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
+</span><span id="Obs.details-415"><a href="#Obs.details-415"><span class="linenos">415</span></a>                            <span class="n">my_substring</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39;: </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="si">}</span><span class="s1"> configurations&#39;</span>
+</span><span id="Obs.details-416"><a href="#Obs.details-416"><span class="linenos">416</span></a>                            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">],</span> <span class="nb">range</span><span class="p">):</span>
+</span><span id="Obs.details-417"><a href="#Obs.details-417"><span class="linenos">417</span></a>                                <span class="n">my_substring</span> <span class="o">+=</span> <span class="sa">f</span><span class="s1">&#39; (from </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">start</span><span class="si">}</span><span class="s1"> to </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="sa">f</span><span class="s1">&#39; in steps of </span><span class="si">{</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">v</span><span class="p">]</span><span class="o">.</span><span class="n">step</span><span class="si">}</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;)&#39;</span>
+</span><span id="Obs.details-418"><a href="#Obs.details-418"><span class="linenos">418</span></a>                            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.details-419"><a href="#Obs.details-419"><span class="linenos">419</span></a>                                <span class="n">my_substring</span> <span class="o">+=</span> <span class="s1">&#39; (irregular range)&#39;</span>
+</span><span id="Obs.details-420"><a href="#Obs.details-420"><span class="linenos">420</span></a>                            <span class="n">sublist</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">my_substring</span><span class="p">)</span>
+</span><span id="Obs.details-421"><a href="#Obs.details-421"><span class="linenos">421</span></a>
+</span><span id="Obs.details-422"><a href="#Obs.details-422"><span class="linenos">422</span></a>                        <span class="n">my_string</span> <span class="o">+=</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span> <span class="o">+</span> <span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sublist</span><span class="p">)</span>
+</span><span id="Obs.details-423"><a href="#Obs.details-423"><span class="linenos">423</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.details-424"><a href="#Obs.details-424"><span class="linenos">424</span></a>                    <span class="n">my_string</span> <span class="o">=</span> <span class="s1">&#39;  &#39;</span> <span class="o">+</span> <span class="s2">&quot;</span><span class="se">\u00B7</span><span class="s2"> Covobs   &#39;&quot;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s2">&quot;&#39; &quot;</span>
+</span><span id="Obs.details-425"><a href="#Obs.details-425"><span class="linenos">425</span></a>                <span class="n">my_string_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">my_string</span><span class="p">)</span>
+</span><span id="Obs.details-426"><a href="#Obs.details-426"><span class="linenos">426</span></a>            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">my_string_list</span><span class="p">))</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Output detailed properties of the Obs.</p>
 
@@ -3381,29 +3408,29 @@ print details about the ensembles and replica if true.</li>
 
                             </div>
                             <div id="Obs.is_zero_within_error" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.is_zero_within_error">#&nbsp;&nbsp</a>
+                                        <input id="Obs.is_zero_within_error-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">is_zero_within_error</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">sigma</span><span class="o">=</span><span class="mi">1</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.is_zero_within_error-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">is_zero_within_error</span><span class="signature">(self, sigma=1)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.is_zero_within_error-427"><a href="#Obs.is_zero_within_error-427"><span class="linenos">427</span></a>    <span class="k">def</span> <span class="nf">is_zero_within_error</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">sigma</span><span class="o">=</span><span class="mi">1</span><span class="p">):</span>
-</span><span id="Obs.is_zero_within_error-428"><a href="#Obs.is_zero_within_error-428"><span class="linenos">428</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether the observable is zero within &#39;sigma&#39; standard errors.</span>
-</span><span id="Obs.is_zero_within_error-429"><a href="#Obs.is_zero_within_error-429"><span class="linenos">429</span></a>
-</span><span id="Obs.is_zero_within_error-430"><a href="#Obs.is_zero_within_error-430"><span class="linenos">430</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs.is_zero_within_error-431"><a href="#Obs.is_zero_within_error-431"><span class="linenos">431</span></a><span class="sd">        ----------</span>
-</span><span id="Obs.is_zero_within_error-432"><a href="#Obs.is_zero_within_error-432"><span class="linenos">432</span></a><span class="sd">        sigma : int</span>
-</span><span id="Obs.is_zero_within_error-433"><a href="#Obs.is_zero_within_error-433"><span class="linenos">433</span></a><span class="sd">            Number of standard errors used for the check.</span>
-</span><span id="Obs.is_zero_within_error-434"><a href="#Obs.is_zero_within_error-434"><span class="linenos">434</span></a>
-</span><span id="Obs.is_zero_within_error-435"><a href="#Obs.is_zero_within_error-435"><span class="linenos">435</span></a><span class="sd">        Works only properly when the gamma method was run.</span>
-</span><span id="Obs.is_zero_within_error-436"><a href="#Obs.is_zero_within_error-436"><span class="linenos">436</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs.is_zero_within_error-437"><a href="#Obs.is_zero_within_error-437"><span class="linenos">437</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span> <span class="ow">or</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="n">sigma</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
+    <a class="headerlink" href="#Obs.is_zero_within_error"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.is_zero_within_error-428"><a href="#Obs.is_zero_within_error-428"><span class="linenos">428</span></a>    <span class="k">def</span> <span class="nf">is_zero_within_error</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">sigma</span><span class="o">=</span><span class="mi">1</span><span class="p">):</span>
+</span><span id="Obs.is_zero_within_error-429"><a href="#Obs.is_zero_within_error-429"><span class="linenos">429</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether the observable is zero within &#39;sigma&#39; standard errors.</span>
+</span><span id="Obs.is_zero_within_error-430"><a href="#Obs.is_zero_within_error-430"><span class="linenos">430</span></a>
+</span><span id="Obs.is_zero_within_error-431"><a href="#Obs.is_zero_within_error-431"><span class="linenos">431</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs.is_zero_within_error-432"><a href="#Obs.is_zero_within_error-432"><span class="linenos">432</span></a><span class="sd">        ----------</span>
+</span><span id="Obs.is_zero_within_error-433"><a href="#Obs.is_zero_within_error-433"><span class="linenos">433</span></a><span class="sd">        sigma : int</span>
+</span><span id="Obs.is_zero_within_error-434"><a href="#Obs.is_zero_within_error-434"><span class="linenos">434</span></a><span class="sd">            Number of standard errors used for the check.</span>
+</span><span id="Obs.is_zero_within_error-435"><a href="#Obs.is_zero_within_error-435"><span class="linenos">435</span></a>
+</span><span id="Obs.is_zero_within_error-436"><a href="#Obs.is_zero_within_error-436"><span class="linenos">436</span></a><span class="sd">        Works only properly when the gamma method was run.</span>
+</span><span id="Obs.is_zero_within_error-437"><a href="#Obs.is_zero_within_error-437"><span class="linenos">437</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs.is_zero_within_error-438"><a href="#Obs.is_zero_within_error-438"><span class="linenos">438</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">is_zero</span><span class="p">()</span> <span class="ow">or</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">&lt;=</span> <span class="n">sigma</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Checks whether the observable is zero within 'sigma' standard errors.</p>
 
@@ -3419,27 +3446,27 @@ Number of standard errors used for the check.</li>
 
                             </div>
                             <div id="Obs.is_zero" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.is_zero">#&nbsp;&nbsp</a>
+                                        <input id="Obs.is_zero-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">is_zero</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">atol</span><span class="o">=</span><span class="mf">1e-10</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.is_zero-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">is_zero</span><span class="signature">(self, atol=1e-10)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.is_zero-439"><a href="#Obs.is_zero-439"><span class="linenos">439</span></a>    <span class="k">def</span> <span class="nf">is_zero</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">atol</span><span class="o">=</span><span class="mf">1e-10</span><span class="p">):</span>
-</span><span id="Obs.is_zero-440"><a href="#Obs.is_zero-440"><span class="linenos">440</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether the observable is zero within a given tolerance.</span>
-</span><span id="Obs.is_zero-441"><a href="#Obs.is_zero-441"><span class="linenos">441</span></a>
-</span><span id="Obs.is_zero-442"><a href="#Obs.is_zero-442"><span class="linenos">442</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs.is_zero-443"><a href="#Obs.is_zero-443"><span class="linenos">443</span></a><span class="sd">        ----------</span>
-</span><span id="Obs.is_zero-444"><a href="#Obs.is_zero-444"><span class="linenos">444</span></a><span class="sd">        atol : float</span>
-</span><span id="Obs.is_zero-445"><a href="#Obs.is_zero-445"><span class="linenos">445</span></a><span class="sd">            Absolute tolerance (for details see numpy documentation).</span>
-</span><span id="Obs.is_zero-446"><a href="#Obs.is_zero-446"><span class="linenos">446</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs.is_zero-447"><a href="#Obs.is_zero-447"><span class="linenos">447</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">delta</span><span class="p">,</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="k">for</span> <span class="n">delta</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">values</span><span class="p">())</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">delta</span><span class="o">.</span><span class="n">errsq</span><span class="p">(),</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="k">for</span> <span class="n">delta</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">values</span><span class="p">())</span>
+    <a class="headerlink" href="#Obs.is_zero"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.is_zero-440"><a href="#Obs.is_zero-440"><span class="linenos">440</span></a>    <span class="k">def</span> <span class="nf">is_zero</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">atol</span><span class="o">=</span><span class="mf">1e-10</span><span class="p">):</span>
+</span><span id="Obs.is_zero-441"><a href="#Obs.is_zero-441"><span class="linenos">441</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether the observable is zero within a given tolerance.</span>
+</span><span id="Obs.is_zero-442"><a href="#Obs.is_zero-442"><span class="linenos">442</span></a>
+</span><span id="Obs.is_zero-443"><a href="#Obs.is_zero-443"><span class="linenos">443</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs.is_zero-444"><a href="#Obs.is_zero-444"><span class="linenos">444</span></a><span class="sd">        ----------</span>
+</span><span id="Obs.is_zero-445"><a href="#Obs.is_zero-445"><span class="linenos">445</span></a><span class="sd">        atol : float</span>
+</span><span id="Obs.is_zero-446"><a href="#Obs.is_zero-446"><span class="linenos">446</span></a><span class="sd">            Absolute tolerance (for details see numpy documentation).</span>
+</span><span id="Obs.is_zero-447"><a href="#Obs.is_zero-447"><span class="linenos">447</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs.is_zero-448"><a href="#Obs.is_zero-448"><span class="linenos">448</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">delta</span><span class="p">,</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="k">for</span> <span class="n">delta</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">values</span><span class="p">())</span> <span class="ow">and</span> <span class="nb">all</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">delta</span><span class="o">.</span><span class="n">errsq</span><span class="p">(),</span> <span class="mf">1e-14</span><span class="p">,</span> <span class="n">atol</span><span class="p">)</span> <span class="k">for</span> <span class="n">delta</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">values</span><span class="p">())</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Checks whether the observable is zero within a given tolerance.</p>
 
@@ -3454,57 +3481,57 @@ Absolute tolerance (for details see numpy documentation).</li>
 
                             </div>
                             <div id="Obs.plot_tauint" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.plot_tauint">#&nbsp;&nbsp</a>
+                                        <input id="Obs.plot_tauint-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">plot_tauint</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">save</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.plot_tauint-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">plot_tauint</span><span class="signature">(self, save=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.plot_tauint-449"><a href="#Obs.plot_tauint-449"><span class="linenos">449</span></a>    <span class="k">def</span> <span class="nf">plot_tauint</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Obs.plot_tauint-450"><a href="#Obs.plot_tauint-450"><span class="linenos">450</span></a>        <span class="sd">&quot;&quot;&quot;Plot integrated autocorrelation time for each ensemble.</span>
-</span><span id="Obs.plot_tauint-451"><a href="#Obs.plot_tauint-451"><span class="linenos">451</span></a>
-</span><span id="Obs.plot_tauint-452"><a href="#Obs.plot_tauint-452"><span class="linenos">452</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs.plot_tauint-453"><a href="#Obs.plot_tauint-453"><span class="linenos">453</span></a><span class="sd">        ----------</span>
-</span><span id="Obs.plot_tauint-454"><a href="#Obs.plot_tauint-454"><span class="linenos">454</span></a><span class="sd">        save : str</span>
-</span><span id="Obs.plot_tauint-455"><a href="#Obs.plot_tauint-455"><span class="linenos">455</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
-</span><span id="Obs.plot_tauint-456"><a href="#Obs.plot_tauint-456"><span class="linenos">456</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs.plot_tauint-457"><a href="#Obs.plot_tauint-457"><span class="linenos">457</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="Obs.plot_tauint-458"><a href="#Obs.plot_tauint-458"><span class="linenos">458</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_tauint-459"><a href="#Obs.plot_tauint-459"><span class="linenos">459</span></a>
-</span><span id="Obs.plot_tauint-460"><a href="#Obs.plot_tauint-460"><span class="linenos">460</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="Obs.plot_tauint-461"><a href="#Obs.plot_tauint-461"><span class="linenos">461</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="Obs.plot_tauint-462"><a href="#Obs.plot_tauint-462"><span class="linenos">462</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$W$&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_tauint-463"><a href="#Obs.plot_tauint-463"><span class="linenos">463</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$\tau_\mathrm</span><span class="si">{int}</span><span class="s1">$&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_tauint-464"><a href="#Obs.plot_tauint-464"><span class="linenos">464</span></a>            <span class="n">length</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs.plot_tauint-465"><a href="#Obs.plot_tauint-465"><span class="linenos">465</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Obs.plot_tauint-466"><a href="#Obs.plot_tauint-466"><span class="linenos">466</span></a>                <span class="n">base</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]]</span>
-</span><span id="Obs.plot_tauint-467"><a href="#Obs.plot_tauint-467"><span class="linenos">467</span></a>                <span class="n">x_help</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span>
-</span><span id="Obs.plot_tauint-468"><a href="#Obs.plot_tauint-468"><span class="linenos">468</span></a>                <span class="n">y_help</span> <span class="o">=</span> <span class="p">(</span><span class="n">x_help</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">x_help</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)))</span> <span class="o">+</span> <span class="n">base</span>
-</span><span id="Obs.plot_tauint-469"><a href="#Obs.plot_tauint-469"><span class="linenos">469</span></a>                <span class="n">x_arr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span>
-</span><span id="Obs.plot_tauint-470"><a href="#Obs.plot_tauint-470"><span class="linenos">470</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_arr</span><span class="p">,</span> <span class="n">y_help</span><span class="p">,</span> <span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_tauint-471"><a href="#Obs.plot_tauint-471"><span class="linenos">471</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span>
-</span><span id="Obs.plot_tauint-472"><a href="#Obs.plot_tauint-472"><span class="linenos">472</span></a>                             <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">,</span> <span class="n">mfc</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;axes.facecolor&#39;</span><span class="p">])</span>
-</span><span id="Obs.plot_tauint-473"><a href="#Obs.plot_tauint-473"><span class="linenos">473</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mf">1.5</span>
-</span><span id="Obs.plot_tauint-474"><a href="#Obs.plot_tauint-474"><span class="linenos">474</span></a>                <span class="n">label</span> <span class="o">=</span> <span class="n">e_name</span> <span class="o">+</span> <span class="sa">r</span><span class="s1">&#39;, $\tau_\mathrm</span><span class="si">{exp}</span><span class="s1">$=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">))</span>
-</span><span id="Obs.plot_tauint-475"><a href="#Obs.plot_tauint-475"><span class="linenos">475</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.plot_tauint-476"><a href="#Obs.plot_tauint-476"><span class="linenos">476</span></a>                <span class="n">label</span> <span class="o">=</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;, S=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">))</span>
-</span><span id="Obs.plot_tauint-477"><a href="#Obs.plot_tauint-477"><span class="linenos">477</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="mf">10.5</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
-</span><span id="Obs.plot_tauint-478"><a href="#Obs.plot_tauint-478"><span class="linenos">478</span></a>
-</span><span id="Obs.plot_tauint-479"><a href="#Obs.plot_tauint-479"><span class="linenos">479</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">length</span><span class="p">)[:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="n">label</span><span class="p">)</span>
-</span><span id="Obs.plot_tauint-480"><a href="#Obs.plot_tauint-480"><span class="linenos">480</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_tauint-481"><a href="#Obs.plot_tauint-481"><span class="linenos">481</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
-</span><span id="Obs.plot_tauint-482"><a href="#Obs.plot_tauint-482"><span class="linenos">482</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">)</span>
-</span><span id="Obs.plot_tauint-483"><a href="#Obs.plot_tauint-483"><span class="linenos">483</span></a>            <span class="n">ylim</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">()</span>
-</span><span id="Obs.plot_tauint-484"><a href="#Obs.plot_tauint-484"><span class="linenos">484</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">(</span><span class="n">bottom</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="nb">max</span><span class="p">(</span><span class="mf">1.0</span><span class="p">,</span> <span class="n">ylim</span><span class="p">[</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="Obs.plot_tauint-485"><a href="#Obs.plot_tauint-485"><span class="linenos">485</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="Obs.plot_tauint-486"><a href="#Obs.plot_tauint-486"><span class="linenos">486</span></a>            <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
-</span><span id="Obs.plot_tauint-487"><a href="#Obs.plot_tauint-487"><span class="linenos">487</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span> <span class="o">+</span> <span class="s2">&quot;_&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
+    <a class="headerlink" href="#Obs.plot_tauint"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.plot_tauint-450"><a href="#Obs.plot_tauint-450"><span class="linenos">450</span></a>    <span class="k">def</span> <span class="nf">plot_tauint</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Obs.plot_tauint-451"><a href="#Obs.plot_tauint-451"><span class="linenos">451</span></a>        <span class="sd">&quot;&quot;&quot;Plot integrated autocorrelation time for each ensemble.</span>
+</span><span id="Obs.plot_tauint-452"><a href="#Obs.plot_tauint-452"><span class="linenos">452</span></a>
+</span><span id="Obs.plot_tauint-453"><a href="#Obs.plot_tauint-453"><span class="linenos">453</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs.plot_tauint-454"><a href="#Obs.plot_tauint-454"><span class="linenos">454</span></a><span class="sd">        ----------</span>
+</span><span id="Obs.plot_tauint-455"><a href="#Obs.plot_tauint-455"><span class="linenos">455</span></a><span class="sd">        save : str</span>
+</span><span id="Obs.plot_tauint-456"><a href="#Obs.plot_tauint-456"><span class="linenos">456</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
+</span><span id="Obs.plot_tauint-457"><a href="#Obs.plot_tauint-457"><span class="linenos">457</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs.plot_tauint-458"><a href="#Obs.plot_tauint-458"><span class="linenos">458</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="Obs.plot_tauint-459"><a href="#Obs.plot_tauint-459"><span class="linenos">459</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_tauint-460"><a href="#Obs.plot_tauint-460"><span class="linenos">460</span></a>
+</span><span id="Obs.plot_tauint-461"><a href="#Obs.plot_tauint-461"><span class="linenos">461</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="Obs.plot_tauint-462"><a href="#Obs.plot_tauint-462"><span class="linenos">462</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="Obs.plot_tauint-463"><a href="#Obs.plot_tauint-463"><span class="linenos">463</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$W$&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_tauint-464"><a href="#Obs.plot_tauint-464"><span class="linenos">464</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$\tau_\mathrm</span><span class="si">{int}</span><span class="s1">$&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_tauint-465"><a href="#Obs.plot_tauint-465"><span class="linenos">465</span></a>            <span class="n">length</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs.plot_tauint-466"><a href="#Obs.plot_tauint-466"><span class="linenos">466</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Obs.plot_tauint-467"><a href="#Obs.plot_tauint-467"><span class="linenos">467</span></a>                <span class="n">base</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]]</span>
+</span><span id="Obs.plot_tauint-468"><a href="#Obs.plot_tauint-468"><span class="linenos">468</span></a>                <span class="n">x_help</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span>
+</span><span id="Obs.plot_tauint-469"><a href="#Obs.plot_tauint-469"><span class="linenos">469</span></a>                <span class="n">y_help</span> <span class="o">=</span> <span class="p">(</span><span class="n">x_help</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">x_help</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)))</span> <span class="o">+</span> <span class="n">base</span>
+</span><span id="Obs.plot_tauint-470"><a href="#Obs.plot_tauint-470"><span class="linenos">470</span></a>                <span class="n">x_arr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span>
+</span><span id="Obs.plot_tauint-471"><a href="#Obs.plot_tauint-471"><span class="linenos">471</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x_arr</span><span class="p">,</span> <span class="n">y_help</span><span class="p">,</span> <span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_tauint-472"><a href="#Obs.plot_tauint-472"><span class="linenos">472</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span>
+</span><span id="Obs.plot_tauint-473"><a href="#Obs.plot_tauint-473"><span class="linenos">473</span></a>                             <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;o&#39;</span><span class="p">,</span> <span class="n">mfc</span><span class="o">=</span><span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="p">[</span><span class="s1">&#39;axes.facecolor&#39;</span><span class="p">])</span>
+</span><span id="Obs.plot_tauint-474"><a href="#Obs.plot_tauint-474"><span class="linenos">474</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mf">1.5</span>
+</span><span id="Obs.plot_tauint-475"><a href="#Obs.plot_tauint-475"><span class="linenos">475</span></a>                <span class="n">label</span> <span class="o">=</span> <span class="n">e_name</span> <span class="o">+</span> <span class="sa">r</span><span class="s1">&#39;, $\tau_\mathrm</span><span class="si">{exp}</span><span class="s1">$=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">))</span>
+</span><span id="Obs.plot_tauint-476"><a href="#Obs.plot_tauint-476"><span class="linenos">476</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.plot_tauint-477"><a href="#Obs.plot_tauint-477"><span class="linenos">477</span></a>                <span class="n">label</span> <span class="o">=</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;, S=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">))</span>
+</span><span id="Obs.plot_tauint-478"><a href="#Obs.plot_tauint-478"><span class="linenos">478</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="mf">10.5</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
+</span><span id="Obs.plot_tauint-479"><a href="#Obs.plot_tauint-479"><span class="linenos">479</span></a>
+</span><span id="Obs.plot_tauint-480"><a href="#Obs.plot_tauint-480"><span class="linenos">480</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">length</span><span class="p">)[:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_n_tauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_n_dtauint</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="nb">int</span><span class="p">(</span><span class="n">xmax</span><span class="p">)</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="n">label</span><span class="p">)</span>
+</span><span id="Obs.plot_tauint-481"><a href="#Obs.plot_tauint-481"><span class="linenos">481</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;C&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">),</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_tauint-482"><a href="#Obs.plot_tauint-482"><span class="linenos">482</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
+</span><span id="Obs.plot_tauint-483"><a href="#Obs.plot_tauint-483"><span class="linenos">483</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">)</span>
+</span><span id="Obs.plot_tauint-484"><a href="#Obs.plot_tauint-484"><span class="linenos">484</span></a>            <span class="n">ylim</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">()</span>
+</span><span id="Obs.plot_tauint-485"><a href="#Obs.plot_tauint-485"><span class="linenos">485</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">(</span><span class="n">bottom</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="nb">max</span><span class="p">(</span><span class="mf">1.0</span><span class="p">,</span> <span class="n">ylim</span><span class="p">[</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="Obs.plot_tauint-486"><a href="#Obs.plot_tauint-486"><span class="linenos">486</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="Obs.plot_tauint-487"><a href="#Obs.plot_tauint-487"><span class="linenos">487</span></a>            <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
+</span><span id="Obs.plot_tauint-488"><a href="#Obs.plot_tauint-488"><span class="linenos">488</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span> <span class="o">+</span> <span class="s2">&quot;_&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Plot integrated autocorrelation time for each ensemble.</p>
 
@@ -3519,48 +3546,48 @@ saves the figure to a file named 'save' if.</li>
 
                             </div>
                             <div id="Obs.plot_rho" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.plot_rho">#&nbsp;&nbsp</a>
+                                        <input id="Obs.plot_rho-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">plot_rho</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">save</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.plot_rho-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">plot_rho</span><span class="signature">(self, save=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.plot_rho-489"><a href="#Obs.plot_rho-489"><span class="linenos">489</span></a>    <span class="k">def</span> <span class="nf">plot_rho</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Obs.plot_rho-490"><a href="#Obs.plot_rho-490"><span class="linenos">490</span></a>        <span class="sd">&quot;&quot;&quot;Plot normalized autocorrelation function time for each ensemble.</span>
-</span><span id="Obs.plot_rho-491"><a href="#Obs.plot_rho-491"><span class="linenos">491</span></a>
-</span><span id="Obs.plot_rho-492"><a href="#Obs.plot_rho-492"><span class="linenos">492</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs.plot_rho-493"><a href="#Obs.plot_rho-493"><span class="linenos">493</span></a><span class="sd">        ----------</span>
-</span><span id="Obs.plot_rho-494"><a href="#Obs.plot_rho-494"><span class="linenos">494</span></a><span class="sd">        save : str</span>
-</span><span id="Obs.plot_rho-495"><a href="#Obs.plot_rho-495"><span class="linenos">495</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
-</span><span id="Obs.plot_rho-496"><a href="#Obs.plot_rho-496"><span class="linenos">496</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs.plot_rho-497"><a href="#Obs.plot_rho-497"><span class="linenos">497</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="Obs.plot_rho-498"><a href="#Obs.plot_rho-498"><span class="linenos">498</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_rho-499"><a href="#Obs.plot_rho-499"><span class="linenos">499</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="Obs.plot_rho-500"><a href="#Obs.plot_rho-500"><span class="linenos">500</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="Obs.plot_rho-501"><a href="#Obs.plot_rho-501"><span class="linenos">501</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;W&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_rho-502"><a href="#Obs.plot_rho-502"><span class="linenos">502</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;rho&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_rho-503"><a href="#Obs.plot_rho-503"><span class="linenos">503</span></a>            <span class="n">length</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs.plot_rho-504"><a href="#Obs.plot_rho-504"><span class="linenos">504</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">length</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="n">length</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:],</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
-</span><span id="Obs.plot_rho-505"><a href="#Obs.plot_rho-505"><span class="linenos">505</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.25</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_rho-506"><a href="#Obs.plot_rho-506"><span class="linenos">506</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="Obs.plot_rho-507"><a href="#Obs.plot_rho-507"><span class="linenos">507</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span>
-</span><span id="Obs.plot_rho-508"><a href="#Obs.plot_rho-508"><span class="linenos">508</span></a>                         <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="mi">0</span><span class="p">],</span> <span class="s1">&#39;k-&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs.plot_rho-509"><a href="#Obs.plot_rho-509"><span class="linenos">509</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mf">1.5</span>
-</span><span id="Obs.plot_rho-510"><a href="#Obs.plot_rho-510"><span class="linenos">510</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Rho &#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="sa">r</span><span class="s1">&#39;, tau\_exp=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">)))</span>
-</span><span id="Obs.plot_rho-511"><a href="#Obs.plot_rho-511"><span class="linenos">511</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.plot_rho-512"><a href="#Obs.plot_rho-512"><span class="linenos">512</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="mf">10.5</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
-</span><span id="Obs.plot_rho-513"><a href="#Obs.plot_rho-513"><span class="linenos">513</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Rho &#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;, S=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">)))</span>
-</span><span id="Obs.plot_rho-514"><a href="#Obs.plot_rho-514"><span class="linenos">514</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">([</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="s1">&#39;k--&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs.plot_rho-515"><a href="#Obs.plot_rho-515"><span class="linenos">515</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">)</span>
-</span><span id="Obs.plot_rho-516"><a href="#Obs.plot_rho-516"><span class="linenos">516</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="Obs.plot_rho-517"><a href="#Obs.plot_rho-517"><span class="linenos">517</span></a>            <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
-</span><span id="Obs.plot_rho-518"><a href="#Obs.plot_rho-518"><span class="linenos">518</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span> <span class="o">+</span> <span class="s2">&quot;_&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
+    <a class="headerlink" href="#Obs.plot_rho"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.plot_rho-490"><a href="#Obs.plot_rho-490"><span class="linenos">490</span></a>    <span class="k">def</span> <span class="nf">plot_rho</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Obs.plot_rho-491"><a href="#Obs.plot_rho-491"><span class="linenos">491</span></a>        <span class="sd">&quot;&quot;&quot;Plot normalized autocorrelation function time for each ensemble.</span>
+</span><span id="Obs.plot_rho-492"><a href="#Obs.plot_rho-492"><span class="linenos">492</span></a>
+</span><span id="Obs.plot_rho-493"><a href="#Obs.plot_rho-493"><span class="linenos">493</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs.plot_rho-494"><a href="#Obs.plot_rho-494"><span class="linenos">494</span></a><span class="sd">        ----------</span>
+</span><span id="Obs.plot_rho-495"><a href="#Obs.plot_rho-495"><span class="linenos">495</span></a><span class="sd">        save : str</span>
+</span><span id="Obs.plot_rho-496"><a href="#Obs.plot_rho-496"><span class="linenos">496</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
+</span><span id="Obs.plot_rho-497"><a href="#Obs.plot_rho-497"><span class="linenos">497</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs.plot_rho-498"><a href="#Obs.plot_rho-498"><span class="linenos">498</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="Obs.plot_rho-499"><a href="#Obs.plot_rho-499"><span class="linenos">499</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_rho-500"><a href="#Obs.plot_rho-500"><span class="linenos">500</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="Obs.plot_rho-501"><a href="#Obs.plot_rho-501"><span class="linenos">501</span></a>            <span class="n">fig</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="Obs.plot_rho-502"><a href="#Obs.plot_rho-502"><span class="linenos">502</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s1">&#39;W&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_rho-503"><a href="#Obs.plot_rho-503"><span class="linenos">503</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s1">&#39;rho&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_rho-504"><a href="#Obs.plot_rho-504"><span class="linenos">504</span></a>            <span class="n">length</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs.plot_rho-505"><a href="#Obs.plot_rho-505"><span class="linenos">505</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">length</span><span class="p">),</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:</span><span class="n">length</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_drho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][:],</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">capsize</span><span class="o">=</span><span class="mi">2</span><span class="p">)</span>
+</span><span id="Obs.plot_rho-506"><a href="#Obs.plot_rho-506"><span class="linenos">506</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;r&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.25</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">marker</span><span class="o">=</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_rho-507"><a href="#Obs.plot_rho-507"><span class="linenos">507</span></a>            <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="Obs.plot_rho-508"><a href="#Obs.plot_rho-508"><span class="linenos">508</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]],</span>
+</span><span id="Obs.plot_rho-509"><a href="#Obs.plot_rho-509"><span class="linenos">509</span></a>                         <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_rho</span><span class="p">[</span><span class="n">e_name</span><span class="p">][</span><span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">],</span> <span class="mi">0</span><span class="p">],</span> <span class="s1">&#39;k-&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs.plot_rho-510"><a href="#Obs.plot_rho-510"><span class="linenos">510</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">+</span> <span class="mf">1.5</span>
+</span><span id="Obs.plot_rho-511"><a href="#Obs.plot_rho-511"><span class="linenos">511</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Rho &#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="sa">r</span><span class="s1">&#39;, tau\_exp=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">tau_exp</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">)))</span>
+</span><span id="Obs.plot_rho-512"><a href="#Obs.plot_rho-512"><span class="linenos">512</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.plot_rho-513"><a href="#Obs.plot_rho-513"><span class="linenos">513</span></a>                <span class="n">xmax</span> <span class="o">=</span> <span class="nb">max</span><span class="p">(</span><span class="mf">10.5</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_windowsize</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
+</span><span id="Obs.plot_rho-514"><a href="#Obs.plot_rho-514"><span class="linenos">514</span></a>                <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Rho &#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39;, S=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">around</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">S</span><span class="p">[</span><span class="n">e_name</span><span class="p">],</span> <span class="n">decimals</span><span class="o">=</span><span class="mi">2</span><span class="p">)))</span>
+</span><span id="Obs.plot_rho-515"><a href="#Obs.plot_rho-515"><span class="linenos">515</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">([</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">],</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">],</span> <span class="s1">&#39;k--&#39;</span><span class="p">,</span> <span class="n">lw</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs.plot_rho-516"><a href="#Obs.plot_rho-516"><span class="linenos">516</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">xmax</span><span class="p">)</span>
+</span><span id="Obs.plot_rho-517"><a href="#Obs.plot_rho-517"><span class="linenos">517</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="Obs.plot_rho-518"><a href="#Obs.plot_rho-518"><span class="linenos">518</span></a>            <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
+</span><span id="Obs.plot_rho-519"><a href="#Obs.plot_rho-519"><span class="linenos">519</span></a>                <span class="n">fig</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span> <span class="o">+</span> <span class="s2">&quot;_&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Plot normalized autocorrelation function time for each ensemble.</p>
 
@@ -3575,39 +3602,39 @@ saves the figure to a file named 'save' if.</li>
 
                             </div>
                             <div id="Obs.plot_rep_dist" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.plot_rep_dist">#&nbsp;&nbsp</a>
+                                        <input id="Obs.plot_rep_dist-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">plot_rep_dist</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.plot_rep_dist-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">plot_rep_dist</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.plot_rep_dist-520"><a href="#Obs.plot_rep_dist-520"><span class="linenos">520</span></a>    <span class="k">def</span> <span class="nf">plot_rep_dist</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.plot_rep_dist-521"><a href="#Obs.plot_rep_dist-521"><span class="linenos">521</span></a>        <span class="sd">&quot;&quot;&quot;Plot replica distribution for each ensemble with more than one replicum.&quot;&quot;&quot;</span>
-</span><span id="Obs.plot_rep_dist-522"><a href="#Obs.plot_rep_dist-522"><span class="linenos">522</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="Obs.plot_rep_dist-523"><a href="#Obs.plot_rep_dist-523"><span class="linenos">523</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_rep_dist-524"><a href="#Obs.plot_rep_dist-524"><span class="linenos">524</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="Obs.plot_rep_dist-525"><a href="#Obs.plot_rep_dist-525"><span class="linenos">525</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs.plot_rep_dist-526"><a href="#Obs.plot_rep_dist-526"><span class="linenos">526</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;No replica distribution for a single replicum (&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;)&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_rep_dist-527"><a href="#Obs.plot_rep_dist-527"><span class="linenos">527</span></a>                <span class="k">continue</span>
-</span><span id="Obs.plot_rep_dist-528"><a href="#Obs.plot_rep_dist-528"><span class="linenos">528</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs.plot_rep_dist-529"><a href="#Obs.plot_rep_dist-529"><span class="linenos">529</span></a>            <span class="n">sub_r_mean</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="Obs.plot_rep_dist-530"><a href="#Obs.plot_rep_dist-530"><span class="linenos">530</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
-</span><span id="Obs.plot_rep_dist-531"><a href="#Obs.plot_rep_dist-531"><span class="linenos">531</span></a>                <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
-</span><span id="Obs.plot_rep_dist-532"><a href="#Obs.plot_rep_dist-532"><span class="linenos">532</span></a>                <span class="n">sub_r_mean</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span>
-</span><span id="Obs.plot_rep_dist-533"><a href="#Obs.plot_rep_dist-533"><span class="linenos">533</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span>
-</span><span id="Obs.plot_rep_dist-534"><a href="#Obs.plot_rep_dist-534"><span class="linenos">534</span></a>            <span class="n">sub_r_mean</span> <span class="o">/=</span> <span class="n">e_N</span>
-</span><span id="Obs.plot_rep_dist-535"><a href="#Obs.plot_rep_dist-535"><span class="linenos">535</span></a>            <span class="n">arr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs.plot_rep_dist-536"><a href="#Obs.plot_rep_dist-536"><span class="linenos">536</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
-</span><span id="Obs.plot_rep_dist-537"><a href="#Obs.plot_rep_dist-537"><span class="linenos">537</span></a>                <span class="n">arr</span><span class="p">[</span><span class="n">r</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">-</span> <span class="n">sub_r_mean</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">e_N</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="Obs.plot_rep_dist-538"><a href="#Obs.plot_rep_dist-538"><span class="linenos">538</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">hist</span><span class="p">(</span><span class="n">arr</span><span class="p">,</span> <span class="n">rwidth</span><span class="o">=</span><span class="mf">0.8</span><span class="p">,</span> <span class="n">bins</span><span class="o">=</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
-</span><span id="Obs.plot_rep_dist-539"><a href="#Obs.plot_rep_dist-539"><span class="linenos">539</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Replica distribution&#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39; (mean=0, var=1)&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_rep_dist-540"><a href="#Obs.plot_rep_dist-540"><span class="linenos">540</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+    <a class="headerlink" href="#Obs.plot_rep_dist"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.plot_rep_dist-521"><a href="#Obs.plot_rep_dist-521"><span class="linenos">521</span></a>    <span class="k">def</span> <span class="nf">plot_rep_dist</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.plot_rep_dist-522"><a href="#Obs.plot_rep_dist-522"><span class="linenos">522</span></a>        <span class="sd">&quot;&quot;&quot;Plot replica distribution for each ensemble with more than one replicum.&quot;&quot;&quot;</span>
+</span><span id="Obs.plot_rep_dist-523"><a href="#Obs.plot_rep_dist-523"><span class="linenos">523</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="Obs.plot_rep_dist-524"><a href="#Obs.plot_rep_dist-524"><span class="linenos">524</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_rep_dist-525"><a href="#Obs.plot_rep_dist-525"><span class="linenos">525</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="Obs.plot_rep_dist-526"><a href="#Obs.plot_rep_dist-526"><span class="linenos">526</span></a>            <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">])</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs.plot_rep_dist-527"><a href="#Obs.plot_rep_dist-527"><span class="linenos">527</span></a>                <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;No replica distribution for a single replicum (&#39;</span><span class="p">,</span> <span class="n">e_name</span><span class="p">,</span> <span class="s1">&#39;)&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_rep_dist-528"><a href="#Obs.plot_rep_dist-528"><span class="linenos">528</span></a>                <span class="k">continue</span>
+</span><span id="Obs.plot_rep_dist-529"><a href="#Obs.plot_rep_dist-529"><span class="linenos">529</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs.plot_rep_dist-530"><a href="#Obs.plot_rep_dist-530"><span class="linenos">530</span></a>            <span class="n">sub_r_mean</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="Obs.plot_rep_dist-531"><a href="#Obs.plot_rep_dist-531"><span class="linenos">531</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
+</span><span id="Obs.plot_rep_dist-532"><a href="#Obs.plot_rep_dist-532"><span class="linenos">532</span></a>                <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]))</span>
+</span><span id="Obs.plot_rep_dist-533"><a href="#Obs.plot_rep_dist-533"><span class="linenos">533</span></a>                <span class="n">sub_r_mean</span> <span class="o">+=</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">*</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span>
+</span><span id="Obs.plot_rep_dist-534"><a href="#Obs.plot_rep_dist-534"><span class="linenos">534</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span>
+</span><span id="Obs.plot_rep_dist-535"><a href="#Obs.plot_rep_dist-535"><span class="linenos">535</span></a>            <span class="n">sub_r_mean</span> <span class="o">/=</span> <span class="n">e_N</span>
+</span><span id="Obs.plot_rep_dist-536"><a href="#Obs.plot_rep_dist-536"><span class="linenos">536</span></a>            <span class="n">arr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs.plot_rep_dist-537"><a href="#Obs.plot_rep_dist-537"><span class="linenos">537</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
+</span><span id="Obs.plot_rep_dist-538"><a href="#Obs.plot_rep_dist-538"><span class="linenos">538</span></a>                <span class="n">arr</span><span class="p">[</span><span class="n">r</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">-</span> <span class="n">sub_r_mean</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">e_name</span><span class="p">]</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">e_N</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="Obs.plot_rep_dist-539"><a href="#Obs.plot_rep_dist-539"><span class="linenos">539</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">hist</span><span class="p">(</span><span class="n">arr</span><span class="p">,</span> <span class="n">rwidth</span><span class="o">=</span><span class="mf">0.8</span><span class="p">,</span> <span class="n">bins</span><span class="o">=</span><span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]))</span>
+</span><span id="Obs.plot_rep_dist-540"><a href="#Obs.plot_rep_dist-540"><span class="linenos">540</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="s1">&#39;Replica distribution&#39;</span> <span class="o">+</span> <span class="n">e_name</span> <span class="o">+</span> <span class="s1">&#39; (mean=0, var=1)&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_rep_dist-541"><a href="#Obs.plot_rep_dist-541"><span class="linenos">541</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Plot replica distribution for each ensemble with more than one replicum.</p>
 </div>
@@ -3615,49 +3642,49 @@ saves the figure to a file named 'save' if.</li>
 
                             </div>
                             <div id="Obs.plot_history" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.plot_history">#&nbsp;&nbsp</a>
+                                        <input id="Obs.plot_history-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">plot_history</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">expand</span><span class="o">=</span><span class="kc">True</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.plot_history-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">plot_history</span><span class="signature">(self, expand=True)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.plot_history-542"><a href="#Obs.plot_history-542"><span class="linenos">542</span></a>    <span class="k">def</span> <span class="nf">plot_history</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">expand</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
-</span><span id="Obs.plot_history-543"><a href="#Obs.plot_history-543"><span class="linenos">543</span></a>        <span class="sd">&quot;&quot;&quot;Plot derived Monte Carlo history for each ensemble</span>
-</span><span id="Obs.plot_history-544"><a href="#Obs.plot_history-544"><span class="linenos">544</span></a>
-</span><span id="Obs.plot_history-545"><a href="#Obs.plot_history-545"><span class="linenos">545</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs.plot_history-546"><a href="#Obs.plot_history-546"><span class="linenos">546</span></a><span class="sd">        ----------</span>
-</span><span id="Obs.plot_history-547"><a href="#Obs.plot_history-547"><span class="linenos">547</span></a><span class="sd">        expand : bool</span>
-</span><span id="Obs.plot_history-548"><a href="#Obs.plot_history-548"><span class="linenos">548</span></a><span class="sd">            show expanded history for irregular Monte Carlo chains (default: True).</span>
-</span><span id="Obs.plot_history-549"><a href="#Obs.plot_history-549"><span class="linenos">549</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs.plot_history-550"><a href="#Obs.plot_history-550"><span class="linenos">550</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
-</span><span id="Obs.plot_history-551"><a href="#Obs.plot_history-551"><span class="linenos">551</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
-</span><span id="Obs.plot_history-552"><a href="#Obs.plot_history-552"><span class="linenos">552</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs.plot_history-553"><a href="#Obs.plot_history-553"><span class="linenos">553</span></a>            <span class="n">tmp</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs.plot_history-554"><a href="#Obs.plot_history-554"><span class="linenos">554</span></a>            <span class="n">tmp_expanded</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="Obs.plot_history-555"><a href="#Obs.plot_history-555"><span class="linenos">555</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
-</span><span id="Obs.plot_history-556"><a href="#Obs.plot_history-556"><span class="linenos">556</span></a>                <span class="n">tmp</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
-</span><span id="Obs.plot_history-557"><a href="#Obs.plot_history-557"><span class="linenos">557</span></a>                <span class="k">if</span> <span class="n">expand</span><span class="p">:</span>
-</span><span id="Obs.plot_history-558"><a href="#Obs.plot_history-558"><span class="linenos">558</span></a>                    <span class="n">tmp_expanded</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_expand_deltas</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]),</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
-</span><span id="Obs.plot_history-559"><a href="#Obs.plot_history-559"><span class="linenos">559</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp_expanded</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="Obs.plot_history-560"><a href="#Obs.plot_history-560"><span class="linenos">560</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.plot_history-561"><a href="#Obs.plot_history-561"><span class="linenos">561</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
-</span><span id="Obs.plot_history-562"><a href="#Obs.plot_history-562"><span class="linenos">562</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span>
-</span><span id="Obs.plot_history-563"><a href="#Obs.plot_history-563"><span class="linenos">563</span></a>            <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">e_N</span><span class="p">)</span>
-</span><span id="Obs.plot_history-564"><a href="#Obs.plot_history-564"><span class="linenos">564</span></a>            <span class="n">y_test</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="Obs.plot_history-565"><a href="#Obs.plot_history-565"><span class="linenos">565</span></a>            <span class="k">if</span> <span class="n">expand</span><span class="p">:</span>
-</span><span id="Obs.plot_history-566"><a href="#Obs.plot_history-566"><span class="linenos">566</span></a>                <span class="n">y</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">tmp_expanded</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
-</span><span id="Obs.plot_history-567"><a href="#Obs.plot_history-567"><span class="linenos">567</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.plot_history-568"><a href="#Obs.plot_history-568"><span class="linenos">568</span></a>                <span class="n">y</span> <span class="o">=</span> <span class="n">y_test</span>
-</span><span id="Obs.plot_history-569"><a href="#Obs.plot_history-569"><span class="linenos">569</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;.&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">3</span><span class="p">)</span>
-</span><span id="Obs.plot_history-570"><a href="#Obs.plot_history-570"><span class="linenos">570</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">e_N</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
-</span><span id="Obs.plot_history-571"><a href="#Obs.plot_history-571"><span class="linenos">571</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">e_name</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">skew: </span><span class="si">{</span><span class="n">skew</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1"> (p=</span><span class="si">{</span><span class="n">skewtest</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="o">.</span><span class="n">pvalue</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1">), kurtosis: </span><span class="si">{</span><span class="n">kurtosis</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1"> (p=</span><span class="si">{</span><span class="n">kurtosistest</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="o">.</span><span class="n">pvalue</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1">)&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_history-572"><a href="#Obs.plot_history-572"><span class="linenos">572</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+    <a class="headerlink" href="#Obs.plot_history"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.plot_history-543"><a href="#Obs.plot_history-543"><span class="linenos">543</span></a>    <span class="k">def</span> <span class="nf">plot_history</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">expand</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
+</span><span id="Obs.plot_history-544"><a href="#Obs.plot_history-544"><span class="linenos">544</span></a>        <span class="sd">&quot;&quot;&quot;Plot derived Monte Carlo history for each ensemble</span>
+</span><span id="Obs.plot_history-545"><a href="#Obs.plot_history-545"><span class="linenos">545</span></a>
+</span><span id="Obs.plot_history-546"><a href="#Obs.plot_history-546"><span class="linenos">546</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs.plot_history-547"><a href="#Obs.plot_history-547"><span class="linenos">547</span></a><span class="sd">        ----------</span>
+</span><span id="Obs.plot_history-548"><a href="#Obs.plot_history-548"><span class="linenos">548</span></a><span class="sd">        expand : bool</span>
+</span><span id="Obs.plot_history-549"><a href="#Obs.plot_history-549"><span class="linenos">549</span></a><span class="sd">            show expanded history for irregular Monte Carlo chains (default: True).</span>
+</span><span id="Obs.plot_history-550"><a href="#Obs.plot_history-550"><span class="linenos">550</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs.plot_history-551"><a href="#Obs.plot_history-551"><span class="linenos">551</span></a>        <span class="k">for</span> <span class="n">e</span><span class="p">,</span> <span class="n">e_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">mc_names</span><span class="p">):</span>
+</span><span id="Obs.plot_history-552"><a href="#Obs.plot_history-552"><span class="linenos">552</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
+</span><span id="Obs.plot_history-553"><a href="#Obs.plot_history-553"><span class="linenos">553</span></a>            <span class="n">r_length</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs.plot_history-554"><a href="#Obs.plot_history-554"><span class="linenos">554</span></a>            <span class="n">tmp</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs.plot_history-555"><a href="#Obs.plot_history-555"><span class="linenos">555</span></a>            <span class="n">tmp_expanded</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="Obs.plot_history-556"><a href="#Obs.plot_history-556"><span class="linenos">556</span></a>            <span class="k">for</span> <span class="n">r</span><span class="p">,</span> <span class="n">r_name</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_content</span><span class="p">[</span><span class="n">e_name</span><span class="p">]):</span>
+</span><span id="Obs.plot_history-557"><a href="#Obs.plot_history-557"><span class="linenos">557</span></a>                <span class="n">tmp</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
+</span><span id="Obs.plot_history-558"><a href="#Obs.plot_history-558"><span class="linenos">558</span></a>                <span class="k">if</span> <span class="n">expand</span><span class="p">:</span>
+</span><span id="Obs.plot_history-559"><a href="#Obs.plot_history-559"><span class="linenos">559</span></a>                    <span class="n">tmp_expanded</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">_expand_deltas</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">r_name</span><span class="p">],</span> <span class="nb">list</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">r_name</span><span class="p">]),</span> <span class="bp">self</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">r_name</span><span class="p">])</span>
+</span><span id="Obs.plot_history-560"><a href="#Obs.plot_history-560"><span class="linenos">560</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp_expanded</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="Obs.plot_history-561"><a href="#Obs.plot_history-561"><span class="linenos">561</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.plot_history-562"><a href="#Obs.plot_history-562"><span class="linenos">562</span></a>                    <span class="n">r_length</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
+</span><span id="Obs.plot_history-563"><a href="#Obs.plot_history-563"><span class="linenos">563</span></a>            <span class="n">e_N</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">r_length</span><span class="p">)</span>
+</span><span id="Obs.plot_history-564"><a href="#Obs.plot_history-564"><span class="linenos">564</span></a>            <span class="n">x</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">arange</span><span class="p">(</span><span class="n">e_N</span><span class="p">)</span>
+</span><span id="Obs.plot_history-565"><a href="#Obs.plot_history-565"><span class="linenos">565</span></a>            <span class="n">y_test</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">tmp</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="Obs.plot_history-566"><a href="#Obs.plot_history-566"><span class="linenos">566</span></a>            <span class="k">if</span> <span class="n">expand</span><span class="p">:</span>
+</span><span id="Obs.plot_history-567"><a href="#Obs.plot_history-567"><span class="linenos">567</span></a>                <span class="n">y</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span><span class="n">tmp_expanded</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
+</span><span id="Obs.plot_history-568"><a href="#Obs.plot_history-568"><span class="linenos">568</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.plot_history-569"><a href="#Obs.plot_history-569"><span class="linenos">569</span></a>                <span class="n">y</span> <span class="o">=</span> <span class="n">y_test</span>
+</span><span id="Obs.plot_history-570"><a href="#Obs.plot_history-570"><span class="linenos">570</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">,</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;.&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">3</span><span class="p">)</span>
+</span><span id="Obs.plot_history-571"><a href="#Obs.plot_history-571"><span class="linenos">571</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">e_N</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">)</span>
+</span><span id="Obs.plot_history-572"><a href="#Obs.plot_history-572"><span class="linenos">572</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">e_name</span> <span class="o">+</span> <span class="sa">f</span><span class="s1">&#39;</span><span class="se">\n</span><span class="s1">skew: </span><span class="si">{</span><span class="n">skew</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1"> (p=</span><span class="si">{</span><span class="n">skewtest</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="o">.</span><span class="n">pvalue</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1">), kurtosis: </span><span class="si">{</span><span class="n">kurtosis</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1"> (p=</span><span class="si">{</span><span class="n">kurtosistest</span><span class="p">(</span><span class="n">y_test</span><span class="p">)</span><span class="o">.</span><span class="n">pvalue</span><span class="si">:</span><span class="s1">.3f</span><span class="si">}</span><span class="s1">)&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_history-573"><a href="#Obs.plot_history-573"><span class="linenos">573</span></a>            <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Plot derived Monte Carlo history for each ensemble</p>
 
@@ -3672,41 +3699,41 @@ show expanded history for irregular Monte Carlo chains (default: True).</li>
 
                             </div>
                             <div id="Obs.plot_piechart" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.plot_piechart">#&nbsp;&nbsp</a>
+                                        <input id="Obs.plot_piechart-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">plot_piechart</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">save</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.plot_piechart-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">plot_piechart</span><span class="signature">(self, save=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.plot_piechart-574"><a href="#Obs.plot_piechart-574"><span class="linenos">574</span></a>    <span class="k">def</span> <span class="nf">plot_piechart</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="Obs.plot_piechart-575"><a href="#Obs.plot_piechart-575"><span class="linenos">575</span></a>        <span class="sd">&quot;&quot;&quot;Plot piechart which shows the fractional contribution of each</span>
-</span><span id="Obs.plot_piechart-576"><a href="#Obs.plot_piechart-576"><span class="linenos">576</span></a><span class="sd">        ensemble to the error and returns a dictionary containing the fractions.</span>
-</span><span id="Obs.plot_piechart-577"><a href="#Obs.plot_piechart-577"><span class="linenos">577</span></a>
-</span><span id="Obs.plot_piechart-578"><a href="#Obs.plot_piechart-578"><span class="linenos">578</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs.plot_piechart-579"><a href="#Obs.plot_piechart-579"><span class="linenos">579</span></a><span class="sd">        ----------</span>
-</span><span id="Obs.plot_piechart-580"><a href="#Obs.plot_piechart-580"><span class="linenos">580</span></a><span class="sd">        save : str</span>
-</span><span id="Obs.plot_piechart-581"><a href="#Obs.plot_piechart-581"><span class="linenos">581</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
-</span><span id="Obs.plot_piechart-582"><a href="#Obs.plot_piechart-582"><span class="linenos">582</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs.plot_piechart-583"><a href="#Obs.plot_piechart-583"><span class="linenos">583</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
-</span><span id="Obs.plot_piechart-584"><a href="#Obs.plot_piechart-584"><span class="linenos">584</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_piechart-585"><a href="#Obs.plot_piechart-585"><span class="linenos">585</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">,</span> <span class="n">atol</span><span class="o">=</span><span class="mf">1e-15</span><span class="p">):</span>
-</span><span id="Obs.plot_piechart-586"><a href="#Obs.plot_piechart-586"><span class="linenos">586</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error is 0.0&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_piechart-587"><a href="#Obs.plot_piechart-587"><span class="linenos">587</span></a>        <span class="n">labels</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_names</span>
-</span><span id="Obs.plot_piechart-588"><a href="#Obs.plot_piechart-588"><span class="linenos">588</span></a>        <span class="n">sizes</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">labels</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="Obs.plot_piechart-589"><a href="#Obs.plot_piechart-589"><span class="linenos">589</span></a>        <span class="n">fig1</span><span class="p">,</span> <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplots</span><span class="p">()</span>
-</span><span id="Obs.plot_piechart-590"><a href="#Obs.plot_piechart-590"><span class="linenos">590</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">pie</span><span class="p">(</span><span class="n">sizes</span><span class="p">,</span> <span class="n">labels</span><span class="o">=</span><span class="n">labels</span><span class="p">,</span> <span class="n">startangle</span><span class="o">=</span><span class="mi">90</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
-</span><span id="Obs.plot_piechart-591"><a href="#Obs.plot_piechart-591"><span class="linenos">591</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">axis</span><span class="p">(</span><span class="s1">&#39;equal&#39;</span><span class="p">)</span>
-</span><span id="Obs.plot_piechart-592"><a href="#Obs.plot_piechart-592"><span class="linenos">592</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="Obs.plot_piechart-593"><a href="#Obs.plot_piechart-593"><span class="linenos">593</span></a>        <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
-</span><span id="Obs.plot_piechart-594"><a href="#Obs.plot_piechart-594"><span class="linenos">594</span></a>            <span class="n">fig1</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span><span class="p">)</span>
-</span><span id="Obs.plot_piechart-595"><a href="#Obs.plot_piechart-595"><span class="linenos">595</span></a>
-</span><span id="Obs.plot_piechart-596"><a href="#Obs.plot_piechart-596"><span class="linenos">596</span></a>        <span class="k">return</span> <span class="nb">dict</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">,</span> <span class="n">sizes</span><span class="p">))</span>
+    <a class="headerlink" href="#Obs.plot_piechart"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.plot_piechart-575"><a href="#Obs.plot_piechart-575"><span class="linenos">575</span></a>    <span class="k">def</span> <span class="nf">plot_piechart</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">save</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="Obs.plot_piechart-576"><a href="#Obs.plot_piechart-576"><span class="linenos">576</span></a>        <span class="sd">&quot;&quot;&quot;Plot piechart which shows the fractional contribution of each</span>
+</span><span id="Obs.plot_piechart-577"><a href="#Obs.plot_piechart-577"><span class="linenos">577</span></a><span class="sd">        ensemble to the error and returns a dictionary containing the fractions.</span>
+</span><span id="Obs.plot_piechart-578"><a href="#Obs.plot_piechart-578"><span class="linenos">578</span></a>
+</span><span id="Obs.plot_piechart-579"><a href="#Obs.plot_piechart-579"><span class="linenos">579</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs.plot_piechart-580"><a href="#Obs.plot_piechart-580"><span class="linenos">580</span></a><span class="sd">        ----------</span>
+</span><span id="Obs.plot_piechart-581"><a href="#Obs.plot_piechart-581"><span class="linenos">581</span></a><span class="sd">        save : str</span>
+</span><span id="Obs.plot_piechart-582"><a href="#Obs.plot_piechart-582"><span class="linenos">582</span></a><span class="sd">            saves the figure to a file named &#39;save&#39; if.</span>
+</span><span id="Obs.plot_piechart-583"><a href="#Obs.plot_piechart-583"><span class="linenos">583</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs.plot_piechart-584"><a href="#Obs.plot_piechart-584"><span class="linenos">584</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">hasattr</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="s1">&#39;e_dvalue&#39;</span><span class="p">):</span>
+</span><span id="Obs.plot_piechart-585"><a href="#Obs.plot_piechart-585"><span class="linenos">585</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Run the gamma method first.&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_piechart-586"><a href="#Obs.plot_piechart-586"><span class="linenos">586</span></a>        <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">isclose</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span><span class="p">,</span> <span class="n">atol</span><span class="o">=</span><span class="mf">1e-15</span><span class="p">):</span>
+</span><span id="Obs.plot_piechart-587"><a href="#Obs.plot_piechart-587"><span class="linenos">587</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error is 0.0&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_piechart-588"><a href="#Obs.plot_piechart-588"><span class="linenos">588</span></a>        <span class="n">labels</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">e_names</span>
+</span><span id="Obs.plot_piechart-589"><a href="#Obs.plot_piechart-589"><span class="linenos">589</span></a>        <span class="n">sizes</span> <span class="o">=</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">e_dvalue</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">**</span> <span class="mi">2</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">labels</span><span class="p">]</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="Obs.plot_piechart-590"><a href="#Obs.plot_piechart-590"><span class="linenos">590</span></a>        <span class="n">fig1</span><span class="p">,</span> <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplots</span><span class="p">()</span>
+</span><span id="Obs.plot_piechart-591"><a href="#Obs.plot_piechart-591"><span class="linenos">591</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">pie</span><span class="p">(</span><span class="n">sizes</span><span class="p">,</span> <span class="n">labels</span><span class="o">=</span><span class="n">labels</span><span class="p">,</span> <span class="n">startangle</span><span class="o">=</span><span class="mi">90</span><span class="p">,</span> <span class="n">normalize</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
+</span><span id="Obs.plot_piechart-592"><a href="#Obs.plot_piechart-592"><span class="linenos">592</span></a>        <span class="n">ax1</span><span class="o">.</span><span class="n">axis</span><span class="p">(</span><span class="s1">&#39;equal&#39;</span><span class="p">)</span>
+</span><span id="Obs.plot_piechart-593"><a href="#Obs.plot_piechart-593"><span class="linenos">593</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="Obs.plot_piechart-594"><a href="#Obs.plot_piechart-594"><span class="linenos">594</span></a>        <span class="k">if</span> <span class="n">save</span><span class="p">:</span>
+</span><span id="Obs.plot_piechart-595"><a href="#Obs.plot_piechart-595"><span class="linenos">595</span></a>            <span class="n">fig1</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">save</span><span class="p">)</span>
+</span><span id="Obs.plot_piechart-596"><a href="#Obs.plot_piechart-596"><span class="linenos">596</span></a>
+</span><span id="Obs.plot_piechart-597"><a href="#Obs.plot_piechart-597"><span class="linenos">597</span></a>        <span class="k">return</span> <span class="nb">dict</span><span class="p">(</span><span class="nb">zip</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">e_names</span><span class="p">,</span> <span class="n">sizes</span><span class="p">))</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Plot piechart which shows the fractional contribution of each
 ensemble to the error and returns a dictionary containing the fractions.</p>
@@ -3722,46 +3749,46 @@ saves the figure to a file named 'save' if.</li>
 
                             </div>
                             <div id="Obs.dump" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.dump">#&nbsp;&nbsp</a>
+                                        <input id="Obs.dump-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">dump</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="n">filename</span>, </span><span class="param"><span class="n">datatype</span><span class="o">=</span><span class="s1">&#39;json.gz&#39;</span>, </span><span class="param"><span class="n">description</span><span class="o">=</span><span class="s1">&#39;&#39;</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.dump-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">dump</span><span class="signature">(self, filename, datatype=&#39;json.gz&#39;, description=&#39;&#39;, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.dump-598"><a href="#Obs.dump-598"><span class="linenos">598</span></a>    <span class="k">def</span> <span class="nf">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="n">datatype</span><span class="o">=</span><span class="s2">&quot;json.gz&quot;</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s2">&quot;&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="Obs.dump-599"><a href="#Obs.dump-599"><span class="linenos">599</span></a>        <span class="sd">&quot;&quot;&quot;Dump the Obs to a file &#39;name&#39; of chosen format.</span>
-</span><span id="Obs.dump-600"><a href="#Obs.dump-600"><span class="linenos">600</span></a>
-</span><span id="Obs.dump-601"><a href="#Obs.dump-601"><span class="linenos">601</span></a><span class="sd">        Parameters</span>
-</span><span id="Obs.dump-602"><a href="#Obs.dump-602"><span class="linenos">602</span></a><span class="sd">        ----------</span>
-</span><span id="Obs.dump-603"><a href="#Obs.dump-603"><span class="linenos">603</span></a><span class="sd">        filename : str</span>
-</span><span id="Obs.dump-604"><a href="#Obs.dump-604"><span class="linenos">604</span></a><span class="sd">            name of the file to be saved.</span>
-</span><span id="Obs.dump-605"><a href="#Obs.dump-605"><span class="linenos">605</span></a><span class="sd">        datatype : str</span>
-</span><span id="Obs.dump-606"><a href="#Obs.dump-606"><span class="linenos">606</span></a><span class="sd">            Format of the exported file. Supported formats include</span>
-</span><span id="Obs.dump-607"><a href="#Obs.dump-607"><span class="linenos">607</span></a><span class="sd">            &quot;json.gz&quot; and &quot;pickle&quot;</span>
-</span><span id="Obs.dump-608"><a href="#Obs.dump-608"><span class="linenos">608</span></a><span class="sd">        description : str</span>
-</span><span id="Obs.dump-609"><a href="#Obs.dump-609"><span class="linenos">609</span></a><span class="sd">            Description for output file, only relevant for json.gz format.</span>
-</span><span id="Obs.dump-610"><a href="#Obs.dump-610"><span class="linenos">610</span></a><span class="sd">        path : str</span>
-</span><span id="Obs.dump-611"><a href="#Obs.dump-611"><span class="linenos">611</span></a><span class="sd">            specifies a custom path for the file (default &#39;.&#39;)</span>
-</span><span id="Obs.dump-612"><a href="#Obs.dump-612"><span class="linenos">612</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs.dump-613"><a href="#Obs.dump-613"><span class="linenos">613</span></a>        <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="Obs.dump-614"><a href="#Obs.dump-614"><span class="linenos">614</span></a>            <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">filename</span>
-</span><span id="Obs.dump-615"><a href="#Obs.dump-615"><span class="linenos">615</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.dump-616"><a href="#Obs.dump-616"><span class="linenos">616</span></a>            <span class="n">file_name</span> <span class="o">=</span> <span class="n">filename</span>
-</span><span id="Obs.dump-617"><a href="#Obs.dump-617"><span class="linenos">617</span></a>
-</span><span id="Obs.dump-618"><a href="#Obs.dump-618"><span class="linenos">618</span></a>        <span class="k">if</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;json.gz&quot;</span><span class="p">:</span>
-</span><span id="Obs.dump-619"><a href="#Obs.dump-619"><span class="linenos">619</span></a>            <span class="kn">from</span> <span class="nn">.input.json</span> <span class="kn">import</span> <span class="n">dump_to_json</span>
-</span><span id="Obs.dump-620"><a href="#Obs.dump-620"><span class="linenos">620</span></a>            <span class="n">dump_to_json</span><span class="p">([</span><span class="bp">self</span><span class="p">],</span> <span class="n">file_name</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="n">description</span><span class="p">)</span>
-</span><span id="Obs.dump-621"><a href="#Obs.dump-621"><span class="linenos">621</span></a>        <span class="k">elif</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;pickle&quot;</span><span class="p">:</span>
-</span><span id="Obs.dump-622"><a href="#Obs.dump-622"><span class="linenos">622</span></a>            <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">file_name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fb</span><span class="p">:</span>
-</span><span id="Obs.dump-623"><a href="#Obs.dump-623"><span class="linenos">623</span></a>                <span class="n">pickle</span><span class="o">.</span><span class="n">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">fb</span><span class="p">)</span>
-</span><span id="Obs.dump-624"><a href="#Obs.dump-624"><span class="linenos">624</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="Obs.dump-625"><a href="#Obs.dump-625"><span class="linenos">625</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown datatype &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">datatype</span><span class="p">))</span>
+    <a class="headerlink" href="#Obs.dump"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.dump-599"><a href="#Obs.dump-599"><span class="linenos">599</span></a>    <span class="k">def</span> <span class="nf">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename</span><span class="p">,</span> <span class="n">datatype</span><span class="o">=</span><span class="s2">&quot;json.gz&quot;</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="s2">&quot;&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="Obs.dump-600"><a href="#Obs.dump-600"><span class="linenos">600</span></a>        <span class="sd">&quot;&quot;&quot;Dump the Obs to a file &#39;name&#39; of chosen format.</span>
+</span><span id="Obs.dump-601"><a href="#Obs.dump-601"><span class="linenos">601</span></a>
+</span><span id="Obs.dump-602"><a href="#Obs.dump-602"><span class="linenos">602</span></a><span class="sd">        Parameters</span>
+</span><span id="Obs.dump-603"><a href="#Obs.dump-603"><span class="linenos">603</span></a><span class="sd">        ----------</span>
+</span><span id="Obs.dump-604"><a href="#Obs.dump-604"><span class="linenos">604</span></a><span class="sd">        filename : str</span>
+</span><span id="Obs.dump-605"><a href="#Obs.dump-605"><span class="linenos">605</span></a><span class="sd">            name of the file to be saved.</span>
+</span><span id="Obs.dump-606"><a href="#Obs.dump-606"><span class="linenos">606</span></a><span class="sd">        datatype : str</span>
+</span><span id="Obs.dump-607"><a href="#Obs.dump-607"><span class="linenos">607</span></a><span class="sd">            Format of the exported file. Supported formats include</span>
+</span><span id="Obs.dump-608"><a href="#Obs.dump-608"><span class="linenos">608</span></a><span class="sd">            &quot;json.gz&quot; and &quot;pickle&quot;</span>
+</span><span id="Obs.dump-609"><a href="#Obs.dump-609"><span class="linenos">609</span></a><span class="sd">        description : str</span>
+</span><span id="Obs.dump-610"><a href="#Obs.dump-610"><span class="linenos">610</span></a><span class="sd">            Description for output file, only relevant for json.gz format.</span>
+</span><span id="Obs.dump-611"><a href="#Obs.dump-611"><span class="linenos">611</span></a><span class="sd">        path : str</span>
+</span><span id="Obs.dump-612"><a href="#Obs.dump-612"><span class="linenos">612</span></a><span class="sd">            specifies a custom path for the file (default &#39;.&#39;)</span>
+</span><span id="Obs.dump-613"><a href="#Obs.dump-613"><span class="linenos">613</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs.dump-614"><a href="#Obs.dump-614"><span class="linenos">614</span></a>        <span class="k">if</span> <span class="s1">&#39;path&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="Obs.dump-615"><a href="#Obs.dump-615"><span class="linenos">615</span></a>            <span class="n">file_name</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;path&#39;</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">filename</span>
+</span><span id="Obs.dump-616"><a href="#Obs.dump-616"><span class="linenos">616</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.dump-617"><a href="#Obs.dump-617"><span class="linenos">617</span></a>            <span class="n">file_name</span> <span class="o">=</span> <span class="n">filename</span>
+</span><span id="Obs.dump-618"><a href="#Obs.dump-618"><span class="linenos">618</span></a>
+</span><span id="Obs.dump-619"><a href="#Obs.dump-619"><span class="linenos">619</span></a>        <span class="k">if</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;json.gz&quot;</span><span class="p">:</span>
+</span><span id="Obs.dump-620"><a href="#Obs.dump-620"><span class="linenos">620</span></a>            <span class="kn">from</span> <span class="nn">.input.json</span> <span class="kn">import</span> <span class="n">dump_to_json</span>
+</span><span id="Obs.dump-621"><a href="#Obs.dump-621"><span class="linenos">621</span></a>            <span class="n">dump_to_json</span><span class="p">([</span><span class="bp">self</span><span class="p">],</span> <span class="n">file_name</span><span class="p">,</span> <span class="n">description</span><span class="o">=</span><span class="n">description</span><span class="p">)</span>
+</span><span id="Obs.dump-622"><a href="#Obs.dump-622"><span class="linenos">622</span></a>        <span class="k">elif</span> <span class="n">datatype</span> <span class="o">==</span> <span class="s2">&quot;pickle&quot;</span><span class="p">:</span>
+</span><span id="Obs.dump-623"><a href="#Obs.dump-623"><span class="linenos">623</span></a>            <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">file_name</span> <span class="o">+</span> <span class="s1">&#39;.p&#39;</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fb</span><span class="p">:</span>
+</span><span id="Obs.dump-624"><a href="#Obs.dump-624"><span class="linenos">624</span></a>                <span class="n">pickle</span><span class="o">.</span><span class="n">dump</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">fb</span><span class="p">)</span>
+</span><span id="Obs.dump-625"><a href="#Obs.dump-625"><span class="linenos">625</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="Obs.dump-626"><a href="#Obs.dump-626"><span class="linenos">626</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown datatype &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">datatype</span><span class="p">))</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Dump the Obs to a file 'name' of chosen format.</p>
 
@@ -3783,43 +3810,43 @@ specifies a custom path for the file (default '.')</li>
 
                             </div>
                             <div id="Obs.export_jackknife" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.export_jackknife">#&nbsp;&nbsp</a>
+                                        <input id="Obs.export_jackknife-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">export_jackknife</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.export_jackknife-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">export_jackknife</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.export_jackknife-627"><a href="#Obs.export_jackknife-627"><span class="linenos">627</span></a>    <span class="k">def</span> <span class="nf">export_jackknife</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.export_jackknife-628"><a href="#Obs.export_jackknife-628"><span class="linenos">628</span></a>        <span class="sd">&quot;&quot;&quot;Export jackknife samples from the Obs</span>
-</span><span id="Obs.export_jackknife-629"><a href="#Obs.export_jackknife-629"><span class="linenos">629</span></a>
-</span><span id="Obs.export_jackknife-630"><a href="#Obs.export_jackknife-630"><span class="linenos">630</span></a><span class="sd">        Returns</span>
-</span><span id="Obs.export_jackknife-631"><a href="#Obs.export_jackknife-631"><span class="linenos">631</span></a><span class="sd">        -------</span>
-</span><span id="Obs.export_jackknife-632"><a href="#Obs.export_jackknife-632"><span class="linenos">632</span></a><span class="sd">        numpy.ndarray</span>
-</span><span id="Obs.export_jackknife-633"><a href="#Obs.export_jackknife-633"><span class="linenos">633</span></a><span class="sd">            Returns a numpy array of length N + 1 where N is the number of samples</span>
-</span><span id="Obs.export_jackknife-634"><a href="#Obs.export_jackknife-634"><span class="linenos">634</span></a><span class="sd">            for the given ensemble and replicum. The zeroth entry of the array contains</span>
-</span><span id="Obs.export_jackknife-635"><a href="#Obs.export_jackknife-635"><span class="linenos">635</span></a><span class="sd">            the mean value of the Obs, entries 1 to N contain the N jackknife samples</span>
-</span><span id="Obs.export_jackknife-636"><a href="#Obs.export_jackknife-636"><span class="linenos">636</span></a><span class="sd">            derived from the Obs. The current implementation only works for observables</span>
-</span><span id="Obs.export_jackknife-637"><a href="#Obs.export_jackknife-637"><span class="linenos">637</span></a><span class="sd">            defined on exactly one ensemble and replicum. The derived jackknife samples</span>
-</span><span id="Obs.export_jackknife-638"><a href="#Obs.export_jackknife-638"><span class="linenos">638</span></a><span class="sd">            should agree with samples from a full jackknife analysis up to O(1/N).</span>
-</span><span id="Obs.export_jackknife-639"><a href="#Obs.export_jackknife-639"><span class="linenos">639</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="Obs.export_jackknife-640"><a href="#Obs.export_jackknife-640"><span class="linenos">640</span></a>
-</span><span id="Obs.export_jackknife-641"><a href="#Obs.export_jackknife-641"><span class="linenos">641</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="Obs.export_jackknife-642"><a href="#Obs.export_jackknife-642"><span class="linenos">642</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;export_jackknife&#39; is only implemented for Obs defined on one ensemble and replicum.&quot;</span><span class="p">)</span>
-</span><span id="Obs.export_jackknife-643"><a href="#Obs.export_jackknife-643"><span class="linenos">643</span></a>
-</span><span id="Obs.export_jackknife-644"><a href="#Obs.export_jackknife-644"><span class="linenos">644</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="Obs.export_jackknife-645"><a href="#Obs.export_jackknife-645"><span class="linenos">645</span></a>        <span class="n">full_data</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="Obs.export_jackknife-646"><a href="#Obs.export_jackknife-646"><span class="linenos">646</span></a>        <span class="n">n</span> <span class="o">=</span> <span class="n">full_data</span><span class="o">.</span><span class="n">size</span>
-</span><span id="Obs.export_jackknife-647"><a href="#Obs.export_jackknife-647"><span class="linenos">647</span></a>        <span class="n">mean</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span>
-</span><span id="Obs.export_jackknife-648"><a href="#Obs.export_jackknife-648"><span class="linenos">648</span></a>        <span class="n">tmp_jacks</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs.export_jackknife-649"><a href="#Obs.export_jackknife-649"><span class="linenos">649</span></a>        <span class="n">tmp_jacks</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="n">mean</span>
-</span><span id="Obs.export_jackknife-650"><a href="#Obs.export_jackknife-650"><span class="linenos">650</span></a>        <span class="n">tmp_jacks</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="o">=</span> <span class="p">(</span><span class="n">n</span> <span class="o">*</span> <span class="n">mean</span> <span class="o">-</span> <span class="n">full_data</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">n</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
-</span><span id="Obs.export_jackknife-651"><a href="#Obs.export_jackknife-651"><span class="linenos">651</span></a>        <span class="k">return</span> <span class="n">tmp_jacks</span>
+    <a class="headerlink" href="#Obs.export_jackknife"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.export_jackknife-628"><a href="#Obs.export_jackknife-628"><span class="linenos">628</span></a>    <span class="k">def</span> <span class="nf">export_jackknife</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.export_jackknife-629"><a href="#Obs.export_jackknife-629"><span class="linenos">629</span></a>        <span class="sd">&quot;&quot;&quot;Export jackknife samples from the Obs</span>
+</span><span id="Obs.export_jackknife-630"><a href="#Obs.export_jackknife-630"><span class="linenos">630</span></a>
+</span><span id="Obs.export_jackknife-631"><a href="#Obs.export_jackknife-631"><span class="linenos">631</span></a><span class="sd">        Returns</span>
+</span><span id="Obs.export_jackknife-632"><a href="#Obs.export_jackknife-632"><span class="linenos">632</span></a><span class="sd">        -------</span>
+</span><span id="Obs.export_jackknife-633"><a href="#Obs.export_jackknife-633"><span class="linenos">633</span></a><span class="sd">        numpy.ndarray</span>
+</span><span id="Obs.export_jackknife-634"><a href="#Obs.export_jackknife-634"><span class="linenos">634</span></a><span class="sd">            Returns a numpy array of length N + 1 where N is the number of samples</span>
+</span><span id="Obs.export_jackknife-635"><a href="#Obs.export_jackknife-635"><span class="linenos">635</span></a><span class="sd">            for the given ensemble and replicum. The zeroth entry of the array contains</span>
+</span><span id="Obs.export_jackknife-636"><a href="#Obs.export_jackknife-636"><span class="linenos">636</span></a><span class="sd">            the mean value of the Obs, entries 1 to N contain the N jackknife samples</span>
+</span><span id="Obs.export_jackknife-637"><a href="#Obs.export_jackknife-637"><span class="linenos">637</span></a><span class="sd">            derived from the Obs. The current implementation only works for observables</span>
+</span><span id="Obs.export_jackknife-638"><a href="#Obs.export_jackknife-638"><span class="linenos">638</span></a><span class="sd">            defined on exactly one ensemble and replicum. The derived jackknife samples</span>
+</span><span id="Obs.export_jackknife-639"><a href="#Obs.export_jackknife-639"><span class="linenos">639</span></a><span class="sd">            should agree with samples from a full jackknife analysis up to O(1/N).</span>
+</span><span id="Obs.export_jackknife-640"><a href="#Obs.export_jackknife-640"><span class="linenos">640</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="Obs.export_jackknife-641"><a href="#Obs.export_jackknife-641"><span class="linenos">641</span></a>
+</span><span id="Obs.export_jackknife-642"><a href="#Obs.export_jackknife-642"><span class="linenos">642</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="Obs.export_jackknife-643"><a href="#Obs.export_jackknife-643"><span class="linenos">643</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;export_jackknife&#39; is only implemented for Obs defined on one ensemble and replicum.&quot;</span><span class="p">)</span>
+</span><span id="Obs.export_jackknife-644"><a href="#Obs.export_jackknife-644"><span class="linenos">644</span></a>
+</span><span id="Obs.export_jackknife-645"><a href="#Obs.export_jackknife-645"><span class="linenos">645</span></a>        <span class="n">name</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">names</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="Obs.export_jackknife-646"><a href="#Obs.export_jackknife-646"><span class="linenos">646</span></a>        <span class="n">full_data</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="Obs.export_jackknife-647"><a href="#Obs.export_jackknife-647"><span class="linenos">647</span></a>        <span class="n">n</span> <span class="o">=</span> <span class="n">full_data</span><span class="o">.</span><span class="n">size</span>
+</span><span id="Obs.export_jackknife-648"><a href="#Obs.export_jackknife-648"><span class="linenos">648</span></a>        <span class="n">mean</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span>
+</span><span id="Obs.export_jackknife-649"><a href="#Obs.export_jackknife-649"><span class="linenos">649</span></a>        <span class="n">tmp_jacks</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">n</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs.export_jackknife-650"><a href="#Obs.export_jackknife-650"><span class="linenos">650</span></a>        <span class="n">tmp_jacks</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="n">mean</span>
+</span><span id="Obs.export_jackknife-651"><a href="#Obs.export_jackknife-651"><span class="linenos">651</span></a>        <span class="n">tmp_jacks</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="o">=</span> <span class="p">(</span><span class="n">n</span> <span class="o">*</span> <span class="n">mean</span> <span class="o">-</span> <span class="n">full_data</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">n</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
+</span><span id="Obs.export_jackknife-652"><a href="#Obs.export_jackknife-652"><span class="linenos">652</span></a>        <span class="k">return</span> <span class="n">tmp_jacks</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Export jackknife samples from the Obs</p>
 
@@ -3838,608 +3865,622 @@ should agree with samples from a full jackknife analysis up to O(1/N).</li>
 
                             </div>
                             <div id="Obs.sqrt" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.sqrt">#&nbsp;&nbsp</a>
+                                        <input id="Obs.sqrt-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">sqrt</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.sqrt-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">sqrt</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.sqrt-778"><a href="#Obs.sqrt-778"><span class="linenos">778</span></a>    <span class="k">def</span> <span class="nf">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.sqrt-779"><a href="#Obs.sqrt-779"><span class="linenos">779</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+    <a class="headerlink" href="#Obs.sqrt"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.sqrt-779"><a href="#Obs.sqrt-779"><span class="linenos">779</span></a>    <span class="k">def</span> <span class="nf">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.sqrt-780"><a href="#Obs.sqrt-780"><span class="linenos">780</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.log" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.log">#&nbsp;&nbsp</a>
+                                        <input id="Obs.log-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">log</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.log-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">log</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.log-781"><a href="#Obs.log-781"><span class="linenos">781</span></a>    <span class="k">def</span> <span class="nf">log</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.log-782"><a href="#Obs.log-782"><span class="linenos">782</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">])</span>
+    <a class="headerlink" href="#Obs.log"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.log-782"><a href="#Obs.log-782"><span class="linenos">782</span></a>    <span class="k">def</span> <span class="nf">log</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.log-783"><a href="#Obs.log-783"><span class="linenos">783</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.exp" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.exp">#&nbsp;&nbsp</a>
+                                        <input id="Obs.exp-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">exp</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.exp-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">exp</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.exp-784"><a href="#Obs.exp-784"><span class="linenos">784</span></a>    <span class="k">def</span> <span class="nf">exp</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.exp-785"><a href="#Obs.exp-785"><span class="linenos">785</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+    <a class="headerlink" href="#Obs.exp"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.exp-785"><a href="#Obs.exp-785"><span class="linenos">785</span></a>    <span class="k">def</span> <span class="nf">exp</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.exp-786"><a href="#Obs.exp-786"><span class="linenos">786</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.sin" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.sin">#&nbsp;&nbsp</a>
+                                        <input id="Obs.sin-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">sin</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.sin-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">sin</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.sin-787"><a href="#Obs.sin-787"><span class="linenos">787</span></a>    <span class="k">def</span> <span class="nf">sin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.sin-788"><a href="#Obs.sin-788"><span class="linenos">788</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+    <a class="headerlink" href="#Obs.sin"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.sin-788"><a href="#Obs.sin-788"><span class="linenos">788</span></a>    <span class="k">def</span> <span class="nf">sin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.sin-789"><a href="#Obs.sin-789"><span class="linenos">789</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.cos" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.cos">#&nbsp;&nbsp</a>
+                                        <input id="Obs.cos-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">cos</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.cos-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">cos</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.cos-790"><a href="#Obs.cos-790"><span class="linenos">790</span></a>    <span class="k">def</span> <span class="nf">cos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.cos-791"><a href="#Obs.cos-791"><span class="linenos">791</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+    <a class="headerlink" href="#Obs.cos"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.cos-791"><a href="#Obs.cos-791"><span class="linenos">791</span></a>    <span class="k">def</span> <span class="nf">cos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.cos-792"><a href="#Obs.cos-792"><span class="linenos">792</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">sin</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.tan" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.tan">#&nbsp;&nbsp</a>
+                                        <input id="Obs.tan-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">tan</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.tan-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">tan</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.tan-793"><a href="#Obs.tan-793"><span class="linenos">793</span></a>    <span class="k">def</span> <span class="nf">tan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.tan-794"><a href="#Obs.tan-794"><span class="linenos">794</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">tan</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
+    <a class="headerlink" href="#Obs.tan"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.tan-794"><a href="#Obs.tan-794"><span class="linenos">794</span></a>    <span class="k">def</span> <span class="nf">tan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.tan-795"><a href="#Obs.tan-795"><span class="linenos">795</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">tan</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">cos</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.arcsin" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.arcsin">#&nbsp;&nbsp</a>
+                                        <input id="Obs.arcsin-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">arcsin</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.arcsin-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">arcsin</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.arcsin-796"><a href="#Obs.arcsin-796"><span class="linenos">796</span></a>    <span class="k">def</span> <span class="nf">arcsin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.arcsin-797"><a href="#Obs.arcsin-797"><span class="linenos">797</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arcsin</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+    <a class="headerlink" href="#Obs.arcsin"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.arcsin-797"><a href="#Obs.arcsin-797"><span class="linenos">797</span></a>    <span class="k">def</span> <span class="nf">arcsin</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.arcsin-798"><a href="#Obs.arcsin-798"><span class="linenos">798</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arcsin</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.arccos" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.arccos">#&nbsp;&nbsp</a>
+                                        <input id="Obs.arccos-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">arccos</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.arccos-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">arccos</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.arccos-799"><a href="#Obs.arccos-799"><span class="linenos">799</span></a>    <span class="k">def</span> <span class="nf">arccos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.arccos-800"><a href="#Obs.arccos-800"><span class="linenos">800</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arccos</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+    <a class="headerlink" href="#Obs.arccos"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.arccos-800"><a href="#Obs.arccos-800"><span class="linenos">800</span></a>    <span class="k">def</span> <span class="nf">arccos</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.arccos-801"><a href="#Obs.arccos-801"><span class="linenos">801</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arccos</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.arctan" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.arctan">#&nbsp;&nbsp</a>
+                                        <input id="Obs.arctan-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">arctan</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.arctan-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">arctan</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.arctan-802"><a href="#Obs.arctan-802"><span class="linenos">802</span></a>    <span class="k">def</span> <span class="nf">arctan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.arctan-803"><a href="#Obs.arctan-803"><span class="linenos">803</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arctan</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+    <a class="headerlink" href="#Obs.arctan"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.arctan-803"><a href="#Obs.arctan-803"><span class="linenos">803</span></a>    <span class="k">def</span> <span class="nf">arctan</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.arctan-804"><a href="#Obs.arctan-804"><span class="linenos">804</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arctan</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.sinh" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.sinh">#&nbsp;&nbsp</a>
+                                        <input id="Obs.sinh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">sinh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.sinh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">sinh</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.sinh-805"><a href="#Obs.sinh-805"><span class="linenos">805</span></a>    <span class="k">def</span> <span class="nf">sinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.sinh-806"><a href="#Obs.sinh-806"><span class="linenos">806</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+    <a class="headerlink" href="#Obs.sinh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.sinh-806"><a href="#Obs.sinh-806"><span class="linenos">806</span></a>    <span class="k">def</span> <span class="nf">sinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.sinh-807"><a href="#Obs.sinh-807"><span class="linenos">807</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.cosh" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.cosh">#&nbsp;&nbsp</a>
+                                        <input id="Obs.cosh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">cosh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.cosh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">cosh</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.cosh-808"><a href="#Obs.cosh-808"><span class="linenos">808</span></a>    <span class="k">def</span> <span class="nf">cosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.cosh-809"><a href="#Obs.cosh-809"><span class="linenos">809</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
+    <a class="headerlink" href="#Obs.cosh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.cosh-809"><a href="#Obs.cosh-809"><span class="linenos">809</span></a>    <span class="k">def</span> <span class="nf">cosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.cosh-810"><a href="#Obs.cosh-810"><span class="linenos">810</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">sinh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.tanh" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.tanh">#&nbsp;&nbsp</a>
+                                        <input id="Obs.tanh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">tanh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.tanh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">tanh</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.tanh-811"><a href="#Obs.tanh-811"><span class="linenos">811</span></a>    <span class="k">def</span> <span class="nf">tanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.tanh-812"><a href="#Obs.tanh-812"><span class="linenos">812</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">tanh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
+    <a class="headerlink" href="#Obs.tanh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.tanh-812"><a href="#Obs.tanh-812"><span class="linenos">812</span></a>    <span class="k">def</span> <span class="nf">tanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.tanh-813"><a href="#Obs.tanh-813"><span class="linenos">813</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">tanh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">cosh</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">value</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.arcsinh" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.arcsinh">#&nbsp;&nbsp</a>
+                                        <input id="Obs.arcsinh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">arcsinh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.arcsinh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">arcsinh</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.arcsinh-814"><a href="#Obs.arcsinh-814"><span class="linenos">814</span></a>    <span class="k">def</span> <span class="nf">arcsinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.arcsinh-815"><a href="#Obs.arcsinh-815"><span class="linenos">815</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arcsinh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+    <a class="headerlink" href="#Obs.arcsinh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.arcsinh-815"><a href="#Obs.arcsinh-815"><span class="linenos">815</span></a>    <span class="k">def</span> <span class="nf">arcsinh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.arcsinh-816"><a href="#Obs.arcsinh-816"><span class="linenos">816</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arcsinh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.arccosh" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.arccosh">#&nbsp;&nbsp</a>
+                                        <input id="Obs.arccosh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">arccosh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.arccosh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">arccosh</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.arccosh-817"><a href="#Obs.arccosh-817"><span class="linenos">817</span></a>    <span class="k">def</span> <span class="nf">arccosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.arccosh-818"><a href="#Obs.arccosh-818"><span class="linenos">818</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arccosh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+    <a class="headerlink" href="#Obs.arccosh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.arccosh-818"><a href="#Obs.arccosh-818"><span class="linenos">818</span></a>    <span class="k">def</span> <span class="nf">arccosh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.arccosh-819"><a href="#Obs.arccosh-819"><span class="linenos">819</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arccosh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.arctanh" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#Obs.arctanh">#&nbsp;&nbsp</a>
+                                        <input id="Obs.arctanh-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">arctanh</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="Obs.arctanh-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">arctanh</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.arctanh-820"><a href="#Obs.arctanh-820"><span class="linenos">820</span></a>    <span class="k">def</span> <span class="nf">arctanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="Obs.arctanh-821"><a href="#Obs.arctanh-821"><span class="linenos">821</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arctanh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
+    <a class="headerlink" href="#Obs.arctanh"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="Obs.arctanh-821"><a href="#Obs.arctanh-821"><span class="linenos">821</span></a>    <span class="k">def</span> <span class="nf">arctanh</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="Obs.arctanh-822"><a href="#Obs.arctanh-822"><span class="linenos">822</span></a>        <span class="k">return</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">anp</span><span class="o">.</span><span class="n">arctanh</span><span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]),</span> <span class="p">[</span><span class="bp">self</span><span class="p">])</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="Obs.N_sigma" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.N_sigma">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">N_sigma</span>
 
-        <span class="name">N_sigma</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.N_sigma"></a>
     
     
 
                             </div>
                             <div id="Obs.S" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.S">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">S</span>
 
-        <span class="name">S</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.S"></a>
     
     
 
                             </div>
                             <div id="Obs.e_ddvalue" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.e_ddvalue">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">e_ddvalue</span>
 
-        <span class="name">e_ddvalue</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.e_ddvalue"></a>
     
     
 
                             </div>
                             <div id="Obs.e_drho" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.e_drho">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">e_drho</span>
 
-        <span class="name">e_drho</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.e_drho"></a>
     
     
 
                             </div>
                             <div id="Obs.e_dtauint" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.e_dtauint">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">e_dtauint</span>
 
-        <span class="name">e_dtauint</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.e_dtauint"></a>
     
     
 
                             </div>
                             <div id="Obs.e_dvalue" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.e_dvalue">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">e_dvalue</span>
 
-        <span class="name">e_dvalue</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.e_dvalue"></a>
     
     
 
                             </div>
                             <div id="Obs.e_n_dtauint" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.e_n_dtauint">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">e_n_dtauint</span>
 
-        <span class="name">e_n_dtauint</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.e_n_dtauint"></a>
     
     
 
                             </div>
                             <div id="Obs.e_n_tauint" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.e_n_tauint">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">e_n_tauint</span>
 
-        <span class="name">e_n_tauint</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.e_n_tauint"></a>
     
     
 
                             </div>
                             <div id="Obs.e_rho" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.e_rho">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">e_rho</span>
 
-        <span class="name">e_rho</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.e_rho"></a>
     
     
 
                             </div>
                             <div id="Obs.e_tauint" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.e_tauint">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">e_tauint</span>
 
-        <span class="name">e_tauint</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.e_tauint"></a>
     
     
 
                             </div>
                             <div id="Obs.e_windowsize" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.e_windowsize">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">e_windowsize</span>
 
-        <span class="name">e_windowsize</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.e_windowsize"></a>
     
     
 
                             </div>
                             <div id="Obs.tau_exp" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#Obs.tau_exp">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">tau_exp</span>
 
-        <span class="name">tau_exp</span>
+        
     </div>
-
+    <a class="headerlink" href="#Obs.tau_exp"></a>
     
     
 
                             </div>
                 </section>
                 <section id="CObs">
-                                <div class="attr class">
-        <a class="headerlink" href="#CObs">#&nbsp;&nbsp</a>
+                            <input id="CObs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr class">
+            
+    <span class="def">class</span>
+    <span class="name">CObs</span>:
+
+                <label class="view-source-button" for="CObs-view-source"><span>View Source</span></label>
 
-        
-        <span class="def">class</span>
-        <span class="name">CObs</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="CObs-824"><a href="#CObs-824"><span class="linenos">824</span></a><span class="k">class</span> <span class="nc">CObs</span><span class="p">:</span>
-</span><span id="CObs-825"><a href="#CObs-825"><span class="linenos">825</span></a>    <span class="sd">&quot;&quot;&quot;Class for a complex valued observable.&quot;&quot;&quot;</span>
-</span><span id="CObs-826"><a href="#CObs-826"><span class="linenos">826</span></a>    <span class="vm">__slots__</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;_real&#39;</span><span class="p">,</span> <span class="s1">&#39;_imag&#39;</span><span class="p">,</span> <span class="s1">&#39;tag&#39;</span><span class="p">]</span>
-</span><span id="CObs-827"><a href="#CObs-827"><span class="linenos">827</span></a>
-</span><span id="CObs-828"><a href="#CObs-828"><span class="linenos">828</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="o">=</span><span class="mf">0.0</span><span class="p">):</span>
-</span><span id="CObs-829"><a href="#CObs-829"><span class="linenos">829</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_real</span> <span class="o">=</span> <span class="n">real</span>
-</span><span id="CObs-830"><a href="#CObs-830"><span class="linenos">830</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_imag</span> <span class="o">=</span> <span class="n">imag</span>
-</span><span id="CObs-831"><a href="#CObs-831"><span class="linenos">831</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
-</span><span id="CObs-832"><a href="#CObs-832"><span class="linenos">832</span></a>
-</span><span id="CObs-833"><a href="#CObs-833"><span class="linenos">833</span></a>    <span class="nd">@property</span>
-</span><span id="CObs-834"><a href="#CObs-834"><span class="linenos">834</span></a>    <span class="k">def</span> <span class="nf">real</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="CObs-835"><a href="#CObs-835"><span class="linenos">835</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_real</span>
-</span><span id="CObs-836"><a href="#CObs-836"><span class="linenos">836</span></a>
-</span><span id="CObs-837"><a href="#CObs-837"><span class="linenos">837</span></a>    <span class="nd">@property</span>
-</span><span id="CObs-838"><a href="#CObs-838"><span class="linenos">838</span></a>    <span class="k">def</span> <span class="nf">imag</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="CObs-839"><a href="#CObs-839"><span class="linenos">839</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_imag</span>
-</span><span id="CObs-840"><a href="#CObs-840"><span class="linenos">840</span></a>
-</span><span id="CObs-841"><a href="#CObs-841"><span class="linenos">841</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="CObs-842"><a href="#CObs-842"><span class="linenos">842</span></a>        <span class="sd">&quot;&quot;&quot;Executes the gamma_method for the real and the imaginary part.&quot;&quot;&quot;</span>
-</span><span id="CObs-843"><a href="#CObs-843"><span class="linenos">843</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="CObs-844"><a href="#CObs-844"><span class="linenos">844</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="CObs-845"><a href="#CObs-845"><span class="linenos">845</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="CObs-846"><a href="#CObs-846"><span class="linenos">846</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="CObs-847"><a href="#CObs-847"><span class="linenos">847</span></a>
-</span><span id="CObs-848"><a href="#CObs-848"><span class="linenos">848</span></a>    <span class="k">def</span> <span class="nf">is_zero</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="CObs-849"><a href="#CObs-849"><span class="linenos">849</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether both real and imaginary part are zero within machine precision.&quot;&quot;&quot;</span>
-</span><span id="CObs-850"><a href="#CObs-850"><span class="linenos">850</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">==</span> <span class="mf">0.0</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">==</span> <span class="mf">0.0</span>
-</span><span id="CObs-851"><a href="#CObs-851"><span class="linenos">851</span></a>
-</span><span id="CObs-852"><a href="#CObs-852"><span class="linenos">852</span></a>    <span class="k">def</span> <span class="nf">conjugate</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="CObs-853"><a href="#CObs-853"><span class="linenos">853</span></a>        <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="CObs-854"><a href="#CObs-854"><span class="linenos">854</span></a>
-</span><span id="CObs-855"><a href="#CObs-855"><span class="linenos">855</span></a>    <span class="k">def</span> <span class="fm">__add__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="CObs-856"><a href="#CObs-856"><span class="linenos">856</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="CObs-857"><a href="#CObs-857"><span class="linenos">857</span></a>            <span class="k">return</span> <span class="n">other</span> <span class="o">+</span> <span class="bp">self</span>
-</span><span id="CObs-858"><a href="#CObs-858"><span class="linenos">858</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
-</span><span id="CObs-859"><a href="#CObs-859"><span class="linenos">859</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span>
-</span><span id="CObs-860"><a href="#CObs-860"><span class="linenos">860</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">+</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="CObs-861"><a href="#CObs-861"><span class="linenos">861</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="CObs-862"><a href="#CObs-862"><span class="linenos">862</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="CObs-863"><a href="#CObs-863"><span class="linenos">863</span></a>
-</span><span id="CObs-864"><a href="#CObs-864"><span class="linenos">864</span></a>    <span class="k">def</span> <span class="fm">__radd__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
-</span><span id="CObs-865"><a href="#CObs-865"><span class="linenos">865</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
-</span><span id="CObs-866"><a href="#CObs-866"><span class="linenos">866</span></a>
-</span><span id="CObs-867"><a href="#CObs-867"><span class="linenos">867</span></a>    <span class="k">def</span> <span class="fm">__sub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="CObs-868"><a href="#CObs-868"><span class="linenos">868</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="CObs-869"><a href="#CObs-869"><span class="linenos">869</span></a>            <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="n">other</span> <span class="o">-</span> <span class="bp">self</span><span class="p">)</span>
-</span><span id="CObs-870"><a href="#CObs-870"><span class="linenos">870</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
-</span><span id="CObs-871"><a href="#CObs-871"><span class="linenos">871</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">-</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="CObs-872"><a href="#CObs-872"><span class="linenos">872</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="CObs-873"><a href="#CObs-873"><span class="linenos">873</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="CObs-874"><a href="#CObs-874"><span class="linenos">874</span></a>
-</span><span id="CObs-875"><a href="#CObs-875"><span class="linenos">875</span></a>    <span class="k">def</span> <span class="fm">__rsub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="CObs-876"><a href="#CObs-876"><span class="linenos">876</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">other</span><span class="p">)</span>
-</span><span id="CObs-877"><a href="#CObs-877"><span class="linenos">877</span></a>
-</span><span id="CObs-878"><a href="#CObs-878"><span class="linenos">878</span></a>    <span class="k">def</span> <span class="fm">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="CObs-879"><a href="#CObs-879"><span class="linenos">879</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="CObs-880"><a href="#CObs-880"><span class="linenos">880</span></a>            <span class="k">return</span> <span class="n">other</span> <span class="o">*</span> <span class="bp">self</span>
-</span><span id="CObs-881"><a href="#CObs-881"><span class="linenos">881</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
-</span><span id="CObs-882"><a href="#CObs-882"><span class="linenos">882</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">]):</span>
-</span><span id="CObs-883"><a href="#CObs-883"><span class="linenos">883</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span>
-</span><span id="CObs-884"><a href="#CObs-884"><span class="linenos">884</span></a>                                               <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span>
-</span><span id="CObs-885"><a href="#CObs-885"><span class="linenos">885</span></a>                                               <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span><span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">]),</span>
-</span><span id="CObs-886"><a href="#CObs-886"><span class="linenos">886</span></a>                            <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span>
-</span><span id="CObs-887"><a href="#CObs-887"><span class="linenos">887</span></a>                                               <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span>
-</span><span id="CObs-888"><a href="#CObs-888"><span class="linenos">888</span></a>                                               <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">]))</span>
-</span><span id="CObs-889"><a href="#CObs-889"><span class="linenos">889</span></a>            <span class="k">elif</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="CObs-890"><a href="#CObs-890"><span class="linenos">890</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span>
-</span><span id="CObs-891"><a href="#CObs-891"><span class="linenos">891</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
-</span><span id="CObs-892"><a href="#CObs-892"><span class="linenos">892</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="CObs-893"><a href="#CObs-893"><span class="linenos">893</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">)</span>
-</span><span id="CObs-894"><a href="#CObs-894"><span class="linenos">894</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="CObs-895"><a href="#CObs-895"><span class="linenos">895</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="p">)</span>
-</span><span id="CObs-896"><a href="#CObs-896"><span class="linenos">896</span></a>
-</span><span id="CObs-897"><a href="#CObs-897"><span class="linenos">897</span></a>    <span class="k">def</span> <span class="fm">__rmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="CObs-898"><a href="#CObs-898"><span class="linenos">898</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">other</span>
-</span><span id="CObs-899"><a href="#CObs-899"><span class="linenos">899</span></a>
-</span><span id="CObs-900"><a href="#CObs-900"><span class="linenos">900</span></a>    <span class="k">def</span> <span class="fm">__truediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="CObs-901"><a href="#CObs-901"><span class="linenos">901</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
-</span><span id="CObs-902"><a href="#CObs-902"><span class="linenos">902</span></a>            <span class="k">return</span> <span class="mi">1</span> <span class="o">/</span> <span class="p">(</span><span class="n">other</span> <span class="o">/</span> <span class="bp">self</span><span class="p">)</span>
-</span><span id="CObs-903"><a href="#CObs-903"><span class="linenos">903</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
-</span><span id="CObs-904"><a href="#CObs-904"><span class="linenos">904</span></a>            <span class="n">r</span> <span class="o">=</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="CObs-905"><a href="#CObs-905"><span class="linenos">905</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">)</span>
-</span><span id="CObs-906"><a href="#CObs-906"><span class="linenos">906</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="CObs-907"><a href="#CObs-907"><span class="linenos">907</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">/</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">/</span> <span class="n">other</span><span class="p">)</span>
-</span><span id="CObs-908"><a href="#CObs-908"><span class="linenos">908</span></a>
-</span><span id="CObs-909"><a href="#CObs-909"><span class="linenos">909</span></a>    <span class="k">def</span> <span class="fm">__rtruediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="CObs-910"><a href="#CObs-910"><span class="linenos">910</span></a>        <span class="n">r</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">**</span> <span class="mi">2</span>
-</span><span id="CObs-911"><a href="#CObs-911"><span class="linenos">911</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
-</span><span id="CObs-912"><a href="#CObs-912"><span class="linenos">912</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">)</span>
-</span><span id="CObs-913"><a href="#CObs-913"><span class="linenos">913</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="CObs-914"><a href="#CObs-914"><span class="linenos">914</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span> <span class="o">/</span> <span class="n">r</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span> <span class="o">/</span> <span class="n">r</span><span class="p">)</span>
-</span><span id="CObs-915"><a href="#CObs-915"><span class="linenos">915</span></a>
-</span><span id="CObs-916"><a href="#CObs-916"><span class="linenos">916</span></a>    <span class="k">def</span> <span class="fm">__abs__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="CObs-917"><a href="#CObs-917"><span class="linenos">917</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">**</span><span class="mi">2</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">**</span><span class="mi">2</span><span class="p">)</span>
-</span><span id="CObs-918"><a href="#CObs-918"><span class="linenos">918</span></a>
-</span><span id="CObs-919"><a href="#CObs-919"><span class="linenos">919</span></a>    <span class="k">def</span> <span class="fm">__pos__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="CObs-920"><a href="#CObs-920"><span class="linenos">920</span></a>        <span class="k">return</span> <span class="bp">self</span>
-</span><span id="CObs-921"><a href="#CObs-921"><span class="linenos">921</span></a>
-</span><span id="CObs-922"><a href="#CObs-922"><span class="linenos">922</span></a>    <span class="k">def</span> <span class="fm">__neg__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="CObs-923"><a href="#CObs-923"><span class="linenos">923</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
-</span><span id="CObs-924"><a href="#CObs-924"><span class="linenos">924</span></a>
-</span><span id="CObs-925"><a href="#CObs-925"><span class="linenos">925</span></a>    <span class="k">def</span> <span class="fm">__eq__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
-</span><span id="CObs-926"><a href="#CObs-926"><span class="linenos">926</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">==</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">==</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span>
-</span><span id="CObs-927"><a href="#CObs-927"><span class="linenos">927</span></a>
-</span><span id="CObs-928"><a href="#CObs-928"><span class="linenos">928</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="CObs-929"><a href="#CObs-929"><span class="linenos">929</span></a>        <span class="k">return</span> <span class="s1">&#39;(&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">)</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">&gt;=</span> <span class="mf">0.0</span><span class="p">)</span> <span class="o">*</span> <span class="s1">&#39;+&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;j)&#39;</span>
-</span><span id="CObs-930"><a href="#CObs-930"><span class="linenos">930</span></a>
-</span><span id="CObs-931"><a href="#CObs-931"><span class="linenos">931</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="CObs-932"><a href="#CObs-932"><span class="linenos">932</span></a>        <span class="k">return</span> <span class="s1">&#39;CObs[&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;]&#39;</span>
+    <a class="headerlink" href="#CObs"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="CObs-825"><a href="#CObs-825"><span class="linenos">825</span></a><span class="k">class</span> <span class="nc">CObs</span><span class="p">:</span>
+</span><span id="CObs-826"><a href="#CObs-826"><span class="linenos">826</span></a>    <span class="sd">&quot;&quot;&quot;Class for a complex valued observable.&quot;&quot;&quot;</span>
+</span><span id="CObs-827"><a href="#CObs-827"><span class="linenos">827</span></a>    <span class="vm">__slots__</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;_real&#39;</span><span class="p">,</span> <span class="s1">&#39;_imag&#39;</span><span class="p">,</span> <span class="s1">&#39;tag&#39;</span><span class="p">]</span>
+</span><span id="CObs-828"><a href="#CObs-828"><span class="linenos">828</span></a>
+</span><span id="CObs-829"><a href="#CObs-829"><span class="linenos">829</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="o">=</span><span class="mf">0.0</span><span class="p">):</span>
+</span><span id="CObs-830"><a href="#CObs-830"><span class="linenos">830</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_real</span> <span class="o">=</span> <span class="n">real</span>
+</span><span id="CObs-831"><a href="#CObs-831"><span class="linenos">831</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_imag</span> <span class="o">=</span> <span class="n">imag</span>
+</span><span id="CObs-832"><a href="#CObs-832"><span class="linenos">832</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
+</span><span id="CObs-833"><a href="#CObs-833"><span class="linenos">833</span></a>
+</span><span id="CObs-834"><a href="#CObs-834"><span class="linenos">834</span></a>    <span class="nd">@property</span>
+</span><span id="CObs-835"><a href="#CObs-835"><span class="linenos">835</span></a>    <span class="k">def</span> <span class="nf">real</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="CObs-836"><a href="#CObs-836"><span class="linenos">836</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_real</span>
+</span><span id="CObs-837"><a href="#CObs-837"><span class="linenos">837</span></a>
+</span><span id="CObs-838"><a href="#CObs-838"><span class="linenos">838</span></a>    <span class="nd">@property</span>
+</span><span id="CObs-839"><a href="#CObs-839"><span class="linenos">839</span></a>    <span class="k">def</span> <span class="nf">imag</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="CObs-840"><a href="#CObs-840"><span class="linenos">840</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">_imag</span>
+</span><span id="CObs-841"><a href="#CObs-841"><span class="linenos">841</span></a>
+</span><span id="CObs-842"><a href="#CObs-842"><span class="linenos">842</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="CObs-843"><a href="#CObs-843"><span class="linenos">843</span></a>        <span class="sd">&quot;&quot;&quot;Executes the gamma_method for the real and the imaginary part.&quot;&quot;&quot;</span>
+</span><span id="CObs-844"><a href="#CObs-844"><span class="linenos">844</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="CObs-845"><a href="#CObs-845"><span class="linenos">845</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="CObs-846"><a href="#CObs-846"><span class="linenos">846</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="CObs-847"><a href="#CObs-847"><span class="linenos">847</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="CObs-848"><a href="#CObs-848"><span class="linenos">848</span></a>
+</span><span id="CObs-849"><a href="#CObs-849"><span class="linenos">849</span></a>    <span class="k">def</span> <span class="nf">is_zero</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="CObs-850"><a href="#CObs-850"><span class="linenos">850</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether both real and imaginary part are zero within machine precision.&quot;&quot;&quot;</span>
+</span><span id="CObs-851"><a href="#CObs-851"><span class="linenos">851</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">==</span> <span class="mf">0.0</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">==</span> <span class="mf">0.0</span>
+</span><span id="CObs-852"><a href="#CObs-852"><span class="linenos">852</span></a>
+</span><span id="CObs-853"><a href="#CObs-853"><span class="linenos">853</span></a>    <span class="k">def</span> <span class="nf">conjugate</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="CObs-854"><a href="#CObs-854"><span class="linenos">854</span></a>        <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="CObs-855"><a href="#CObs-855"><span class="linenos">855</span></a>
+</span><span id="CObs-856"><a href="#CObs-856"><span class="linenos">856</span></a>    <span class="k">def</span> <span class="fm">__add__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="CObs-857"><a href="#CObs-857"><span class="linenos">857</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="CObs-858"><a href="#CObs-858"><span class="linenos">858</span></a>            <span class="k">return</span> <span class="n">other</span> <span class="o">+</span> <span class="bp">self</span>
+</span><span id="CObs-859"><a href="#CObs-859"><span class="linenos">859</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
+</span><span id="CObs-860"><a href="#CObs-860"><span class="linenos">860</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span>
+</span><span id="CObs-861"><a href="#CObs-861"><span class="linenos">861</span></a>                        <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">+</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="CObs-862"><a href="#CObs-862"><span class="linenos">862</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="CObs-863"><a href="#CObs-863"><span class="linenos">863</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="CObs-864"><a href="#CObs-864"><span class="linenos">864</span></a>
+</span><span id="CObs-865"><a href="#CObs-865"><span class="linenos">865</span></a>    <span class="k">def</span> <span class="fm">__radd__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">y</span><span class="p">):</span>
+</span><span id="CObs-866"><a href="#CObs-866"><span class="linenos">866</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">+</span> <span class="n">y</span>
+</span><span id="CObs-867"><a href="#CObs-867"><span class="linenos">867</span></a>
+</span><span id="CObs-868"><a href="#CObs-868"><span class="linenos">868</span></a>    <span class="k">def</span> <span class="fm">__sub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="CObs-869"><a href="#CObs-869"><span class="linenos">869</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="CObs-870"><a href="#CObs-870"><span class="linenos">870</span></a>            <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="n">other</span> <span class="o">-</span> <span class="bp">self</span><span class="p">)</span>
+</span><span id="CObs-871"><a href="#CObs-871"><span class="linenos">871</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
+</span><span id="CObs-872"><a href="#CObs-872"><span class="linenos">872</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">-</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="CObs-873"><a href="#CObs-873"><span class="linenos">873</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="CObs-874"><a href="#CObs-874"><span class="linenos">874</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="CObs-875"><a href="#CObs-875"><span class="linenos">875</span></a>
+</span><span id="CObs-876"><a href="#CObs-876"><span class="linenos">876</span></a>    <span class="k">def</span> <span class="fm">__rsub__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="CObs-877"><a href="#CObs-877"><span class="linenos">877</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="p">(</span><span class="bp">self</span> <span class="o">-</span> <span class="n">other</span><span class="p">)</span>
+</span><span id="CObs-878"><a href="#CObs-878"><span class="linenos">878</span></a>
+</span><span id="CObs-879"><a href="#CObs-879"><span class="linenos">879</span></a>    <span class="k">def</span> <span class="fm">__mul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="CObs-880"><a href="#CObs-880"><span class="linenos">880</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="CObs-881"><a href="#CObs-881"><span class="linenos">881</span></a>            <span class="k">return</span> <span class="n">other</span> <span class="o">*</span> <span class="bp">self</span>
+</span><span id="CObs-882"><a href="#CObs-882"><span class="linenos">882</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
+</span><span id="CObs-883"><a href="#CObs-883"><span class="linenos">883</span></a>            <span class="k">if</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">]):</span>
+</span><span id="CObs-884"><a href="#CObs-884"><span class="linenos">884</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span>
+</span><span id="CObs-885"><a href="#CObs-885"><span class="linenos">885</span></a>                                               <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span>
+</span><span id="CObs-886"><a href="#CObs-886"><span class="linenos">886</span></a>                                               <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span><span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">]),</span>
+</span><span id="CObs-887"><a href="#CObs-887"><span class="linenos">887</span></a>                            <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span>
+</span><span id="CObs-888"><a href="#CObs-888"><span class="linenos">888</span></a>                                               <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">],</span>
+</span><span id="CObs-889"><a href="#CObs-889"><span class="linenos">889</span></a>                                               <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">value</span><span class="p">]))</span>
+</span><span id="CObs-890"><a href="#CObs-890"><span class="linenos">890</span></a>            <span class="k">elif</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="CObs-891"><a href="#CObs-891"><span class="linenos">891</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span>
+</span><span id="CObs-892"><a href="#CObs-892"><span class="linenos">892</span></a>                            <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+</span><span id="CObs-893"><a href="#CObs-893"><span class="linenos">893</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="CObs-894"><a href="#CObs-894"><span class="linenos">894</span></a>                <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">)</span>
+</span><span id="CObs-895"><a href="#CObs-895"><span class="linenos">895</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="CObs-896"><a href="#CObs-896"><span class="linenos">896</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="p">)</span>
+</span><span id="CObs-897"><a href="#CObs-897"><span class="linenos">897</span></a>
+</span><span id="CObs-898"><a href="#CObs-898"><span class="linenos">898</span></a>    <span class="k">def</span> <span class="fm">__rmul__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="CObs-899"><a href="#CObs-899"><span class="linenos">899</span></a>        <span class="k">return</span> <span class="bp">self</span> <span class="o">*</span> <span class="n">other</span>
+</span><span id="CObs-900"><a href="#CObs-900"><span class="linenos">900</span></a>
+</span><span id="CObs-901"><a href="#CObs-901"><span class="linenos">901</span></a>    <span class="k">def</span> <span class="fm">__truediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="CObs-902"><a href="#CObs-902"><span class="linenos">902</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
+</span><span id="CObs-903"><a href="#CObs-903"><span class="linenos">903</span></a>            <span class="k">return</span> <span class="mi">1</span> <span class="o">/</span> <span class="p">(</span><span class="n">other</span> <span class="o">/</span> <span class="bp">self</span><span class="p">)</span>
+</span><span id="CObs-904"><a href="#CObs-904"><span class="linenos">904</span></a>        <span class="k">elif</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
+</span><span id="CObs-905"><a href="#CObs-905"><span class="linenos">905</span></a>            <span class="n">r</span> <span class="o">=</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="CObs-906"><a href="#CObs-906"><span class="linenos">906</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">)</span>
+</span><span id="CObs-907"><a href="#CObs-907"><span class="linenos">907</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="CObs-908"><a href="#CObs-908"><span class="linenos">908</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">/</span> <span class="n">other</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">/</span> <span class="n">other</span><span class="p">)</span>
+</span><span id="CObs-909"><a href="#CObs-909"><span class="linenos">909</span></a>
+</span><span id="CObs-910"><a href="#CObs-910"><span class="linenos">910</span></a>    <span class="k">def</span> <span class="fm">__rtruediv__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="CObs-911"><a href="#CObs-911"><span class="linenos">911</span></a>        <span class="n">r</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">**</span> <span class="mi">2</span>
+</span><span id="CObs-912"><a href="#CObs-912"><span class="linenos">912</span></a>        <span class="k">if</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;real&#39;</span><span class="p">)</span> <span class="ow">and</span> <span class="nb">hasattr</span><span class="p">(</span><span class="n">other</span><span class="p">,</span> <span class="s1">&#39;imag&#39;</span><span class="p">):</span>
+</span><span id="CObs-913"><a href="#CObs-913"><span class="linenos">913</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">((</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">,</span> <span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span> <span class="o">-</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span><span class="p">)</span> <span class="o">/</span> <span class="n">r</span><span class="p">)</span>
+</span><span id="CObs-914"><a href="#CObs-914"><span class="linenos">914</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="CObs-915"><a href="#CObs-915"><span class="linenos">915</span></a>            <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">*</span> <span class="n">other</span> <span class="o">/</span> <span class="n">r</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">*</span> <span class="n">other</span> <span class="o">/</span> <span class="n">r</span><span class="p">)</span>
+</span><span id="CObs-916"><a href="#CObs-916"><span class="linenos">916</span></a>
+</span><span id="CObs-917"><a href="#CObs-917"><span class="linenos">917</span></a>    <span class="k">def</span> <span class="fm">__abs__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="CObs-918"><a href="#CObs-918"><span class="linenos">918</span></a>        <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">**</span><span class="mi">2</span> <span class="o">+</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">**</span><span class="mi">2</span><span class="p">)</span>
+</span><span id="CObs-919"><a href="#CObs-919"><span class="linenos">919</span></a>
+</span><span id="CObs-920"><a href="#CObs-920"><span class="linenos">920</span></a>    <span class="k">def</span> <span class="fm">__pos__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="CObs-921"><a href="#CObs-921"><span class="linenos">921</span></a>        <span class="k">return</span> <span class="bp">self</span>
+</span><span id="CObs-922"><a href="#CObs-922"><span class="linenos">922</span></a>
+</span><span id="CObs-923"><a href="#CObs-923"><span class="linenos">923</span></a>    <span class="k">def</span> <span class="fm">__neg__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="CObs-924"><a href="#CObs-924"><span class="linenos">924</span></a>        <span class="k">return</span> <span class="o">-</span><span class="mi">1</span> <span class="o">*</span> <span class="bp">self</span>
+</span><span id="CObs-925"><a href="#CObs-925"><span class="linenos">925</span></a>
+</span><span id="CObs-926"><a href="#CObs-926"><span class="linenos">926</span></a>    <span class="k">def</span> <span class="fm">__eq__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">other</span><span class="p">):</span>
+</span><span id="CObs-927"><a href="#CObs-927"><span class="linenos">927</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">==</span> <span class="n">other</span><span class="o">.</span><span class="n">real</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">==</span> <span class="n">other</span><span class="o">.</span><span class="n">imag</span>
+</span><span id="CObs-928"><a href="#CObs-928"><span class="linenos">928</span></a>
+</span><span id="CObs-929"><a href="#CObs-929"><span class="linenos">929</span></a>    <span class="k">def</span> <span class="fm">__str__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="CObs-930"><a href="#CObs-930"><span class="linenos">930</span></a>        <span class="k">return</span> <span class="s1">&#39;(&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">)</span> <span class="o">+</span> <span class="nb">int</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">&gt;=</span> <span class="mf">0.0</span><span class="p">)</span> <span class="o">*</span> <span class="s1">&#39;+&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;j)&#39;</span>
+</span><span id="CObs-931"><a href="#CObs-931"><span class="linenos">931</span></a>
+</span><span id="CObs-932"><a href="#CObs-932"><span class="linenos">932</span></a>    <span class="k">def</span> <span class="fm">__repr__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="CObs-933"><a href="#CObs-933"><span class="linenos">933</span></a>        <span class="k">return</span> <span class="s1">&#39;CObs[&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="bp">self</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39;]&#39;</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Class for a complex valued observable.</p>
 </div>
 
 
                             <div id="CObs.__init__" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#CObs.__init__">#&nbsp;&nbsp</a>
+                                        <input id="CObs.__init__-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="name">CObs</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">real</span>, </span><span class="param"><span class="n">imag</span><span class="o">=</span><span class="mf">0.0</span></span>)</span>
+
+                <label class="view-source-button" for="CObs.__init__-view-source"><span>View Source</span></label>
 
-        
-            <span class="name">CObs</span><span class="signature">(real, imag=0.0)</span>
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="CObs.__init__-828"><a href="#CObs.__init__-828"><span class="linenos">828</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="o">=</span><span class="mf">0.0</span><span class="p">):</span>
-</span><span id="CObs.__init__-829"><a href="#CObs.__init__-829"><span class="linenos">829</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_real</span> <span class="o">=</span> <span class="n">real</span>
-</span><span id="CObs.__init__-830"><a href="#CObs.__init__-830"><span class="linenos">830</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_imag</span> <span class="o">=</span> <span class="n">imag</span>
-</span><span id="CObs.__init__-831"><a href="#CObs.__init__-831"><span class="linenos">831</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
+    <a class="headerlink" href="#CObs.__init__"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="CObs.__init__-829"><a href="#CObs.__init__-829"><span class="linenos">829</span></a>    <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">real</span><span class="p">,</span> <span class="n">imag</span><span class="o">=</span><span class="mf">0.0</span><span class="p">):</span>
+</span><span id="CObs.__init__-830"><a href="#CObs.__init__-830"><span class="linenos">830</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_real</span> <span class="o">=</span> <span class="n">real</span>
+</span><span id="CObs.__init__-831"><a href="#CObs.__init__-831"><span class="linenos">831</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">_imag</span> <span class="o">=</span> <span class="n">imag</span>
+</span><span id="CObs.__init__-832"><a href="#CObs.__init__-832"><span class="linenos">832</span></a>        <span class="bp">self</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="kc">None</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                             <div id="CObs.tag" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#CObs.tag">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">tag</span>
 
-        <span class="name">tag</span>
+        
     </div>
-
+    <a class="headerlink" href="#CObs.tag"></a>
     
     
 
                             </div>
                             <div id="CObs.real" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#CObs.real">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">real</span>
 
-        <span class="name">real</span>
+        
     </div>
-
+    <a class="headerlink" href="#CObs.real"></a>
     
     
 
                             </div>
                             <div id="CObs.imag" class="classattr">
-                                            <div class="attr variable"><a class="headerlink" href="#CObs.imag">#&nbsp;&nbsp</a>
+                                <div class="attr variable">
+            <span class="name">imag</span>
 
-        <span class="name">imag</span>
+        
     </div>
-
+    <a class="headerlink" href="#CObs.imag"></a>
     
     
 
                             </div>
                             <div id="CObs.gamma_method" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#CObs.gamma_method">#&nbsp;&nbsp</a>
+                                        <input id="CObs.gamma_method-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">gamma_method</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="CObs.gamma_method-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">gamma_method</span><span class="signature">(self, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="CObs.gamma_method-841"><a href="#CObs.gamma_method-841"><span class="linenos">841</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="CObs.gamma_method-842"><a href="#CObs.gamma_method-842"><span class="linenos">842</span></a>        <span class="sd">&quot;&quot;&quot;Executes the gamma_method for the real and the imaginary part.&quot;&quot;&quot;</span>
-</span><span id="CObs.gamma_method-843"><a href="#CObs.gamma_method-843"><span class="linenos">843</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="CObs.gamma_method-844"><a href="#CObs.gamma_method-844"><span class="linenos">844</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="CObs.gamma_method-845"><a href="#CObs.gamma_method-845"><span class="linenos">845</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
-</span><span id="CObs.gamma_method-846"><a href="#CObs.gamma_method-846"><span class="linenos">846</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+    <a class="headerlink" href="#CObs.gamma_method"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="CObs.gamma_method-842"><a href="#CObs.gamma_method-842"><span class="linenos">842</span></a>    <span class="k">def</span> <span class="nf">gamma_method</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="CObs.gamma_method-843"><a href="#CObs.gamma_method-843"><span class="linenos">843</span></a>        <span class="sd">&quot;&quot;&quot;Executes the gamma_method for the real and the imaginary part.&quot;&quot;&quot;</span>
+</span><span id="CObs.gamma_method-844"><a href="#CObs.gamma_method-844"><span class="linenos">844</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="CObs.gamma_method-845"><a href="#CObs.gamma_method-845"><span class="linenos">845</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="CObs.gamma_method-846"><a href="#CObs.gamma_method-846"><span class="linenos">846</span></a>        <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">,</span> <span class="n">Obs</span><span class="p">):</span>
+</span><span id="CObs.gamma_method-847"><a href="#CObs.gamma_method-847"><span class="linenos">847</span></a>            <span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">(</span><span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Executes the gamma_method for the real and the imaginary part.</p>
 </div>
@@ -4447,21 +4488,21 @@ should agree with samples from a full jackknife analysis up to O(1/N).</li>
 
                             </div>
                             <div id="CObs.is_zero" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#CObs.is_zero">#&nbsp;&nbsp</a>
+                                        <input id="CObs.is_zero-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">is_zero</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="CObs.is_zero-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">is_zero</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="CObs.is_zero-848"><a href="#CObs.is_zero-848"><span class="linenos">848</span></a>    <span class="k">def</span> <span class="nf">is_zero</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="CObs.is_zero-849"><a href="#CObs.is_zero-849"><span class="linenos">849</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether both real and imaginary part are zero within machine precision.&quot;&quot;&quot;</span>
-</span><span id="CObs.is_zero-850"><a href="#CObs.is_zero-850"><span class="linenos">850</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">==</span> <span class="mf">0.0</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">==</span> <span class="mf">0.0</span>
+    <a class="headerlink" href="#CObs.is_zero"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="CObs.is_zero-849"><a href="#CObs.is_zero-849"><span class="linenos">849</span></a>    <span class="k">def</span> <span class="nf">is_zero</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="CObs.is_zero-850"><a href="#CObs.is_zero-850"><span class="linenos">850</span></a>        <span class="sd">&quot;&quot;&quot;Checks whether both real and imaginary part are zero within machine precision.&quot;&quot;&quot;</span>
+</span><span id="CObs.is_zero-851"><a href="#CObs.is_zero-851"><span class="linenos">851</span></a>        <span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">real</span> <span class="o">==</span> <span class="mf">0.0</span> <span class="ow">and</span> <span class="bp">self</span><span class="o">.</span><span class="n">imag</span> <span class="o">==</span> <span class="mf">0.0</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Checks whether both real and imaginary part are zero within machine precision.</p>
 </div>
@@ -4469,216 +4510,216 @@ should agree with samples from a full jackknife analysis up to O(1/N).</li>
 
                             </div>
                             <div id="CObs.conjugate" class="classattr">
-                                        <div class="attr function"><a class="headerlink" href="#CObs.conjugate">#&nbsp;&nbsp</a>
+                                        <input id="CObs.conjugate-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">conjugate</span><span class="signature pdoc-code condensed">(<span class="param"><span class="bp">self</span></span>)</span>
+
+                <label class="view-source-button" for="CObs.conjugate-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">conjugate</span><span class="signature">(self)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="CObs.conjugate-852"><a href="#CObs.conjugate-852"><span class="linenos">852</span></a>    <span class="k">def</span> <span class="nf">conjugate</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
-</span><span id="CObs.conjugate-853"><a href="#CObs.conjugate-853"><span class="linenos">853</span></a>        <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
+    <a class="headerlink" href="#CObs.conjugate"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="CObs.conjugate-853"><a href="#CObs.conjugate-853"><span class="linenos">853</span></a>    <span class="k">def</span> <span class="nf">conjugate</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
+</span><span id="CObs.conjugate-854"><a href="#CObs.conjugate-854"><span class="linenos">854</span></a>        <span class="k">return</span> <span class="n">CObs</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">real</span><span class="p">,</span> <span class="o">-</span><span class="bp">self</span><span class="o">.</span><span class="n">imag</span><span class="p">)</span>
 </span></pre></div>
 
-        </details>
 
     
 
                             </div>
                 </section>
                 <section id="derived_observable">
-                            <div class="attr function"><a class="headerlink" href="#derived_observable">#&nbsp;&nbsp</a>
+                            <input id="derived_observable-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">derived_observable</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">func</span>, </span><span class="param"><span class="n">data</span>, </span><span class="param"><span class="n">array_mode</span><span class="o">=</span><span class="kc">False</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="derived_observable-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">derived_observable</span><span class="signature">(func, data, array_mode=False, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="derived_observable-1040"><a href="#derived_observable-1040"><span class="linenos">1040</span></a><span class="k">def</span> <span class="nf">derived_observable</span><span class="p">(</span><span class="n">func</span><span class="p">,</span> <span class="n">data</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="derived_observable-1041"><a href="#derived_observable-1041"><span class="linenos">1041</span></a>    <span class="sd">&quot;&quot;&quot;Construct a derived Obs according to func(data, **kwargs) using automatic differentiation.</span>
-</span><span id="derived_observable-1042"><a href="#derived_observable-1042"><span class="linenos">1042</span></a>
-</span><span id="derived_observable-1043"><a href="#derived_observable-1043"><span class="linenos">1043</span></a><span class="sd">    Parameters</span>
-</span><span id="derived_observable-1044"><a href="#derived_observable-1044"><span class="linenos">1044</span></a><span class="sd">    ----------</span>
-</span><span id="derived_observable-1045"><a href="#derived_observable-1045"><span class="linenos">1045</span></a><span class="sd">    func : object</span>
-</span><span id="derived_observable-1046"><a href="#derived_observable-1046"><span class="linenos">1046</span></a><span class="sd">        arbitrary function of the form func(data, **kwargs). For the</span>
-</span><span id="derived_observable-1047"><a href="#derived_observable-1047"><span class="linenos">1047</span></a><span class="sd">        automatic differentiation to work, all numpy functions have to have</span>
-</span><span id="derived_observable-1048"><a href="#derived_observable-1048"><span class="linenos">1048</span></a><span class="sd">        the autograd wrapper (use &#39;import autograd.numpy as anp&#39;).</span>
-</span><span id="derived_observable-1049"><a href="#derived_observable-1049"><span class="linenos">1049</span></a><span class="sd">    data : list</span>
-</span><span id="derived_observable-1050"><a href="#derived_observable-1050"><span class="linenos">1050</span></a><span class="sd">        list of Obs, e.g. [obs1, obs2, obs3].</span>
-</span><span id="derived_observable-1051"><a href="#derived_observable-1051"><span class="linenos">1051</span></a><span class="sd">    num_grad : bool</span>
-</span><span id="derived_observable-1052"><a href="#derived_observable-1052"><span class="linenos">1052</span></a><span class="sd">        if True, numerical derivatives are used instead of autograd</span>
-</span><span id="derived_observable-1053"><a href="#derived_observable-1053"><span class="linenos">1053</span></a><span class="sd">        (default False). To control the numerical differentiation the</span>
-</span><span id="derived_observable-1054"><a href="#derived_observable-1054"><span class="linenos">1054</span></a><span class="sd">        kwargs of numdifftools.step_generators.MaxStepGenerator</span>
-</span><span id="derived_observable-1055"><a href="#derived_observable-1055"><span class="linenos">1055</span></a><span class="sd">        can be used.</span>
-</span><span id="derived_observable-1056"><a href="#derived_observable-1056"><span class="linenos">1056</span></a><span class="sd">    man_grad : list</span>
-</span><span id="derived_observable-1057"><a href="#derived_observable-1057"><span class="linenos">1057</span></a><span class="sd">        manually supply a list or an array which contains the jacobian</span>
-</span><span id="derived_observable-1058"><a href="#derived_observable-1058"><span class="linenos">1058</span></a><span class="sd">        of func. Use cautiously, supplying the wrong derivative will</span>
-</span><span id="derived_observable-1059"><a href="#derived_observable-1059"><span class="linenos">1059</span></a><span class="sd">        not be intercepted.</span>
-</span><span id="derived_observable-1060"><a href="#derived_observable-1060"><span class="linenos">1060</span></a>
-</span><span id="derived_observable-1061"><a href="#derived_observable-1061"><span class="linenos">1061</span></a><span class="sd">    Notes</span>
-</span><span id="derived_observable-1062"><a href="#derived_observable-1062"><span class="linenos">1062</span></a><span class="sd">    -----</span>
-</span><span id="derived_observable-1063"><a href="#derived_observable-1063"><span class="linenos">1063</span></a><span class="sd">    For simple mathematical operations it can be practical to use anonymous</span>
-</span><span id="derived_observable-1064"><a href="#derived_observable-1064"><span class="linenos">1064</span></a><span class="sd">    functions. For the ratio of two observables one can e.g. use</span>
-</span><span id="derived_observable-1065"><a href="#derived_observable-1065"><span class="linenos">1065</span></a>
-</span><span id="derived_observable-1066"><a href="#derived_observable-1066"><span class="linenos">1066</span></a><span class="sd">    new_obs = derived_observable(lambda x: x[0] / x[1], [obs1, obs2])</span>
-</span><span id="derived_observable-1067"><a href="#derived_observable-1067"><span class="linenos">1067</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="derived_observable-1068"><a href="#derived_observable-1068"><span class="linenos">1068</span></a>
-</span><span id="derived_observable-1069"><a href="#derived_observable-1069"><span class="linenos">1069</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
-</span><span id="derived_observable-1070"><a href="#derived_observable-1070"><span class="linenos">1070</span></a>    <span class="n">raveled_data</span> <span class="o">=</span> <span class="n">data</span><span class="o">.</span><span class="n">ravel</span><span class="p">()</span>
-</span><span id="derived_observable-1071"><a href="#derived_observable-1071"><span class="linenos">1071</span></a>
-</span><span id="derived_observable-1072"><a href="#derived_observable-1072"><span class="linenos">1072</span></a>    <span class="c1"># Workaround for matrix operations containing non Obs data</span>
-</span><span id="derived_observable-1073"><a href="#derived_observable-1073"><span class="linenos">1073</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">):</span>
-</span><span id="derived_observable-1074"><a href="#derived_observable-1074"><span class="linenos">1074</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">)):</span>
-</span><span id="derived_observable-1075"><a href="#derived_observable-1075"><span class="linenos">1075</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
-</span><span id="derived_observable-1076"><a href="#derived_observable-1076"><span class="linenos">1076</span></a>                <span class="n">raveled_data</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">cov_Obs</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="mf">0.0</span><span class="p">,</span> <span class="s2">&quot;###dummy_covobs###&quot;</span><span class="p">)</span>
-</span><span id="derived_observable-1077"><a href="#derived_observable-1077"><span class="linenos">1077</span></a>
-</span><span id="derived_observable-1078"><a href="#derived_observable-1078"><span class="linenos">1078</span></a>    <span class="n">allcov</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="derived_observable-1079"><a href="#derived_observable-1079"><span class="linenos">1079</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">:</span>
-</span><span id="derived_observable-1080"><a href="#derived_observable-1080"><span class="linenos">1080</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="derived_observable-1081"><a href="#derived_observable-1081"><span class="linenos">1081</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">allcov</span><span class="p">:</span>
-</span><span id="derived_observable-1082"><a href="#derived_observable-1082"><span class="linenos">1082</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">):</span>
-</span><span id="derived_observable-1083"><a href="#derived_observable-1083"><span class="linenos">1083</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Inconsistent covariance matrices for </span><span class="si">%s</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
-</span><span id="derived_observable-1084"><a href="#derived_observable-1084"><span class="linenos">1084</span></a>            <span class="k">else</span><span class="p">:</span>
-</span><span id="derived_observable-1085"><a href="#derived_observable-1085"><span class="linenos">1085</span></a>                <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span>
-</span><span id="derived_observable-1086"><a href="#derived_observable-1086"><span class="linenos">1086</span></a>
-</span><span id="derived_observable-1087"><a href="#derived_observable-1087"><span class="linenos">1087</span></a>    <span class="n">n_obs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">)</span>
-</span><span id="derived_observable-1088"><a href="#derived_observable-1088"><span class="linenos">1088</span></a>    <span class="n">new_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">y</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">]</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]))</span>
-</span><span id="derived_observable-1089"><a href="#derived_observable-1089"><span class="linenos">1089</span></a>    <span class="n">new_cov_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">y</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">]</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]))</span>
-</span><span id="derived_observable-1090"><a href="#derived_observable-1090"><span class="linenos">1090</span></a>    <span class="n">new_sample_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">new_names</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">(</span><span class="n">new_cov_names</span><span class="p">))</span>
-</span><span id="derived_observable-1091"><a href="#derived_observable-1091"><span class="linenos">1091</span></a>
-</span><span id="derived_observable-1092"><a href="#derived_observable-1092"><span class="linenos">1092</span></a>    <span class="n">is_merged</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">,</span> <span class="n">raveled_data</span><span class="p">)))</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">)</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">}</span>
-</span><span id="derived_observable-1093"><a href="#derived_observable-1093"><span class="linenos">1093</span></a>    <span class="n">reweighted</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">,</span> <span class="n">raveled_data</span><span class="p">)))</span> <span class="o">&gt;</span> <span class="mi">0</span>
-</span><span id="derived_observable-1094"><a href="#derived_observable-1094"><span class="linenos">1094</span></a>
-</span><span id="derived_observable-1095"><a href="#derived_observable-1095"><span class="linenos">1095</span></a>    <span class="k">if</span> <span class="n">data</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="derived_observable-1096"><a href="#derived_observable-1096"><span class="linenos">1096</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">data</span><span class="p">])</span>
-</span><span id="derived_observable-1097"><a href="#derived_observable-1097"><span class="linenos">1097</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="derived_observable-1098"><a href="#derived_observable-1098"><span class="linenos">1098</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">value</span><span class="p">)(</span><span class="n">data</span><span class="p">)</span>
-</span><span id="derived_observable-1099"><a href="#derived_observable-1099"><span class="linenos">1099</span></a>
-</span><span id="derived_observable-1100"><a href="#derived_observable-1100"><span class="linenos">1100</span></a>    <span class="n">new_values</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="derived_observable-1101"><a href="#derived_observable-1101"><span class="linenos">1101</span></a>
-</span><span id="derived_observable-1102"><a href="#derived_observable-1102"><span class="linenos">1102</span></a>    <span class="n">multi</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">new_values</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">))</span>
-</span><span id="derived_observable-1103"><a href="#derived_observable-1103"><span class="linenos">1103</span></a>
-</span><span id="derived_observable-1104"><a href="#derived_observable-1104"><span class="linenos">1104</span></a>    <span class="n">new_r_values</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="derived_observable-1105"><a href="#derived_observable-1105"><span class="linenos">1105</span></a>    <span class="n">new_idl_d</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="derived_observable-1106"><a href="#derived_observable-1106"><span class="linenos">1106</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">:</span>
-</span><span id="derived_observable-1107"><a href="#derived_observable-1107"><span class="linenos">1107</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="derived_observable-1108"><a href="#derived_observable-1108"><span class="linenos">1108</span></a>        <span class="n">tmp_values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">n_obs</span><span class="p">)</span>
-</span><span id="derived_observable-1109"><a href="#derived_observable-1109"><span class="linenos">1109</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">):</span>
-</span><span id="derived_observable-1110"><a href="#derived_observable-1110"><span class="linenos">1110</span></a>            <span class="n">tmp_values</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">item</span><span class="o">.</span><span class="n">r_values</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">item</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
-</span><span id="derived_observable-1111"><a href="#derived_observable-1111"><span class="linenos">1111</span></a>            <span class="n">tmp_idl</span> <span class="o">=</span> <span class="n">item</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="derived_observable-1112"><a href="#derived_observable-1112"><span class="linenos">1112</span></a>            <span class="k">if</span> <span class="n">tmp_idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="derived_observable-1113"><a href="#derived_observable-1113"><span class="linenos">1113</span></a>                <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_idl</span><span class="p">)</span>
-</span><span id="derived_observable-1114"><a href="#derived_observable-1114"><span class="linenos">1114</span></a>        <span class="k">if</span> <span class="n">multi</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="derived_observable-1115"><a href="#derived_observable-1115"><span class="linenos">1115</span></a>            <span class="n">tmp_values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">tmp_values</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">data</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
-</span><span id="derived_observable-1116"><a href="#derived_observable-1116"><span class="linenos">1116</span></a>        <span class="n">new_r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">tmp_values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="derived_observable-1117"><a href="#derived_observable-1117"><span class="linenos">1117</span></a>        <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">_merge_idx</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span>
-</span><span id="derived_observable-1118"><a href="#derived_observable-1118"><span class="linenos">1118</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">is_merged</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="derived_observable-1119"><a href="#derived_observable-1119"><span class="linenos">1119</span></a>            <span class="n">is_merged</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="mi">1</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="p">[</span><span class="o">*</span><span class="n">idl</span><span class="p">,</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]]])))</span>
-</span><span id="derived_observable-1120"><a href="#derived_observable-1120"><span class="linenos">1120</span></a>
-</span><span id="derived_observable-1121"><a href="#derived_observable-1121"><span class="linenos">1121</span></a>    <span class="k">if</span> <span class="s1">&#39;man_grad&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
-</span><span id="derived_observable-1122"><a href="#derived_observable-1122"><span class="linenos">1122</span></a>        <span class="n">deriv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;man_grad&#39;</span><span class="p">))</span>
-</span><span id="derived_observable-1123"><a href="#derived_observable-1123"><span class="linenos">1123</span></a>        <span class="k">if</span> <span class="n">new_values</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="n">data</span><span class="o">.</span><span class="n">shape</span> <span class="o">!=</span> <span class="n">deriv</span><span class="o">.</span><span class="n">shape</span><span class="p">:</span>
-</span><span id="derived_observable-1124"><a href="#derived_observable-1124"><span class="linenos">1124</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Manual derivative does not have correct shape.&#39;</span><span class="p">)</span>
-</span><span id="derived_observable-1125"><a href="#derived_observable-1125"><span class="linenos">1125</span></a>    <span class="k">elif</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;num_grad&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="derived_observable-1126"><a href="#derived_observable-1126"><span class="linenos">1126</span></a>        <span class="k">if</span> <span class="n">multi</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="derived_observable-1127"><a href="#derived_observable-1127"><span class="linenos">1127</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Multi mode currently not supported for numerical derivative&#39;</span><span class="p">)</span>
-</span><span id="derived_observable-1128"><a href="#derived_observable-1128"><span class="linenos">1128</span></a>        <span class="n">options</span> <span class="o">=</span> <span class="p">{</span>
-</span><span id="derived_observable-1129"><a href="#derived_observable-1129"><span class="linenos">1129</span></a>            <span class="s1">&#39;base_step&#39;</span><span class="p">:</span> <span class="mf">0.1</span><span class="p">,</span>
-</span><span id="derived_observable-1130"><a href="#derived_observable-1130"><span class="linenos">1130</span></a>            <span class="s1">&#39;step_ratio&#39;</span><span class="p">:</span> <span class="mf">2.5</span><span class="p">}</span>
-</span><span id="derived_observable-1131"><a href="#derived_observable-1131"><span class="linenos">1131</span></a>        <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="n">options</span><span class="o">.</span><span class="n">keys</span><span class="p">():</span>
-</span><span id="derived_observable-1132"><a href="#derived_observable-1132"><span class="linenos">1132</span></a>            <span class="n">kwarg</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">)</span>
-</span><span id="derived_observable-1133"><a href="#derived_observable-1133"><span class="linenos">1133</span></a>            <span class="k">if</span> <span class="n">kwarg</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
-</span><span id="derived_observable-1134"><a href="#derived_observable-1134"><span class="linenos">1134</span></a>                <span class="n">options</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">kwarg</span>
-</span><span id="derived_observable-1135"><a href="#derived_observable-1135"><span class="linenos">1135</span></a>        <span class="n">tmp_df</span> <span class="o">=</span> <span class="n">nd</span><span class="o">.</span><span class="n">Gradient</span><span class="p">(</span><span class="n">func</span><span class="p">,</span> <span class="n">order</span><span class="o">=</span><span class="mi">4</span><span class="p">,</span> <span class="o">**</span><span class="p">{</span><span class="n">k</span><span class="p">:</span> <span class="n">v</span> <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">options</span><span class="o">.</span><span class="n">items</span><span class="p">()</span> <span class="k">if</span> <span class="n">v</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">})(</span><span class="n">values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="derived_observable-1136"><a href="#derived_observable-1136"><span class="linenos">1136</span></a>        <span class="k">if</span> <span class="n">tmp_df</span><span class="o">.</span><span class="n">size</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="derived_observable-1137"><a href="#derived_observable-1137"><span class="linenos">1137</span></a>            <span class="n">deriv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">tmp_df</span><span class="o">.</span><span class="n">real</span><span class="p">])</span>
-</span><span id="derived_observable-1138"><a href="#derived_observable-1138"><span class="linenos">1138</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="derived_observable-1139"><a href="#derived_observable-1139"><span class="linenos">1139</span></a>            <span class="n">deriv</span> <span class="o">=</span> <span class="n">tmp_df</span><span class="o">.</span><span class="n">real</span>
-</span><span id="derived_observable-1140"><a href="#derived_observable-1140"><span class="linenos">1140</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="derived_observable-1141"><a href="#derived_observable-1141"><span class="linenos">1141</span></a>        <span class="n">deriv</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
-</span><span id="derived_observable-1142"><a href="#derived_observable-1142"><span class="linenos">1142</span></a>
-</span><span id="derived_observable-1143"><a href="#derived_observable-1143"><span class="linenos">1143</span></a>    <span class="n">final_result</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">new_values</span><span class="o">.</span><span class="n">shape</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
-</span><span id="derived_observable-1144"><a href="#derived_observable-1144"><span class="linenos">1144</span></a>
-</span><span id="derived_observable-1145"><a href="#derived_observable-1145"><span class="linenos">1145</span></a>    <span class="k">if</span> <span class="n">array_mode</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="derived_observable-1146"><a href="#derived_observable-1146"><span class="linenos">1146</span></a>
-</span><span id="derived_observable-1147"><a href="#derived_observable-1147"><span class="linenos">1147</span></a>        <span class="k">class</span> <span class="nc">_Zero_grad</span><span class="p">():</span>
-</span><span id="derived_observable-1148"><a href="#derived_observable-1148"><span class="linenos">1148</span></a>            <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">N</span><span class="p">):</span>
-</span><span id="derived_observable-1149"><a href="#derived_observable-1149"><span class="linenos">1149</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
-</span><span id="derived_observable-1150"><a href="#derived_observable-1150"><span class="linenos">1150</span></a>
-</span><span id="derived_observable-1151"><a href="#derived_observable-1151"><span class="linenos">1151</span></a>        <span class="n">new_covobs_lengths</span> <span class="o">=</span> <span class="nb">dict</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">y</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">[[(</span><span class="n">n</span><span class="p">,</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">n</span><span class="p">]</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">]</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]))</span>
-</span><span id="derived_observable-1152"><a href="#derived_observable-1152"><span class="linenos">1152</span></a>        <span class="n">d_extracted</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="derived_observable-1153"><a href="#derived_observable-1153"><span class="linenos">1153</span></a>        <span class="n">g_extracted</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="derived_observable-1154"><a href="#derived_observable-1154"><span class="linenos">1154</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">:</span>
-</span><span id="derived_observable-1155"><a href="#derived_observable-1155"><span class="linenos">1155</span></a>            <span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="derived_observable-1156"><a href="#derived_observable-1156"><span class="linenos">1156</span></a>            <span class="n">ens_length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="derived_observable-1157"><a href="#derived_observable-1157"><span class="linenos">1157</span></a>            <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
-</span><span id="derived_observable-1158"><a href="#derived_observable-1158"><span class="linenos">1158</span></a>                <span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">ens_length</span><span class="p">)),</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]),</span> <span class="n">o</span><span class="o">.</span><span class="n">shape</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">ens_length</span><span class="p">),</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">dat</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">prod</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span><span class="p">))])</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="p">(</span><span class="n">ens_length</span><span class="p">,</span> <span class="p">)))</span>
-</span><span id="derived_observable-1159"><a href="#derived_observable-1159"><span class="linenos">1159</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_cov_names</span><span class="p">:</span>
-</span><span id="derived_observable-1160"><a href="#derived_observable-1160"><span class="linenos">1160</span></a>            <span class="n">g_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="derived_observable-1161"><a href="#derived_observable-1161"><span class="linenos">1161</span></a>            <span class="n">zero_grad</span> <span class="o">=</span> <span class="n">_Zero_grad</span><span class="p">(</span><span class="n">new_covobs_lengths</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="derived_observable-1162"><a href="#derived_observable-1162"><span class="linenos">1162</span></a>            <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
-</span><span id="derived_observable-1163"><a href="#derived_observable-1163"><span class="linenos">1163</span></a>                <span class="n">g_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">zero_grad</span><span class="p">)</span><span class="o">.</span><span class="n">grad</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">dat</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">prod</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span><span class="p">))])</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="p">(</span><span class="n">new_covobs_lengths</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="mi">1</span><span class="p">)))</span>
-</span><span id="derived_observable-1164"><a href="#derived_observable-1164"><span class="linenos">1164</span></a>
-</span><span id="derived_observable-1165"><a href="#derived_observable-1165"><span class="linenos">1165</span></a>    <span class="k">for</span> <span class="n">i_val</span><span class="p">,</span> <span class="n">new_val</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">new_values</span><span class="p">):</span>
-</span><span id="derived_observable-1166"><a href="#derived_observable-1166"><span class="linenos">1166</span></a>        <span class="n">new_deltas</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="derived_observable-1167"><a href="#derived_observable-1167"><span class="linenos">1167</span></a>        <span class="n">new_grad</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="derived_observable-1168"><a href="#derived_observable-1168"><span class="linenos">1168</span></a>        <span class="k">if</span> <span class="n">array_mode</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="derived_observable-1169"><a href="#derived_observable-1169"><span class="linenos">1169</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">:</span>
-</span><span id="derived_observable-1170"><a href="#derived_observable-1170"><span class="linenos">1170</span></a>                <span class="n">ens_length</span> <span class="o">=</span> <span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
-</span><span id="derived_observable-1171"><a href="#derived_observable-1171"><span class="linenos">1171</span></a>                <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">ens_length</span><span class="p">)</span>
-</span><span id="derived_observable-1172"><a href="#derived_observable-1172"><span class="linenos">1172</span></a>                <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]):</span>
-</span><span id="derived_observable-1173"><a href="#derived_observable-1173"><span class="linenos">1173</span></a>                    <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">tensordot</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="p">(</span><span class="n">i_dat</span><span class="p">,</span> <span class="p">)],</span> <span class="n">dat</span><span class="p">)</span>
-</span><span id="derived_observable-1174"><a href="#derived_observable-1174"><span class="linenos">1174</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_cov_names</span><span class="p">:</span>
-</span><span id="derived_observable-1175"><a href="#derived_observable-1175"><span class="linenos">1175</span></a>                <span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
-</span><span id="derived_observable-1176"><a href="#derived_observable-1176"><span class="linenos">1176</span></a>                <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">g_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]):</span>
-</span><span id="derived_observable-1177"><a href="#derived_observable-1177"><span class="linenos">1177</span></a>                    <span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">tensordot</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="p">(</span><span class="n">i_dat</span><span class="p">,</span> <span class="p">)],</span> <span class="n">dat</span><span class="p">)</span>
-</span><span id="derived_observable-1178"><a href="#derived_observable-1178"><span class="linenos">1178</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="derived_observable-1179"><a href="#derived_observable-1179"><span class="linenos">1179</span></a>            <span class="k">for</span> <span class="n">j_obs</span><span class="p">,</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
-</span><span id="derived_observable-1180"><a href="#derived_observable-1180"><span class="linenos">1180</span></a>                <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
-</span><span id="derived_observable-1181"><a href="#derived_observable-1181"><span class="linenos">1181</span></a>                    <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
-</span><span id="derived_observable-1182"><a href="#derived_observable-1182"><span class="linenos">1182</span></a>                        <span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">new_grad</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="n">j_obs</span><span class="p">]</span> <span class="o">*</span> <span class="n">obs</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span>
-</span><span id="derived_observable-1183"><a href="#derived_observable-1183"><span class="linenos">1183</span></a>                    <span class="k">else</span><span class="p">:</span>
-</span><span id="derived_observable-1184"><a href="#derived_observable-1184"><span class="linenos">1184</span></a>                        <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">new_deltas</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="n">j_obs</span><span class="p">]</span> <span class="o">*</span> <span class="n">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">obs</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">obs</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="derived_observable-1185"><a href="#derived_observable-1185"><span class="linenos">1185</span></a>
-</span><span id="derived_observable-1186"><a href="#derived_observable-1186"><span class="linenos">1186</span></a>        <span class="n">new_covobs</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">Covobs</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">name</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_grad</span><span class="p">}</span>
-</span><span id="derived_observable-1187"><a href="#derived_observable-1187"><span class="linenos">1187</span></a>
-</span><span id="derived_observable-1188"><a href="#derived_observable-1188"><span class="linenos">1188</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">new_covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span><span class="o">.</span><span class="n">isdisjoint</span><span class="p">(</span><span class="n">new_deltas</span><span class="o">.</span><span class="n">keys</span><span class="p">()):</span>
-</span><span id="derived_observable-1189"><a href="#derived_observable-1189"><span class="linenos">1189</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The same name has been used for deltas and covobs!&#39;</span><span class="p">)</span>
-</span><span id="derived_observable-1190"><a href="#derived_observable-1190"><span class="linenos">1190</span></a>        <span class="n">new_samples</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="derived_observable-1191"><a href="#derived_observable-1191"><span class="linenos">1191</span></a>        <span class="n">new_means</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="derived_observable-1192"><a href="#derived_observable-1192"><span class="linenos">1192</span></a>        <span class="n">new_idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="derived_observable-1193"><a href="#derived_observable-1193"><span class="linenos">1193</span></a>        <span class="n">new_names_obs</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="derived_observable-1194"><a href="#derived_observable-1194"><span class="linenos">1194</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_names</span><span class="p">:</span>
-</span><span id="derived_observable-1195"><a href="#derived_observable-1195"><span class="linenos">1195</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">new_covobs</span><span class="p">:</span>
-</span><span id="derived_observable-1196"><a href="#derived_observable-1196"><span class="linenos">1196</span></a>                <span class="k">if</span> <span class="n">is_merged</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="derived_observable-1197"><a href="#derived_observable-1197"><span class="linenos">1197</span></a>                    <span class="n">filtered_deltas</span><span class="p">,</span> <span class="n">filtered_idl_d</span> <span class="o">=</span> <span class="n">_filter_zeroes</span><span class="p">(</span><span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="derived_observable-1198"><a href="#derived_observable-1198"><span class="linenos">1198</span></a>                <span class="k">else</span><span class="p">:</span>
-</span><span id="derived_observable-1199"><a href="#derived_observable-1199"><span class="linenos">1199</span></a>                    <span class="n">filtered_deltas</span> <span class="o">=</span> <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="derived_observable-1200"><a href="#derived_observable-1200"><span class="linenos">1200</span></a>                    <span class="n">filtered_idl_d</span> <span class="o">=</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
-</span><span id="derived_observable-1201"><a href="#derived_observable-1201"><span class="linenos">1201</span></a>
-</span><span id="derived_observable-1202"><a href="#derived_observable-1202"><span class="linenos">1202</span></a>                <span class="n">new_samples</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">filtered_deltas</span><span class="p">)</span>
-</span><span id="derived_observable-1203"><a href="#derived_observable-1203"><span class="linenos">1203</span></a>                <span class="n">new_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">filtered_idl_d</span><span class="p">)</span>
-</span><span id="derived_observable-1204"><a href="#derived_observable-1204"><span class="linenos">1204</span></a>                <span class="n">new_means</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">new_r_values</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i_val</span><span class="p">])</span>
-</span><span id="derived_observable-1205"><a href="#derived_observable-1205"><span class="linenos">1205</span></a>                <span class="n">new_names_obs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="derived_observable-1206"><a href="#derived_observable-1206"><span class="linenos">1206</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="n">new_names_obs</span><span class="p">,</span> <span class="n">means</span><span class="o">=</span><span class="n">new_means</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">new_idl</span><span class="p">)</span>
-</span><span id="derived_observable-1207"><a href="#derived_observable-1207"><span class="linenos">1207</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_covobs</span><span class="p">:</span>
-</span><span id="derived_observable-1208"><a href="#derived_observable-1208"><span class="linenos">1208</span></a>            <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
-</span><span id="derived_observable-1209"><a href="#derived_observable-1209"><span class="linenos">1209</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="n">new_covobs</span>
-</span><span id="derived_observable-1210"><a href="#derived_observable-1210"><span class="linenos">1210</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">new_val</span>
-</span><span id="derived_observable-1211"><a href="#derived_observable-1211"><span class="linenos">1211</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">is_merged</span>
-</span><span id="derived_observable-1212"><a href="#derived_observable-1212"><span class="linenos">1212</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">reweighted</span>
-</span><span id="derived_observable-1213"><a href="#derived_observable-1213"><span class="linenos">1213</span></a>
-</span><span id="derived_observable-1214"><a href="#derived_observable-1214"><span class="linenos">1214</span></a>    <span class="k">if</span> <span class="n">multi</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
-</span><span id="derived_observable-1215"><a href="#derived_observable-1215"><span class="linenos">1215</span></a>        <span class="n">final_result</span> <span class="o">=</span> <span class="n">final_result</span><span class="o">.</span><span class="n">item</span><span class="p">()</span>
-</span><span id="derived_observable-1216"><a href="#derived_observable-1216"><span class="linenos">1216</span></a>
-</span><span id="derived_observable-1217"><a href="#derived_observable-1217"><span class="linenos">1217</span></a>    <span class="k">return</span> <span class="n">final_result</span>
+    <a class="headerlink" href="#derived_observable"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="derived_observable-1041"><a href="#derived_observable-1041"><span class="linenos">1041</span></a><span class="k">def</span> <span class="nf">derived_observable</span><span class="p">(</span><span class="n">func</span><span class="p">,</span> <span class="n">data</span><span class="p">,</span> <span class="n">array_mode</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="derived_observable-1042"><a href="#derived_observable-1042"><span class="linenos">1042</span></a>    <span class="sd">&quot;&quot;&quot;Construct a derived Obs according to func(data, **kwargs) using automatic differentiation.</span>
+</span><span id="derived_observable-1043"><a href="#derived_observable-1043"><span class="linenos">1043</span></a>
+</span><span id="derived_observable-1044"><a href="#derived_observable-1044"><span class="linenos">1044</span></a><span class="sd">    Parameters</span>
+</span><span id="derived_observable-1045"><a href="#derived_observable-1045"><span class="linenos">1045</span></a><span class="sd">    ----------</span>
+</span><span id="derived_observable-1046"><a href="#derived_observable-1046"><span class="linenos">1046</span></a><span class="sd">    func : object</span>
+</span><span id="derived_observable-1047"><a href="#derived_observable-1047"><span class="linenos">1047</span></a><span class="sd">        arbitrary function of the form func(data, **kwargs). For the</span>
+</span><span id="derived_observable-1048"><a href="#derived_observable-1048"><span class="linenos">1048</span></a><span class="sd">        automatic differentiation to work, all numpy functions have to have</span>
+</span><span id="derived_observable-1049"><a href="#derived_observable-1049"><span class="linenos">1049</span></a><span class="sd">        the autograd wrapper (use &#39;import autograd.numpy as anp&#39;).</span>
+</span><span id="derived_observable-1050"><a href="#derived_observable-1050"><span class="linenos">1050</span></a><span class="sd">    data : list</span>
+</span><span id="derived_observable-1051"><a href="#derived_observable-1051"><span class="linenos">1051</span></a><span class="sd">        list of Obs, e.g. [obs1, obs2, obs3].</span>
+</span><span id="derived_observable-1052"><a href="#derived_observable-1052"><span class="linenos">1052</span></a><span class="sd">    num_grad : bool</span>
+</span><span id="derived_observable-1053"><a href="#derived_observable-1053"><span class="linenos">1053</span></a><span class="sd">        if True, numerical derivatives are used instead of autograd</span>
+</span><span id="derived_observable-1054"><a href="#derived_observable-1054"><span class="linenos">1054</span></a><span class="sd">        (default False). To control the numerical differentiation the</span>
+</span><span id="derived_observable-1055"><a href="#derived_observable-1055"><span class="linenos">1055</span></a><span class="sd">        kwargs of numdifftools.step_generators.MaxStepGenerator</span>
+</span><span id="derived_observable-1056"><a href="#derived_observable-1056"><span class="linenos">1056</span></a><span class="sd">        can be used.</span>
+</span><span id="derived_observable-1057"><a href="#derived_observable-1057"><span class="linenos">1057</span></a><span class="sd">    man_grad : list</span>
+</span><span id="derived_observable-1058"><a href="#derived_observable-1058"><span class="linenos">1058</span></a><span class="sd">        manually supply a list or an array which contains the jacobian</span>
+</span><span id="derived_observable-1059"><a href="#derived_observable-1059"><span class="linenos">1059</span></a><span class="sd">        of func. Use cautiously, supplying the wrong derivative will</span>
+</span><span id="derived_observable-1060"><a href="#derived_observable-1060"><span class="linenos">1060</span></a><span class="sd">        not be intercepted.</span>
+</span><span id="derived_observable-1061"><a href="#derived_observable-1061"><span class="linenos">1061</span></a>
+</span><span id="derived_observable-1062"><a href="#derived_observable-1062"><span class="linenos">1062</span></a><span class="sd">    Notes</span>
+</span><span id="derived_observable-1063"><a href="#derived_observable-1063"><span class="linenos">1063</span></a><span class="sd">    -----</span>
+</span><span id="derived_observable-1064"><a href="#derived_observable-1064"><span class="linenos">1064</span></a><span class="sd">    For simple mathematical operations it can be practical to use anonymous</span>
+</span><span id="derived_observable-1065"><a href="#derived_observable-1065"><span class="linenos">1065</span></a><span class="sd">    functions. For the ratio of two observables one can e.g. use</span>
+</span><span id="derived_observable-1066"><a href="#derived_observable-1066"><span class="linenos">1066</span></a>
+</span><span id="derived_observable-1067"><a href="#derived_observable-1067"><span class="linenos">1067</span></a><span class="sd">    new_obs = derived_observable(lambda x: x[0] / x[1], [obs1, obs2])</span>
+</span><span id="derived_observable-1068"><a href="#derived_observable-1068"><span class="linenos">1068</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="derived_observable-1069"><a href="#derived_observable-1069"><span class="linenos">1069</span></a>
+</span><span id="derived_observable-1070"><a href="#derived_observable-1070"><span class="linenos">1070</span></a>    <span class="n">data</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">data</span><span class="p">)</span>
+</span><span id="derived_observable-1071"><a href="#derived_observable-1071"><span class="linenos">1071</span></a>    <span class="n">raveled_data</span> <span class="o">=</span> <span class="n">data</span><span class="o">.</span><span class="n">ravel</span><span class="p">()</span>
+</span><span id="derived_observable-1072"><a href="#derived_observable-1072"><span class="linenos">1072</span></a>
+</span><span id="derived_observable-1073"><a href="#derived_observable-1073"><span class="linenos">1073</span></a>    <span class="c1"># Workaround for matrix operations containing non Obs data</span>
+</span><span id="derived_observable-1074"><a href="#derived_observable-1074"><span class="linenos">1074</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="nb">all</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">Obs</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">):</span>
+</span><span id="derived_observable-1075"><a href="#derived_observable-1075"><span class="linenos">1075</span></a>        <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">)):</span>
+</span><span id="derived_observable-1076"><a href="#derived_observable-1076"><span class="linenos">1076</span></a>            <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="p">(</span><span class="nb">int</span><span class="p">,</span> <span class="nb">float</span><span class="p">)):</span>
+</span><span id="derived_observable-1077"><a href="#derived_observable-1077"><span class="linenos">1077</span></a>                <span class="n">raveled_data</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">cov_Obs</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="mf">0.0</span><span class="p">,</span> <span class="s2">&quot;###dummy_covobs###&quot;</span><span class="p">)</span>
+</span><span id="derived_observable-1078"><a href="#derived_observable-1078"><span class="linenos">1078</span></a>
+</span><span id="derived_observable-1079"><a href="#derived_observable-1079"><span class="linenos">1079</span></a>    <span class="n">allcov</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="derived_observable-1080"><a href="#derived_observable-1080"><span class="linenos">1080</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">:</span>
+</span><span id="derived_observable-1081"><a href="#derived_observable-1081"><span class="linenos">1081</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="derived_observable-1082"><a href="#derived_observable-1082"><span class="linenos">1082</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">allcov</span><span class="p">:</span>
+</span><span id="derived_observable-1083"><a href="#derived_observable-1083"><span class="linenos">1083</span></a>                <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">allclose</span><span class="p">(</span><span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span><span class="p">):</span>
+</span><span id="derived_observable-1084"><a href="#derived_observable-1084"><span class="linenos">1084</span></a>                    <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Inconsistent covariance matrices for </span><span class="si">%s</span><span class="s1">!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">name</span><span class="p">))</span>
+</span><span id="derived_observable-1085"><a href="#derived_observable-1085"><span class="linenos">1085</span></a>            <span class="k">else</span><span class="p">:</span>
+</span><span id="derived_observable-1086"><a href="#derived_observable-1086"><span class="linenos">1086</span></a>                <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">cov</span>
+</span><span id="derived_observable-1087"><a href="#derived_observable-1087"><span class="linenos">1087</span></a>
+</span><span id="derived_observable-1088"><a href="#derived_observable-1088"><span class="linenos">1088</span></a>    <span class="n">n_obs</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">)</span>
+</span><span id="derived_observable-1089"><a href="#derived_observable-1089"><span class="linenos">1089</span></a>    <span class="n">new_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">y</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">]</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]))</span>
+</span><span id="derived_observable-1090"><a href="#derived_observable-1090"><span class="linenos">1090</span></a>    <span class="n">new_cov_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">y</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">]</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]))</span>
+</span><span id="derived_observable-1091"><a href="#derived_observable-1091"><span class="linenos">1091</span></a>    <span class="n">new_sample_names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">new_names</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">(</span><span class="n">new_cov_names</span><span class="p">))</span>
+</span><span id="derived_observable-1092"><a href="#derived_observable-1092"><span class="linenos">1092</span></a>
+</span><span id="derived_observable-1093"><a href="#derived_observable-1093"><span class="linenos">1093</span></a>    <span class="n">is_merged</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">,</span> <span class="n">raveled_data</span><span class="p">)))</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">)</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">}</span>
+</span><span id="derived_observable-1094"><a href="#derived_observable-1094"><span class="linenos">1094</span></a>    <span class="n">reweighted</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">list</span><span class="p">(</span><span class="nb">filter</span><span class="p">(</span><span class="k">lambda</span> <span class="n">o</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">,</span> <span class="n">raveled_data</span><span class="p">)))</span> <span class="o">&gt;</span> <span class="mi">0</span>
+</span><span id="derived_observable-1095"><a href="#derived_observable-1095"><span class="linenos">1095</span></a>
+</span><span id="derived_observable-1096"><a href="#derived_observable-1096"><span class="linenos">1096</span></a>    <span class="k">if</span> <span class="n">data</span><span class="o">.</span><span class="n">ndim</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="derived_observable-1097"><a href="#derived_observable-1097"><span class="linenos">1097</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">data</span><span class="p">])</span>
+</span><span id="derived_observable-1098"><a href="#derived_observable-1098"><span class="linenos">1098</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="derived_observable-1099"><a href="#derived_observable-1099"><span class="linenos">1099</span></a>        <span class="n">values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vectorize</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="n">x</span><span class="o">.</span><span class="n">value</span><span class="p">)(</span><span class="n">data</span><span class="p">)</span>
+</span><span id="derived_observable-1100"><a href="#derived_observable-1100"><span class="linenos">1100</span></a>
+</span><span id="derived_observable-1101"><a href="#derived_observable-1101"><span class="linenos">1101</span></a>    <span class="n">new_values</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="derived_observable-1102"><a href="#derived_observable-1102"><span class="linenos">1102</span></a>
+</span><span id="derived_observable-1103"><a href="#derived_observable-1103"><span class="linenos">1103</span></a>    <span class="n">multi</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">isinstance</span><span class="p">(</span><span class="n">new_values</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">))</span>
+</span><span id="derived_observable-1104"><a href="#derived_observable-1104"><span class="linenos">1104</span></a>
+</span><span id="derived_observable-1105"><a href="#derived_observable-1105"><span class="linenos">1105</span></a>    <span class="n">new_r_values</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="derived_observable-1106"><a href="#derived_observable-1106"><span class="linenos">1106</span></a>    <span class="n">new_idl_d</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="derived_observable-1107"><a href="#derived_observable-1107"><span class="linenos">1107</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">:</span>
+</span><span id="derived_observable-1108"><a href="#derived_observable-1108"><span class="linenos">1108</span></a>        <span class="n">idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="derived_observable-1109"><a href="#derived_observable-1109"><span class="linenos">1109</span></a>        <span class="n">tmp_values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">n_obs</span><span class="p">)</span>
+</span><span id="derived_observable-1110"><a href="#derived_observable-1110"><span class="linenos">1110</span></a>        <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">raveled_data</span><span class="p">):</span>
+</span><span id="derived_observable-1111"><a href="#derived_observable-1111"><span class="linenos">1111</span></a>            <span class="n">tmp_values</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">item</span><span class="o">.</span><span class="n">r_values</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">item</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
+</span><span id="derived_observable-1112"><a href="#derived_observable-1112"><span class="linenos">1112</span></a>            <span class="n">tmp_idl</span> <span class="o">=</span> <span class="n">item</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="derived_observable-1113"><a href="#derived_observable-1113"><span class="linenos">1113</span></a>            <span class="k">if</span> <span class="n">tmp_idl</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="derived_observable-1114"><a href="#derived_observable-1114"><span class="linenos">1114</span></a>                <span class="n">idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_idl</span><span class="p">)</span>
+</span><span id="derived_observable-1115"><a href="#derived_observable-1115"><span class="linenos">1115</span></a>        <span class="k">if</span> <span class="n">multi</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="derived_observable-1116"><a href="#derived_observable-1116"><span class="linenos">1116</span></a>            <span class="n">tmp_values</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">tmp_values</span><span class="p">)</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">data</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
+</span><span id="derived_observable-1117"><a href="#derived_observable-1117"><span class="linenos">1117</span></a>        <span class="n">new_r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">func</span><span class="p">(</span><span class="n">tmp_values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="derived_observable-1118"><a href="#derived_observable-1118"><span class="linenos">1118</span></a>        <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">_merge_idx</span><span class="p">(</span><span class="n">idl</span><span class="p">)</span>
+</span><span id="derived_observable-1119"><a href="#derived_observable-1119"><span class="linenos">1119</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="n">is_merged</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="derived_observable-1120"><a href="#derived_observable-1120"><span class="linenos">1120</span></a>            <span class="n">is_merged</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">(</span><span class="mi">1</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">idx</span><span class="p">)</span> <span class="k">for</span> <span class="n">idx</span> <span class="ow">in</span> <span class="p">[</span><span class="o">*</span><span class="n">idl</span><span class="p">,</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]]])))</span>
+</span><span id="derived_observable-1121"><a href="#derived_observable-1121"><span class="linenos">1121</span></a>
+</span><span id="derived_observable-1122"><a href="#derived_observable-1122"><span class="linenos">1122</span></a>    <span class="k">if</span> <span class="s1">&#39;man_grad&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
+</span><span id="derived_observable-1123"><a href="#derived_observable-1123"><span class="linenos">1123</span></a>        <span class="n">deriv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;man_grad&#39;</span><span class="p">))</span>
+</span><span id="derived_observable-1124"><a href="#derived_observable-1124"><span class="linenos">1124</span></a>        <span class="k">if</span> <span class="n">new_values</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="n">data</span><span class="o">.</span><span class="n">shape</span> <span class="o">!=</span> <span class="n">deriv</span><span class="o">.</span><span class="n">shape</span><span class="p">:</span>
+</span><span id="derived_observable-1125"><a href="#derived_observable-1125"><span class="linenos">1125</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Manual derivative does not have correct shape.&#39;</span><span class="p">)</span>
+</span><span id="derived_observable-1126"><a href="#derived_observable-1126"><span class="linenos">1126</span></a>    <span class="k">elif</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;num_grad&#39;</span><span class="p">)</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="derived_observable-1127"><a href="#derived_observable-1127"><span class="linenos">1127</span></a>        <span class="k">if</span> <span class="n">multi</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="derived_observable-1128"><a href="#derived_observable-1128"><span class="linenos">1128</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Multi mode currently not supported for numerical derivative&#39;</span><span class="p">)</span>
+</span><span id="derived_observable-1129"><a href="#derived_observable-1129"><span class="linenos">1129</span></a>        <span class="n">options</span> <span class="o">=</span> <span class="p">{</span>
+</span><span id="derived_observable-1130"><a href="#derived_observable-1130"><span class="linenos">1130</span></a>            <span class="s1">&#39;base_step&#39;</span><span class="p">:</span> <span class="mf">0.1</span><span class="p">,</span>
+</span><span id="derived_observable-1131"><a href="#derived_observable-1131"><span class="linenos">1131</span></a>            <span class="s1">&#39;step_ratio&#39;</span><span class="p">:</span> <span class="mf">2.5</span><span class="p">}</span>
+</span><span id="derived_observable-1132"><a href="#derived_observable-1132"><span class="linenos">1132</span></a>        <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="n">options</span><span class="o">.</span><span class="n">keys</span><span class="p">():</span>
+</span><span id="derived_observable-1133"><a href="#derived_observable-1133"><span class="linenos">1133</span></a>            <span class="n">kwarg</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">)</span>
+</span><span id="derived_observable-1134"><a href="#derived_observable-1134"><span class="linenos">1134</span></a>            <span class="k">if</span> <span class="n">kwarg</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
+</span><span id="derived_observable-1135"><a href="#derived_observable-1135"><span class="linenos">1135</span></a>                <span class="n">options</span><span class="p">[</span><span class="n">key</span><span class="p">]</span> <span class="o">=</span> <span class="n">kwarg</span>
+</span><span id="derived_observable-1136"><a href="#derived_observable-1136"><span class="linenos">1136</span></a>        <span class="n">tmp_df</span> <span class="o">=</span> <span class="n">nd</span><span class="o">.</span><span class="n">Gradient</span><span class="p">(</span><span class="n">func</span><span class="p">,</span> <span class="n">order</span><span class="o">=</span><span class="mi">4</span><span class="p">,</span> <span class="o">**</span><span class="p">{</span><span class="n">k</span><span class="p">:</span> <span class="n">v</span> <span class="k">for</span> <span class="n">k</span><span class="p">,</span> <span class="n">v</span> <span class="ow">in</span> <span class="n">options</span><span class="o">.</span><span class="n">items</span><span class="p">()</span> <span class="k">if</span> <span class="n">v</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">})(</span><span class="n">values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="derived_observable-1137"><a href="#derived_observable-1137"><span class="linenos">1137</span></a>        <span class="k">if</span> <span class="n">tmp_df</span><span class="o">.</span><span class="n">size</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="derived_observable-1138"><a href="#derived_observable-1138"><span class="linenos">1138</span></a>            <span class="n">deriv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">tmp_df</span><span class="o">.</span><span class="n">real</span><span class="p">])</span>
+</span><span id="derived_observable-1139"><a href="#derived_observable-1139"><span class="linenos">1139</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="derived_observable-1140"><a href="#derived_observable-1140"><span class="linenos">1140</span></a>            <span class="n">deriv</span> <span class="o">=</span> <span class="n">tmp_df</span><span class="o">.</span><span class="n">real</span>
+</span><span id="derived_observable-1141"><a href="#derived_observable-1141"><span class="linenos">1141</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="derived_observable-1142"><a href="#derived_observable-1142"><span class="linenos">1142</span></a>        <span class="n">deriv</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">values</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
+</span><span id="derived_observable-1143"><a href="#derived_observable-1143"><span class="linenos">1143</span></a>
+</span><span id="derived_observable-1144"><a href="#derived_observable-1144"><span class="linenos">1144</span></a>    <span class="n">final_result</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">new_values</span><span class="o">.</span><span class="n">shape</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="nb">object</span><span class="p">)</span>
+</span><span id="derived_observable-1145"><a href="#derived_observable-1145"><span class="linenos">1145</span></a>
+</span><span id="derived_observable-1146"><a href="#derived_observable-1146"><span class="linenos">1146</span></a>    <span class="k">if</span> <span class="n">array_mode</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="derived_observable-1147"><a href="#derived_observable-1147"><span class="linenos">1147</span></a>
+</span><span id="derived_observable-1148"><a href="#derived_observable-1148"><span class="linenos">1148</span></a>        <span class="k">class</span> <span class="nc">_Zero_grad</span><span class="p">():</span>
+</span><span id="derived_observable-1149"><a href="#derived_observable-1149"><span class="linenos">1149</span></a>            <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">N</span><span class="p">):</span>
+</span><span id="derived_observable-1150"><a href="#derived_observable-1150"><span class="linenos">1150</span></a>                <span class="bp">self</span><span class="o">.</span><span class="n">grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="n">N</span><span class="p">,</span> <span class="mi">1</span><span class="p">))</span>
+</span><span id="derived_observable-1151"><a href="#derived_observable-1151"><span class="linenos">1151</span></a>
+</span><span id="derived_observable-1152"><a href="#derived_observable-1152"><span class="linenos">1152</span></a>        <span class="n">new_covobs_lengths</span> <span class="o">=</span> <span class="nb">dict</span><span class="p">(</span><span class="nb">set</span><span class="p">([</span><span class="n">y</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="p">[[(</span><span class="n">n</span><span class="p">,</span> <span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">n</span><span class="p">]</span><span class="o">.</span><span class="n">N</span><span class="p">)</span> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">]</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">raveled_data</span><span class="p">]</span> <span class="k">for</span> <span class="n">y</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]))</span>
+</span><span id="derived_observable-1153"><a href="#derived_observable-1153"><span class="linenos">1153</span></a>        <span class="n">d_extracted</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="derived_observable-1154"><a href="#derived_observable-1154"><span class="linenos">1154</span></a>        <span class="n">g_extracted</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="derived_observable-1155"><a href="#derived_observable-1155"><span class="linenos">1155</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">:</span>
+</span><span id="derived_observable-1156"><a href="#derived_observable-1156"><span class="linenos">1156</span></a>            <span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="derived_observable-1157"><a href="#derived_observable-1157"><span class="linenos">1157</span></a>            <span class="n">ens_length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="derived_observable-1158"><a href="#derived_observable-1158"><span class="linenos">1158</span></a>            <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
+</span><span id="derived_observable-1159"><a href="#derived_observable-1159"><span class="linenos">1159</span></a>                <span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">ens_length</span><span class="p">)),</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]),</span> <span class="n">o</span><span class="o">.</span><span class="n">shape</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">ens_length</span><span class="p">),</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">dat</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">prod</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span><span class="p">))])</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="p">(</span><span class="n">ens_length</span><span class="p">,</span> <span class="p">)))</span>
+</span><span id="derived_observable-1160"><a href="#derived_observable-1160"><span class="linenos">1160</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_cov_names</span><span class="p">:</span>
+</span><span id="derived_observable-1161"><a href="#derived_observable-1161"><span class="linenos">1161</span></a>            <span class="n">g_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="derived_observable-1162"><a href="#derived_observable-1162"><span class="linenos">1162</span></a>            <span class="n">zero_grad</span> <span class="o">=</span> <span class="n">_Zero_grad</span><span class="p">(</span><span class="n">new_covobs_lengths</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="derived_observable-1163"><a href="#derived_observable-1163"><span class="linenos">1163</span></a>            <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
+</span><span id="derived_observable-1164"><a href="#derived_observable-1164"><span class="linenos">1164</span></a>                <span class="n">g_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">covobs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="n">zero_grad</span><span class="p">)</span><span class="o">.</span><span class="n">grad</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">dat</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">prod</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span><span class="p">))])</span><span class="o">.</span><span class="n">reshape</span><span class="p">(</span><span class="n">dat</span><span class="o">.</span><span class="n">shape</span> <span class="o">+</span> <span class="p">(</span><span class="n">new_covobs_lengths</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="mi">1</span><span class="p">)))</span>
+</span><span id="derived_observable-1165"><a href="#derived_observable-1165"><span class="linenos">1165</span></a>
+</span><span id="derived_observable-1166"><a href="#derived_observable-1166"><span class="linenos">1166</span></a>    <span class="k">for</span> <span class="n">i_val</span><span class="p">,</span> <span class="n">new_val</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">new_values</span><span class="p">):</span>
+</span><span id="derived_observable-1167"><a href="#derived_observable-1167"><span class="linenos">1167</span></a>        <span class="n">new_deltas</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="derived_observable-1168"><a href="#derived_observable-1168"><span class="linenos">1168</span></a>        <span class="n">new_grad</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="derived_observable-1169"><a href="#derived_observable-1169"><span class="linenos">1169</span></a>        <span class="k">if</span> <span class="n">array_mode</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="derived_observable-1170"><a href="#derived_observable-1170"><span class="linenos">1170</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_sample_names</span><span class="p">:</span>
+</span><span id="derived_observable-1171"><a href="#derived_observable-1171"><span class="linenos">1171</span></a>                <span class="n">ens_length</span> <span class="o">=</span> <span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
+</span><span id="derived_observable-1172"><a href="#derived_observable-1172"><span class="linenos">1172</span></a>                <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">ens_length</span><span class="p">)</span>
+</span><span id="derived_observable-1173"><a href="#derived_observable-1173"><span class="linenos">1173</span></a>                <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">d_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]):</span>
+</span><span id="derived_observable-1174"><a href="#derived_observable-1174"><span class="linenos">1174</span></a>                    <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">tensordot</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="p">(</span><span class="n">i_dat</span><span class="p">,</span> <span class="p">)],</span> <span class="n">dat</span><span class="p">)</span>
+</span><span id="derived_observable-1175"><a href="#derived_observable-1175"><span class="linenos">1175</span></a>            <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_cov_names</span><span class="p">:</span>
+</span><span id="derived_observable-1176"><a href="#derived_observable-1176"><span class="linenos">1176</span></a>                <span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="mi">0</span>
+</span><span id="derived_observable-1177"><a href="#derived_observable-1177"><span class="linenos">1177</span></a>                <span class="k">for</span> <span class="n">i_dat</span><span class="p">,</span> <span class="n">dat</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">g_extracted</span><span class="p">[</span><span class="n">name</span><span class="p">]):</span>
+</span><span id="derived_observable-1178"><a href="#derived_observable-1178"><span class="linenos">1178</span></a>                    <span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">tensordot</span><span class="p">(</span><span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="p">(</span><span class="n">i_dat</span><span class="p">,</span> <span class="p">)],</span> <span class="n">dat</span><span class="p">)</span>
+</span><span id="derived_observable-1179"><a href="#derived_observable-1179"><span class="linenos">1179</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="derived_observable-1180"><a href="#derived_observable-1180"><span class="linenos">1180</span></a>            <span class="k">for</span> <span class="n">j_obs</span><span class="p">,</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">np</span><span class="o">.</span><span class="n">ndenumerate</span><span class="p">(</span><span class="n">data</span><span class="p">):</span>
+</span><span id="derived_observable-1181"><a href="#derived_observable-1181"><span class="linenos">1181</span></a>                <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
+</span><span id="derived_observable-1182"><a href="#derived_observable-1182"><span class="linenos">1182</span></a>                    <span class="k">if</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">cov_names</span><span class="p">:</span>
+</span><span id="derived_observable-1183"><a href="#derived_observable-1183"><span class="linenos">1183</span></a>                        <span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">new_grad</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="n">j_obs</span><span class="p">]</span> <span class="o">*</span> <span class="n">obs</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">grad</span>
+</span><span id="derived_observable-1184"><a href="#derived_observable-1184"><span class="linenos">1184</span></a>                    <span class="k">else</span><span class="p">:</span>
+</span><span id="derived_observable-1185"><a href="#derived_observable-1185"><span class="linenos">1185</span></a>                        <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">new_deltas</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">deriv</span><span class="p">[</span><span class="n">i_val</span> <span class="o">+</span> <span class="n">j_obs</span><span class="p">]</span> <span class="o">*</span> <span class="n">_expand_deltas_for_merge</span><span class="p">(</span><span class="n">obs</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">obs</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">obs</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="derived_observable-1186"><a href="#derived_observable-1186"><span class="linenos">1186</span></a>
+</span><span id="derived_observable-1187"><a href="#derived_observable-1187"><span class="linenos">1187</span></a>        <span class="n">new_covobs</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">Covobs</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="n">allcov</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">name</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="n">new_grad</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_grad</span><span class="p">}</span>
+</span><span id="derived_observable-1188"><a href="#derived_observable-1188"><span class="linenos">1188</span></a>
+</span><span id="derived_observable-1189"><a href="#derived_observable-1189"><span class="linenos">1189</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">new_covobs</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span><span class="o">.</span><span class="n">isdisjoint</span><span class="p">(</span><span class="n">new_deltas</span><span class="o">.</span><span class="n">keys</span><span class="p">()):</span>
+</span><span id="derived_observable-1190"><a href="#derived_observable-1190"><span class="linenos">1190</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;The same name has been used for deltas and covobs!&#39;</span><span class="p">)</span>
+</span><span id="derived_observable-1191"><a href="#derived_observable-1191"><span class="linenos">1191</span></a>        <span class="n">new_samples</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="derived_observable-1192"><a href="#derived_observable-1192"><span class="linenos">1192</span></a>        <span class="n">new_means</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="derived_observable-1193"><a href="#derived_observable-1193"><span class="linenos">1193</span></a>        <span class="n">new_idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="derived_observable-1194"><a href="#derived_observable-1194"><span class="linenos">1194</span></a>        <span class="n">new_names_obs</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="derived_observable-1195"><a href="#derived_observable-1195"><span class="linenos">1195</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_names</span><span class="p">:</span>
+</span><span id="derived_observable-1196"><a href="#derived_observable-1196"><span class="linenos">1196</span></a>            <span class="k">if</span> <span class="n">name</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">new_covobs</span><span class="p">:</span>
+</span><span id="derived_observable-1197"><a href="#derived_observable-1197"><span class="linenos">1197</span></a>                <span class="k">if</span> <span class="n">is_merged</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="derived_observable-1198"><a href="#derived_observable-1198"><span class="linenos">1198</span></a>                    <span class="n">filtered_deltas</span><span class="p">,</span> <span class="n">filtered_idl_d</span> <span class="o">=</span> <span class="n">_filter_zeroes</span><span class="p">(</span><span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="derived_observable-1199"><a href="#derived_observable-1199"><span class="linenos">1199</span></a>                <span class="k">else</span><span class="p">:</span>
+</span><span id="derived_observable-1200"><a href="#derived_observable-1200"><span class="linenos">1200</span></a>                    <span class="n">filtered_deltas</span> <span class="o">=</span> <span class="n">new_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="derived_observable-1201"><a href="#derived_observable-1201"><span class="linenos">1201</span></a>                    <span class="n">filtered_idl_d</span> <span class="o">=</span> <span class="n">new_idl_d</span><span class="p">[</span><span class="n">name</span><span class="p">]</span>
+</span><span id="derived_observable-1202"><a href="#derived_observable-1202"><span class="linenos">1202</span></a>
+</span><span id="derived_observable-1203"><a href="#derived_observable-1203"><span class="linenos">1203</span></a>                <span class="n">new_samples</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">filtered_deltas</span><span class="p">)</span>
+</span><span id="derived_observable-1204"><a href="#derived_observable-1204"><span class="linenos">1204</span></a>                <span class="n">new_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">filtered_idl_d</span><span class="p">)</span>
+</span><span id="derived_observable-1205"><a href="#derived_observable-1205"><span class="linenos">1205</span></a>                <span class="n">new_means</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">new_r_values</span><span class="p">[</span><span class="n">name</span><span class="p">][</span><span class="n">i_val</span><span class="p">])</span>
+</span><span id="derived_observable-1206"><a href="#derived_observable-1206"><span class="linenos">1206</span></a>                <span class="n">new_names_obs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="derived_observable-1207"><a href="#derived_observable-1207"><span class="linenos">1207</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="n">new_names_obs</span><span class="p">,</span> <span class="n">means</span><span class="o">=</span><span class="n">new_means</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">new_idl</span><span class="p">)</span>
+</span><span id="derived_observable-1208"><a href="#derived_observable-1208"><span class="linenos">1208</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">new_covobs</span><span class="p">:</span>
+</span><span id="derived_observable-1209"><a href="#derived_observable-1209"><span class="linenos">1209</span></a>            <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
+</span><span id="derived_observable-1210"><a href="#derived_observable-1210"><span class="linenos">1210</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">_covobs</span> <span class="o">=</span> <span class="n">new_covobs</span>
+</span><span id="derived_observable-1211"><a href="#derived_observable-1211"><span class="linenos">1211</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">new_val</span>
+</span><span id="derived_observable-1212"><a href="#derived_observable-1212"><span class="linenos">1212</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">is_merged</span>
+</span><span id="derived_observable-1213"><a href="#derived_observable-1213"><span class="linenos">1213</span></a>        <span class="n">final_result</span><span class="p">[</span><span class="n">i_val</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">reweighted</span>
+</span><span id="derived_observable-1214"><a href="#derived_observable-1214"><span class="linenos">1214</span></a>
+</span><span id="derived_observable-1215"><a href="#derived_observable-1215"><span class="linenos">1215</span></a>    <span class="k">if</span> <span class="n">multi</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
+</span><span id="derived_observable-1216"><a href="#derived_observable-1216"><span class="linenos">1216</span></a>        <span class="n">final_result</span> <span class="o">=</span> <span class="n">final_result</span><span class="o">.</span><span class="n">item</span><span class="p">()</span>
+</span><span id="derived_observable-1217"><a href="#derived_observable-1217"><span class="linenos">1217</span></a>
+</span><span id="derived_observable-1218"><a href="#derived_observable-1218"><span class="linenos">1218</span></a>    <span class="k">return</span> <span class="n">final_result</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Construct a derived Obs according to func(data, **kwargs) using automatic differentiation.</p>
 
@@ -4713,59 +4754,59 @@ functions. For the ratio of two observables one can e.g. use</p>
 
                 </section>
                 <section id="reweight">
-                            <div class="attr function"><a class="headerlink" href="#reweight">#&nbsp;&nbsp</a>
+                            <input id="reweight-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">reweight</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">weight</span>, </span><span class="param"><span class="n">obs</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="reweight-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">reweight</span><span class="signature">(weight, obs, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="reweight-1257"><a href="#reweight-1257"><span class="linenos">1257</span></a><span class="k">def</span> <span class="nf">reweight</span><span class="p">(</span><span class="n">weight</span><span class="p">,</span> <span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="reweight-1258"><a href="#reweight-1258"><span class="linenos">1258</span></a>    <span class="sd">&quot;&quot;&quot;Reweight a list of observables.</span>
-</span><span id="reweight-1259"><a href="#reweight-1259"><span class="linenos">1259</span></a>
-</span><span id="reweight-1260"><a href="#reweight-1260"><span class="linenos">1260</span></a><span class="sd">    Parameters</span>
-</span><span id="reweight-1261"><a href="#reweight-1261"><span class="linenos">1261</span></a><span class="sd">    ----------</span>
-</span><span id="reweight-1262"><a href="#reweight-1262"><span class="linenos">1262</span></a><span class="sd">    weight : Obs</span>
-</span><span id="reweight-1263"><a href="#reweight-1263"><span class="linenos">1263</span></a><span class="sd">        Reweighting factor. An Observable that has to be defined on a superset of the</span>
-</span><span id="reweight-1264"><a href="#reweight-1264"><span class="linenos">1264</span></a><span class="sd">        configurations in obs[i].idl for all i.</span>
-</span><span id="reweight-1265"><a href="#reweight-1265"><span class="linenos">1265</span></a><span class="sd">    obs : list</span>
-</span><span id="reweight-1266"><a href="#reweight-1266"><span class="linenos">1266</span></a><span class="sd">        list of Obs, e.g. [obs1, obs2, obs3].</span>
-</span><span id="reweight-1267"><a href="#reweight-1267"><span class="linenos">1267</span></a><span class="sd">    all_configs : bool</span>
-</span><span id="reweight-1268"><a href="#reweight-1268"><span class="linenos">1268</span></a><span class="sd">        if True, the reweighted observables are normalized by the average of</span>
-</span><span id="reweight-1269"><a href="#reweight-1269"><span class="linenos">1269</span></a><span class="sd">        the reweighting factor on all configurations in weight.idl and not</span>
-</span><span id="reweight-1270"><a href="#reweight-1270"><span class="linenos">1270</span></a><span class="sd">        on the configurations in obs[i].idl.</span>
-</span><span id="reweight-1271"><a href="#reweight-1271"><span class="linenos">1271</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="reweight-1272"><a href="#reweight-1272"><span class="linenos">1272</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="reweight-1273"><a href="#reweight-1273"><span class="linenos">1273</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="p">)):</span>
-</span><span id="reweight-1274"><a href="#reweight-1274"><span class="linenos">1274</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">cov_names</span><span class="p">):</span>
-</span><span id="reweight-1275"><a href="#reweight-1275"><span class="linenos">1275</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not possible to reweight an Obs that contains covobs!&#39;</span><span class="p">)</span>
-</span><span id="reweight-1276"><a href="#reweight-1276"><span class="linenos">1276</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)</span><span class="o">.</span><span class="n">issubset</span><span class="p">(</span><span class="n">weight</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
-</span><span id="reweight-1277"><a href="#reweight-1277"><span class="linenos">1277</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Ensembles do not fit&#39;</span><span class="p">)</span>
-</span><span id="reweight-1278"><a href="#reweight-1278"><span class="linenos">1278</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
-</span><span id="reweight-1279"><a href="#reweight-1279"><span class="linenos">1279</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span><span class="o">.</span><span class="n">issubset</span><span class="p">(</span><span class="n">weight</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]):</span>
-</span><span id="reweight-1280"><a href="#reweight-1280"><span class="linenos">1280</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;obs[</span><span class="si">%d</span><span class="s1">] has to be defined on a subset of the configs in weight.idl[</span><span class="si">%s</span><span class="s1">]!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">name</span><span class="p">))</span>
-</span><span id="reweight-1281"><a href="#reweight-1281"><span class="linenos">1281</span></a>        <span class="n">new_samples</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="reweight-1282"><a href="#reweight-1282"><span class="linenos">1282</span></a>        <span class="n">w_deltas</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="reweight-1283"><a href="#reweight-1283"><span class="linenos">1283</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
-</span><span id="reweight-1284"><a href="#reweight-1284"><span class="linenos">1284</span></a>            <span class="n">w_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">_reduce_deltas</span><span class="p">(</span><span class="n">weight</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">weight</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="reweight-1285"><a href="#reweight-1285"><span class="linenos">1285</span></a>            <span class="n">new_samples</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">w_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">weight</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
-</span><span id="reweight-1286"><a href="#reweight-1286"><span class="linenos">1286</span></a>        <span class="n">tmp_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">),</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)])</span>
-</span><span id="reweight-1287"><a href="#reweight-1287"><span class="linenos">1287</span></a>
-</span><span id="reweight-1288"><a href="#reweight-1288"><span class="linenos">1288</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;all_configs&#39;</span><span class="p">):</span>
-</span><span id="reweight-1289"><a href="#reweight-1289"><span class="linenos">1289</span></a>            <span class="n">new_weight</span> <span class="o">=</span> <span class="n">weight</span>
-</span><span id="reweight-1290"><a href="#reweight-1290"><span class="linenos">1290</span></a>        <span class="k">else</span><span class="p">:</span>
-</span><span id="reweight-1291"><a href="#reweight-1291"><span class="linenos">1291</span></a>            <span class="n">new_weight</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">w_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">weight</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)],</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">),</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)])</span>
-</span><span id="reweight-1292"><a href="#reweight-1292"><span class="linenos">1292</span></a>
-</span><span id="reweight-1293"><a href="#reweight-1293"><span class="linenos">1293</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="n">tmp_obs</span><span class="p">,</span> <span class="n">new_weight</span><span class="p">],</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">))</span>
-</span><span id="reweight-1294"><a href="#reweight-1294"><span class="linenos">1294</span></a>        <span class="n">result</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="kc">True</span>
-</span><span id="reweight-1295"><a href="#reweight-1295"><span class="linenos">1295</span></a>        <span class="n">result</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span>
-</span><span id="reweight-1296"><a href="#reweight-1296"><span class="linenos">1296</span></a>
-</span><span id="reweight-1297"><a href="#reweight-1297"><span class="linenos">1297</span></a>    <span class="k">return</span> <span class="n">result</span>
+    <a class="headerlink" href="#reweight"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="reweight-1258"><a href="#reweight-1258"><span class="linenos">1258</span></a><span class="k">def</span> <span class="nf">reweight</span><span class="p">(</span><span class="n">weight</span><span class="p">,</span> <span class="n">obs</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="reweight-1259"><a href="#reweight-1259"><span class="linenos">1259</span></a>    <span class="sd">&quot;&quot;&quot;Reweight a list of observables.</span>
+</span><span id="reweight-1260"><a href="#reweight-1260"><span class="linenos">1260</span></a>
+</span><span id="reweight-1261"><a href="#reweight-1261"><span class="linenos">1261</span></a><span class="sd">    Parameters</span>
+</span><span id="reweight-1262"><a href="#reweight-1262"><span class="linenos">1262</span></a><span class="sd">    ----------</span>
+</span><span id="reweight-1263"><a href="#reweight-1263"><span class="linenos">1263</span></a><span class="sd">    weight : Obs</span>
+</span><span id="reweight-1264"><a href="#reweight-1264"><span class="linenos">1264</span></a><span class="sd">        Reweighting factor. An Observable that has to be defined on a superset of the</span>
+</span><span id="reweight-1265"><a href="#reweight-1265"><span class="linenos">1265</span></a><span class="sd">        configurations in obs[i].idl for all i.</span>
+</span><span id="reweight-1266"><a href="#reweight-1266"><span class="linenos">1266</span></a><span class="sd">    obs : list</span>
+</span><span id="reweight-1267"><a href="#reweight-1267"><span class="linenos">1267</span></a><span class="sd">        list of Obs, e.g. [obs1, obs2, obs3].</span>
+</span><span id="reweight-1268"><a href="#reweight-1268"><span class="linenos">1268</span></a><span class="sd">    all_configs : bool</span>
+</span><span id="reweight-1269"><a href="#reweight-1269"><span class="linenos">1269</span></a><span class="sd">        if True, the reweighted observables are normalized by the average of</span>
+</span><span id="reweight-1270"><a href="#reweight-1270"><span class="linenos">1270</span></a><span class="sd">        the reweighting factor on all configurations in weight.idl and not</span>
+</span><span id="reweight-1271"><a href="#reweight-1271"><span class="linenos">1271</span></a><span class="sd">        on the configurations in obs[i].idl.</span>
+</span><span id="reweight-1272"><a href="#reweight-1272"><span class="linenos">1272</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="reweight-1273"><a href="#reweight-1273"><span class="linenos">1273</span></a>    <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="reweight-1274"><a href="#reweight-1274"><span class="linenos">1274</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="p">)):</span>
+</span><span id="reweight-1275"><a href="#reweight-1275"><span class="linenos">1275</span></a>        <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">cov_names</span><span class="p">):</span>
+</span><span id="reweight-1276"><a href="#reweight-1276"><span class="linenos">1276</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not possible to reweight an Obs that contains covobs!&#39;</span><span class="p">)</span>
+</span><span id="reweight-1277"><a href="#reweight-1277"><span class="linenos">1277</span></a>        <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)</span><span class="o">.</span><span class="n">issubset</span><span class="p">(</span><span class="n">weight</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
+</span><span id="reweight-1278"><a href="#reweight-1278"><span class="linenos">1278</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Ensembles do not fit&#39;</span><span class="p">)</span>
+</span><span id="reweight-1279"><a href="#reweight-1279"><span class="linenos">1279</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
+</span><span id="reweight-1280"><a href="#reweight-1280"><span class="linenos">1280</span></a>            <span class="k">if</span> <span class="ow">not</span> <span class="nb">set</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span><span class="o">.</span><span class="n">issubset</span><span class="p">(</span><span class="n">weight</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]):</span>
+</span><span id="reweight-1281"><a href="#reweight-1281"><span class="linenos">1281</span></a>                <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;obs[</span><span class="si">%d</span><span class="s1">] has to be defined on a subset of the configs in weight.idl[</span><span class="si">%s</span><span class="s1">]!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">name</span><span class="p">))</span>
+</span><span id="reweight-1282"><a href="#reweight-1282"><span class="linenos">1282</span></a>        <span class="n">new_samples</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="reweight-1283"><a href="#reweight-1283"><span class="linenos">1283</span></a>        <span class="n">w_deltas</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="reweight-1284"><a href="#reweight-1284"><span class="linenos">1284</span></a>        <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
+</span><span id="reweight-1285"><a href="#reweight-1285"><span class="linenos">1285</span></a>            <span class="n">w_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">_reduce_deltas</span><span class="p">(</span><span class="n">weight</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">weight</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="reweight-1286"><a href="#reweight-1286"><span class="linenos">1286</span></a>            <span class="n">new_samples</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">w_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">weight</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
+</span><span id="reweight-1287"><a href="#reweight-1287"><span class="linenos">1287</span></a>        <span class="n">tmp_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">),</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)])</span>
+</span><span id="reweight-1288"><a href="#reweight-1288"><span class="linenos">1288</span></a>
+</span><span id="reweight-1289"><a href="#reweight-1289"><span class="linenos">1289</span></a>        <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;all_configs&#39;</span><span class="p">):</span>
+</span><span id="reweight-1290"><a href="#reweight-1290"><span class="linenos">1290</span></a>            <span class="n">new_weight</span> <span class="o">=</span> <span class="n">weight</span>
+</span><span id="reweight-1291"><a href="#reweight-1291"><span class="linenos">1291</span></a>        <span class="k">else</span><span class="p">:</span>
+</span><span id="reweight-1292"><a href="#reweight-1292"><span class="linenos">1292</span></a>            <span class="n">new_weight</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">w_deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">weight</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)],</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">),</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">names</span><span class="p">)])</span>
+</span><span id="reweight-1293"><a href="#reweight-1293"><span class="linenos">1293</span></a>
+</span><span id="reweight-1294"><a href="#reweight-1294"><span class="linenos">1294</span></a>        <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="p">[</span><span class="n">tmp_obs</span><span class="p">,</span> <span class="n">new_weight</span><span class="p">],</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">))</span>
+</span><span id="reweight-1295"><a href="#reweight-1295"><span class="linenos">1295</span></a>        <span class="n">result</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="kc">True</span>
+</span><span id="reweight-1296"><a href="#reweight-1296"><span class="linenos">1296</span></a>        <span class="n">result</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">is_merged</span>
+</span><span id="reweight-1297"><a href="#reweight-1297"><span class="linenos">1297</span></a>
+</span><span id="reweight-1298"><a href="#reweight-1298"><span class="linenos">1298</span></a>    <span class="k">return</span> <span class="n">result</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Reweight a list of observables.</p>
 
@@ -4787,60 +4828,60 @@ on the configurations in obs[i].idl.</li>
 
                 </section>
                 <section id="correlate">
-                            <div class="attr function"><a class="headerlink" href="#correlate">#&nbsp;&nbsp</a>
+                            <input id="correlate-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">correlate</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">obs_a</span>, </span><span class="param"><span class="n">obs_b</span></span>)</span>
+
+                <label class="view-source-button" for="correlate-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">correlate</span><span class="signature">(obs_a, obs_b)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="correlate-1300"><a href="#correlate-1300"><span class="linenos">1300</span></a><span class="k">def</span> <span class="nf">correlate</span><span class="p">(</span><span class="n">obs_a</span><span class="p">,</span> <span class="n">obs_b</span><span class="p">):</span>
-</span><span id="correlate-1301"><a href="#correlate-1301"><span class="linenos">1301</span></a>    <span class="sd">&quot;&quot;&quot;Correlate two observables.</span>
-</span><span id="correlate-1302"><a href="#correlate-1302"><span class="linenos">1302</span></a>
-</span><span id="correlate-1303"><a href="#correlate-1303"><span class="linenos">1303</span></a><span class="sd">    Parameters</span>
-</span><span id="correlate-1304"><a href="#correlate-1304"><span class="linenos">1304</span></a><span class="sd">    ----------</span>
-</span><span id="correlate-1305"><a href="#correlate-1305"><span class="linenos">1305</span></a><span class="sd">    obs_a : Obs</span>
-</span><span id="correlate-1306"><a href="#correlate-1306"><span class="linenos">1306</span></a><span class="sd">        First observable</span>
-</span><span id="correlate-1307"><a href="#correlate-1307"><span class="linenos">1307</span></a><span class="sd">    obs_b : Obs</span>
-</span><span id="correlate-1308"><a href="#correlate-1308"><span class="linenos">1308</span></a><span class="sd">        Second observable</span>
-</span><span id="correlate-1309"><a href="#correlate-1309"><span class="linenos">1309</span></a>
-</span><span id="correlate-1310"><a href="#correlate-1310"><span class="linenos">1310</span></a><span class="sd">    Notes</span>
-</span><span id="correlate-1311"><a href="#correlate-1311"><span class="linenos">1311</span></a><span class="sd">    -----</span>
-</span><span id="correlate-1312"><a href="#correlate-1312"><span class="linenos">1312</span></a><span class="sd">    Keep in mind to only correlate primary observables which have not been reweighted</span>
-</span><span id="correlate-1313"><a href="#correlate-1313"><span class="linenos">1313</span></a><span class="sd">    yet. The reweighting has to be applied after correlating the observables.</span>
-</span><span id="correlate-1314"><a href="#correlate-1314"><span class="linenos">1314</span></a><span class="sd">    Currently only works if ensembles are identical (this is not strictly necessary).</span>
-</span><span id="correlate-1315"><a href="#correlate-1315"><span class="linenos">1315</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="correlate-1316"><a href="#correlate-1316"><span class="linenos">1316</span></a>
-</span><span id="correlate-1317"><a href="#correlate-1317"><span class="linenos">1317</span></a>    <span class="k">if</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_b</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
-</span><span id="correlate-1318"><a href="#correlate-1318"><span class="linenos">1318</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Ensembles do not fit&#39;</span><span class="p">)</span>
-</span><span id="correlate-1319"><a href="#correlate-1319"><span class="linenos">1319</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">cov_names</span><span class="p">)</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs_b</span><span class="o">.</span><span class="n">cov_names</span><span class="p">):</span>
-</span><span id="correlate-1320"><a href="#correlate-1320"><span class="linenos">1320</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not possible to correlate Obs that contain covobs!&#39;</span><span class="p">)</span>
-</span><span id="correlate-1321"><a href="#correlate-1321"><span class="linenos">1321</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
-</span><span id="correlate-1322"><a href="#correlate-1322"><span class="linenos">1322</span></a>        <span class="k">if</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">!=</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="correlate-1323"><a href="#correlate-1323"><span class="linenos">1323</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Shapes of ensemble&#39;</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;do not fit&#39;</span><span class="p">)</span>
-</span><span id="correlate-1324"><a href="#correlate-1324"><span class="linenos">1324</span></a>        <span class="k">if</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">!=</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
-</span><span id="correlate-1325"><a href="#correlate-1325"><span class="linenos">1325</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;idl of ensemble&#39;</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;do not fit&#39;</span><span class="p">)</span>
-</span><span id="correlate-1326"><a href="#correlate-1326"><span class="linenos">1326</span></a>
-</span><span id="correlate-1327"><a href="#correlate-1327"><span class="linenos">1327</span></a>    <span class="k">if</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="correlate-1328"><a href="#correlate-1328"><span class="linenos">1328</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;The first observable is already reweighted.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="correlate-1329"><a href="#correlate-1329"><span class="linenos">1329</span></a>    <span class="k">if</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="correlate-1330"><a href="#correlate-1330"><span class="linenos">1330</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;The second observable is already reweighted.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
-</span><span id="correlate-1331"><a href="#correlate-1331"><span class="linenos">1331</span></a>
-</span><span id="correlate-1332"><a href="#correlate-1332"><span class="linenos">1332</span></a>    <span class="n">new_samples</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="correlate-1333"><a href="#correlate-1333"><span class="linenos">1333</span></a>    <span class="n">new_idl</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="correlate-1334"><a href="#correlate-1334"><span class="linenos">1334</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
-</span><span id="correlate-1335"><a href="#correlate-1335"><span class="linenos">1335</span></a>        <span class="n">new_samples</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">obs_a</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="n">obs_b</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
-</span><span id="correlate-1336"><a href="#correlate-1336"><span class="linenos">1336</span></a>        <span class="n">new_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
-</span><span id="correlate-1337"><a href="#correlate-1337"><span class="linenos">1337</span></a>
-</span><span id="correlate-1338"><a href="#correlate-1338"><span class="linenos">1338</span></a>    <span class="n">o</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">),</span> <span class="n">idl</span><span class="o">=</span><span class="n">new_idl</span><span class="p">)</span>
-</span><span id="correlate-1339"><a href="#correlate-1339"><span class="linenos">1339</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span> <span class="ow">or</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">))</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">names</span><span class="p">}</span>
-</span><span id="correlate-1340"><a href="#correlate-1340"><span class="linenos">1340</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">or</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">reweighted</span>
-</span><span id="correlate-1341"><a href="#correlate-1341"><span class="linenos">1341</span></a>    <span class="k">return</span> <span class="n">o</span>
+    <a class="headerlink" href="#correlate"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="correlate-1301"><a href="#correlate-1301"><span class="linenos">1301</span></a><span class="k">def</span> <span class="nf">correlate</span><span class="p">(</span><span class="n">obs_a</span><span class="p">,</span> <span class="n">obs_b</span><span class="p">):</span>
+</span><span id="correlate-1302"><a href="#correlate-1302"><span class="linenos">1302</span></a>    <span class="sd">&quot;&quot;&quot;Correlate two observables.</span>
+</span><span id="correlate-1303"><a href="#correlate-1303"><span class="linenos">1303</span></a>
+</span><span id="correlate-1304"><a href="#correlate-1304"><span class="linenos">1304</span></a><span class="sd">    Parameters</span>
+</span><span id="correlate-1305"><a href="#correlate-1305"><span class="linenos">1305</span></a><span class="sd">    ----------</span>
+</span><span id="correlate-1306"><a href="#correlate-1306"><span class="linenos">1306</span></a><span class="sd">    obs_a : Obs</span>
+</span><span id="correlate-1307"><a href="#correlate-1307"><span class="linenos">1307</span></a><span class="sd">        First observable</span>
+</span><span id="correlate-1308"><a href="#correlate-1308"><span class="linenos">1308</span></a><span class="sd">    obs_b : Obs</span>
+</span><span id="correlate-1309"><a href="#correlate-1309"><span class="linenos">1309</span></a><span class="sd">        Second observable</span>
+</span><span id="correlate-1310"><a href="#correlate-1310"><span class="linenos">1310</span></a>
+</span><span id="correlate-1311"><a href="#correlate-1311"><span class="linenos">1311</span></a><span class="sd">    Notes</span>
+</span><span id="correlate-1312"><a href="#correlate-1312"><span class="linenos">1312</span></a><span class="sd">    -----</span>
+</span><span id="correlate-1313"><a href="#correlate-1313"><span class="linenos">1313</span></a><span class="sd">    Keep in mind to only correlate primary observables which have not been reweighted</span>
+</span><span id="correlate-1314"><a href="#correlate-1314"><span class="linenos">1314</span></a><span class="sd">    yet. The reweighting has to be applied after correlating the observables.</span>
+</span><span id="correlate-1315"><a href="#correlate-1315"><span class="linenos">1315</span></a><span class="sd">    Currently only works if ensembles are identical (this is not strictly necessary).</span>
+</span><span id="correlate-1316"><a href="#correlate-1316"><span class="linenos">1316</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="correlate-1317"><a href="#correlate-1317"><span class="linenos">1317</span></a>
+</span><span id="correlate-1318"><a href="#correlate-1318"><span class="linenos">1318</span></a>    <span class="k">if</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_b</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
+</span><span id="correlate-1319"><a href="#correlate-1319"><span class="linenos">1319</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Ensembles do not fit&#39;</span><span class="p">)</span>
+</span><span id="correlate-1320"><a href="#correlate-1320"><span class="linenos">1320</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">cov_names</span><span class="p">)</span> <span class="ow">or</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs_b</span><span class="o">.</span><span class="n">cov_names</span><span class="p">):</span>
+</span><span id="correlate-1321"><a href="#correlate-1321"><span class="linenos">1321</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: Not possible to correlate Obs that contain covobs!&#39;</span><span class="p">)</span>
+</span><span id="correlate-1322"><a href="#correlate-1322"><span class="linenos">1322</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">:</span>
+</span><span id="correlate-1323"><a href="#correlate-1323"><span class="linenos">1323</span></a>        <span class="k">if</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">!=</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">shape</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="correlate-1324"><a href="#correlate-1324"><span class="linenos">1324</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Shapes of ensemble&#39;</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;do not fit&#39;</span><span class="p">)</span>
+</span><span id="correlate-1325"><a href="#correlate-1325"><span class="linenos">1325</span></a>        <span class="k">if</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">!=</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]:</span>
+</span><span id="correlate-1326"><a href="#correlate-1326"><span class="linenos">1326</span></a>            <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;idl of ensemble&#39;</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="s1">&#39;do not fit&#39;</span><span class="p">)</span>
+</span><span id="correlate-1327"><a href="#correlate-1327"><span class="linenos">1327</span></a>
+</span><span id="correlate-1328"><a href="#correlate-1328"><span class="linenos">1328</span></a>    <span class="k">if</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="correlate-1329"><a href="#correlate-1329"><span class="linenos">1329</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;The first observable is already reweighted.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="correlate-1330"><a href="#correlate-1330"><span class="linenos">1330</span></a>    <span class="k">if</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="correlate-1331"><a href="#correlate-1331"><span class="linenos">1331</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;The second observable is already reweighted.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="correlate-1332"><a href="#correlate-1332"><span class="linenos">1332</span></a>
+</span><span id="correlate-1333"><a href="#correlate-1333"><span class="linenos">1333</span></a>    <span class="n">new_samples</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="correlate-1334"><a href="#correlate-1334"><span class="linenos">1334</span></a>    <span class="n">new_idl</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="correlate-1335"><a href="#correlate-1335"><span class="linenos">1335</span></a>    <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">):</span>
+</span><span id="correlate-1336"><a href="#correlate-1336"><span class="linenos">1336</span></a>        <span class="n">new_samples</span><span class="o">.</span><span class="n">append</span><span class="p">((</span><span class="n">obs_a</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">])</span> <span class="o">*</span> <span class="p">(</span><span class="n">obs_b</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">+</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">name</span><span class="p">]))</span>
+</span><span id="correlate-1337"><a href="#correlate-1337"><span class="linenos">1337</span></a>        <span class="n">new_idl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">])</span>
+</span><span id="correlate-1338"><a href="#correlate-1338"><span class="linenos">1338</span></a>
+</span><span id="correlate-1339"><a href="#correlate-1339"><span class="linenos">1339</span></a>    <span class="n">o</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">new_samples</span><span class="p">,</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">names</span><span class="p">),</span> <span class="n">idl</span><span class="o">=</span><span class="n">new_idl</span><span class="p">)</span>
+</span><span id="correlate-1340"><a href="#correlate-1340"><span class="linenos">1340</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="p">(</span><span class="n">obs_a</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span> <span class="ow">or</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">))</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">names</span><span class="p">}</span>
+</span><span id="correlate-1341"><a href="#correlate-1341"><span class="linenos">1341</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">obs_a</span><span class="o">.</span><span class="n">reweighted</span> <span class="ow">or</span> <span class="n">obs_b</span><span class="o">.</span><span class="n">reweighted</span>
+</span><span id="correlate-1342"><a href="#correlate-1342"><span class="linenos">1342</span></a>    <span class="k">return</span> <span class="n">o</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Correlate two observables.</p>
 
@@ -4863,82 +4904,85 @@ Currently only works if ensembles are identical (this is not strictly necessary)
 
                 </section>
                 <section id="covariance">
-                            <div class="attr function"><a class="headerlink" href="#covariance">#&nbsp;&nbsp</a>
+                            <input id="covariance-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">covariance</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">obs</span>, </span><span class="param"><span class="n">visualize</span><span class="o">=</span><span class="kc">False</span>, </span><span class="param"><span class="n">correlation</span><span class="o">=</span><span class="kc">False</span>, </span><span class="param"><span class="n">smooth</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="covariance-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">covariance</span><span class="signature">(obs, visualize=False, correlation=False, smooth=None, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="covariance-1344"><a href="#covariance-1344"><span class="linenos">1344</span></a><span class="k">def</span> <span class="nf">covariance</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="n">visualize</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">correlation</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">smooth</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="covariance-1345"><a href="#covariance-1345"><span class="linenos">1345</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Calculates the covariance matrix of a set of observables.</span>
-</span><span id="covariance-1346"><a href="#covariance-1346"><span class="linenos">1346</span></a>
-</span><span id="covariance-1347"><a href="#covariance-1347"><span class="linenos">1347</span></a><span class="sd">    The gamma method has to be applied first to all observables.</span>
-</span><span id="covariance-1348"><a href="#covariance-1348"><span class="linenos">1348</span></a>
-</span><span id="covariance-1349"><a href="#covariance-1349"><span class="linenos">1349</span></a><span class="sd">    Parameters</span>
-</span><span id="covariance-1350"><a href="#covariance-1350"><span class="linenos">1350</span></a><span class="sd">    ----------</span>
-</span><span id="covariance-1351"><a href="#covariance-1351"><span class="linenos">1351</span></a><span class="sd">    obs : list or numpy.ndarray</span>
-</span><span id="covariance-1352"><a href="#covariance-1352"><span class="linenos">1352</span></a><span class="sd">        List or one dimensional array of Obs</span>
-</span><span id="covariance-1353"><a href="#covariance-1353"><span class="linenos">1353</span></a><span class="sd">    visualize : bool</span>
-</span><span id="covariance-1354"><a href="#covariance-1354"><span class="linenos">1354</span></a><span class="sd">        If True plots the corresponding normalized correlation matrix (default False).</span>
-</span><span id="covariance-1355"><a href="#covariance-1355"><span class="linenos">1355</span></a><span class="sd">    correlation : bool</span>
-</span><span id="covariance-1356"><a href="#covariance-1356"><span class="linenos">1356</span></a><span class="sd">        If True the correlation instead of the covariance is returned (default False).</span>
-</span><span id="covariance-1357"><a href="#covariance-1357"><span class="linenos">1357</span></a><span class="sd">    smooth : None or int</span>
-</span><span id="covariance-1358"><a href="#covariance-1358"><span class="linenos">1358</span></a><span class="sd">        If smooth is an integer &#39;E&#39; between 2 and the dimension of the matrix minus 1 the eigenvalue</span>
-</span><span id="covariance-1359"><a href="#covariance-1359"><span class="linenos">1359</span></a><span class="sd">        smoothing procedure of hep-lat/9412087 is applied to the correlation matrix which leaves the</span>
-</span><span id="covariance-1360"><a href="#covariance-1360"><span class="linenos">1360</span></a><span class="sd">        largest E eigenvalues essentially unchanged and smoothes the smaller eigenvalues to avoid extremely</span>
-</span><span id="covariance-1361"><a href="#covariance-1361"><span class="linenos">1361</span></a><span class="sd">        small ones.</span>
-</span><span id="covariance-1362"><a href="#covariance-1362"><span class="linenos">1362</span></a>
-</span><span id="covariance-1363"><a href="#covariance-1363"><span class="linenos">1363</span></a><span class="sd">    Notes</span>
-</span><span id="covariance-1364"><a href="#covariance-1364"><span class="linenos">1364</span></a><span class="sd">    -----</span>
-</span><span id="covariance-1365"><a href="#covariance-1365"><span class="linenos">1365</span></a><span class="sd">    The covariance is estimated by calculating the correlation matrix assuming no autocorrelation and then rescaling the correlation matrix by the full errors including the previous gamma method estimate for the autocorrelation of the observables. The covariance at windowsize 0 is guaranteed to be positive semi-definite</span>
-</span><span id="covariance-1366"><a href="#covariance-1366"><span class="linenos">1366</span></a><span class="sd">    $$v_i\Gamma_{ij}(0)v_j=\frac{1}{N}\sum_{s=1}^N\sum_{i,j}v_i\delta_i^s\delta_j^s v_j=\frac{1}{N}\sum_{s=1}^N\sum_{i}|v_i\delta_i^s|^2\geq 0\,,$$ for every $v\in\mathbb{R}^M$, while such an identity does not hold for larger windows/lags.</span>
-</span><span id="covariance-1367"><a href="#covariance-1367"><span class="linenos">1367</span></a><span class="sd">    For observables defined on a single ensemble our approximation is equivalent to assuming that the integrated autocorrelation time of an off-diagonal element is equal to the geometric mean of the integrated autocorrelation times of the corresponding diagonal elements.</span>
-</span><span id="covariance-1368"><a href="#covariance-1368"><span class="linenos">1368</span></a><span class="sd">    $$\tau_{\mathrm{int}, ij}=\sqrt{\tau_{\mathrm{int}, i}\times \tau_{\mathrm{int}, j}}$$</span>
-</span><span id="covariance-1369"><a href="#covariance-1369"><span class="linenos">1369</span></a><span class="sd">    This construction ensures that the estimated covariance matrix is positive semi-definite (up to numerical rounding errors).</span>
-</span><span id="covariance-1370"><a href="#covariance-1370"><span class="linenos">1370</span></a><span class="sd">    &#39;&#39;&#39;</span>
-</span><span id="covariance-1371"><a href="#covariance-1371"><span class="linenos">1371</span></a>
-</span><span id="covariance-1372"><a href="#covariance-1372"><span class="linenos">1372</span></a>    <span class="n">length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="p">)</span>
-</span><span id="covariance-1373"><a href="#covariance-1373"><span class="linenos">1373</span></a>
-</span><span id="covariance-1374"><a href="#covariance-1374"><span class="linenos">1374</span></a>    <span class="n">max_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">N</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">])</span>
-</span><span id="covariance-1375"><a href="#covariance-1375"><span class="linenos">1375</span></a>    <span class="k">if</span> <span class="n">max_samples</span> <span class="o">&lt;=</span> <span class="n">length</span> <span class="ow">and</span> <span class="ow">not</span> <span class="p">[</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]:</span>
-</span><span id="covariance-1376"><a href="#covariance-1376"><span class="linenos">1376</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;The dimension of the covariance matrix (</span><span class="si">{</span><span class="n">length</span><span class="si">}</span><span class="s2">) is larger or equal to the number of samples (</span><span class="si">{</span><span class="n">max_samples</span><span class="si">}</span><span class="s2">). This will result in a rank deficient matrix.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+    <a class="headerlink" href="#covariance"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="covariance-1345"><a href="#covariance-1345"><span class="linenos">1345</span></a><span class="k">def</span> <span class="nf">covariance</span><span class="p">(</span><span class="n">obs</span><span class="p">,</span> <span class="n">visualize</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">correlation</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">smooth</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="covariance-1346"><a href="#covariance-1346"><span class="linenos">1346</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Calculates the error covariance matrix of a set of observables.</span>
+</span><span id="covariance-1347"><a href="#covariance-1347"><span class="linenos">1347</span></a>
+</span><span id="covariance-1348"><a href="#covariance-1348"><span class="linenos">1348</span></a><span class="sd">    The gamma method has to be applied first to all observables.</span>
+</span><span id="covariance-1349"><a href="#covariance-1349"><span class="linenos">1349</span></a>
+</span><span id="covariance-1350"><a href="#covariance-1350"><span class="linenos">1350</span></a><span class="sd">    Parameters</span>
+</span><span id="covariance-1351"><a href="#covariance-1351"><span class="linenos">1351</span></a><span class="sd">    ----------</span>
+</span><span id="covariance-1352"><a href="#covariance-1352"><span class="linenos">1352</span></a><span class="sd">    obs : list or numpy.ndarray</span>
+</span><span id="covariance-1353"><a href="#covariance-1353"><span class="linenos">1353</span></a><span class="sd">        List or one dimensional array of Obs</span>
+</span><span id="covariance-1354"><a href="#covariance-1354"><span class="linenos">1354</span></a><span class="sd">    visualize : bool</span>
+</span><span id="covariance-1355"><a href="#covariance-1355"><span class="linenos">1355</span></a><span class="sd">        If True plots the corresponding normalized correlation matrix (default False).</span>
+</span><span id="covariance-1356"><a href="#covariance-1356"><span class="linenos">1356</span></a><span class="sd">    correlation : bool</span>
+</span><span id="covariance-1357"><a href="#covariance-1357"><span class="linenos">1357</span></a><span class="sd">        If True the correlation matrix instead of the error covariance matrix is returned (default False).</span>
+</span><span id="covariance-1358"><a href="#covariance-1358"><span class="linenos">1358</span></a><span class="sd">    smooth : None or int</span>
+</span><span id="covariance-1359"><a href="#covariance-1359"><span class="linenos">1359</span></a><span class="sd">        If smooth is an integer &#39;E&#39; between 2 and the dimension of the matrix minus 1 the eigenvalue</span>
+</span><span id="covariance-1360"><a href="#covariance-1360"><span class="linenos">1360</span></a><span class="sd">        smoothing procedure of hep-lat/9412087 is applied to the correlation matrix which leaves the</span>
+</span><span id="covariance-1361"><a href="#covariance-1361"><span class="linenos">1361</span></a><span class="sd">        largest E eigenvalues essentially unchanged and smoothes the smaller eigenvalues to avoid extremely</span>
+</span><span id="covariance-1362"><a href="#covariance-1362"><span class="linenos">1362</span></a><span class="sd">        small ones.</span>
+</span><span id="covariance-1363"><a href="#covariance-1363"><span class="linenos">1363</span></a>
+</span><span id="covariance-1364"><a href="#covariance-1364"><span class="linenos">1364</span></a><span class="sd">    Notes</span>
+</span><span id="covariance-1365"><a href="#covariance-1365"><span class="linenos">1365</span></a><span class="sd">    -----</span>
+</span><span id="covariance-1366"><a href="#covariance-1366"><span class="linenos">1366</span></a><span class="sd">    The error covariance is defined such that it agrees with the squared standard error for two identical observables</span>
+</span><span id="covariance-1367"><a href="#covariance-1367"><span class="linenos">1367</span></a><span class="sd">    $$\operatorname{cov}(a,a)=\sum_{s=1}^N\delta_a^s\delta_a^s/N^2=\Gamma_{aa}(0)/N=\operatorname{var}(a)/N=\sigma_a^2$$</span>
+</span><span id="covariance-1368"><a href="#covariance-1368"><span class="linenos">1368</span></a><span class="sd">    in the absence of autocorrelation.</span>
+</span><span id="covariance-1369"><a href="#covariance-1369"><span class="linenos">1369</span></a><span class="sd">    The error covariance is estimated by calculating the correlation matrix assuming no autocorrelation and then rescaling the correlation matrix by the full errors including the previous gamma method estimate for the autocorrelation of the observables. The covariance at windowsize 0 is guaranteed to be positive semi-definite</span>
+</span><span id="covariance-1370"><a href="#covariance-1370"><span class="linenos">1370</span></a><span class="sd">    $$\sum_{i,j}v_i\Gamma_{ij}(0)v_j=\frac{1}{N}\sum_{s=1}^N\sum_{i,j}v_i\delta_i^s\delta_j^s v_j=\frac{1}{N}\sum_{s=1}^N\sum_{i}|v_i\delta_i^s|^2\geq 0\,,$$ for every $v\in\mathbb{R}^M$, while such an identity does not hold for larger windows/lags.</span>
+</span><span id="covariance-1371"><a href="#covariance-1371"><span class="linenos">1371</span></a><span class="sd">    For observables defined on a single ensemble our approximation is equivalent to assuming that the integrated autocorrelation time of an off-diagonal element is equal to the geometric mean of the integrated autocorrelation times of the corresponding diagonal elements.</span>
+</span><span id="covariance-1372"><a href="#covariance-1372"><span class="linenos">1372</span></a><span class="sd">    $$\tau_{\mathrm{int}, ij}=\sqrt{\tau_{\mathrm{int}, i}\times \tau_{\mathrm{int}, j}}$$</span>
+</span><span id="covariance-1373"><a href="#covariance-1373"><span class="linenos">1373</span></a><span class="sd">    This construction ensures that the estimated covariance matrix is positive semi-definite (up to numerical rounding errors).</span>
+</span><span id="covariance-1374"><a href="#covariance-1374"><span class="linenos">1374</span></a><span class="sd">    &#39;&#39;&#39;</span>
+</span><span id="covariance-1375"><a href="#covariance-1375"><span class="linenos">1375</span></a>
+</span><span id="covariance-1376"><a href="#covariance-1376"><span class="linenos">1376</span></a>    <span class="n">length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">obs</span><span class="p">)</span>
 </span><span id="covariance-1377"><a href="#covariance-1377"><span class="linenos">1377</span></a>
-</span><span id="covariance-1378"><a href="#covariance-1378"><span class="linenos">1378</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="n">length</span><span class="p">,</span> <span class="n">length</span><span class="p">))</span>
-</span><span id="covariance-1379"><a href="#covariance-1379"><span class="linenos">1379</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">length</span><span class="p">):</span>
-</span><span id="covariance-1380"><a href="#covariance-1380"><span class="linenos">1380</span></a>        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">length</span><span class="p">):</span>
-</span><span id="covariance-1381"><a href="#covariance-1381"><span class="linenos">1381</span></a>            <span class="n">cov</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">_covariance_element</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">obs</span><span class="p">[</span><span class="n">j</span><span class="p">])</span>
-</span><span id="covariance-1382"><a href="#covariance-1382"><span class="linenos">1382</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">cov</span> <span class="o">+</span> <span class="n">cov</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">))</span>
-</span><span id="covariance-1383"><a href="#covariance-1383"><span class="linenos">1383</span></a>
-</span><span id="covariance-1384"><a href="#covariance-1384"><span class="linenos">1384</span></a>    <span class="n">corr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">)))</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">)))</span>
-</span><span id="covariance-1385"><a href="#covariance-1385"><span class="linenos">1385</span></a>
-</span><span id="covariance-1386"><a href="#covariance-1386"><span class="linenos">1386</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">smooth</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
-</span><span id="covariance-1387"><a href="#covariance-1387"><span class="linenos">1387</span></a>        <span class="n">corr</span> <span class="o">=</span> <span class="n">_smooth_eigenvalues</span><span class="p">(</span><span class="n">corr</span><span class="p">,</span> <span class="n">smooth</span><span class="p">)</span>
-</span><span id="covariance-1388"><a href="#covariance-1388"><span class="linenos">1388</span></a>
-</span><span id="covariance-1389"><a href="#covariance-1389"><span class="linenos">1389</span></a>    <span class="n">errors</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">]</span>
-</span><span id="covariance-1390"><a href="#covariance-1390"><span class="linenos">1390</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">errors</span><span class="p">)</span> <span class="o">@</span> <span class="n">corr</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">errors</span><span class="p">)</span>
-</span><span id="covariance-1391"><a href="#covariance-1391"><span class="linenos">1391</span></a>
-</span><span id="covariance-1392"><a href="#covariance-1392"><span class="linenos">1392</span></a>    <span class="n">eigenvalues</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">cov</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="covariance-1393"><a href="#covariance-1393"><span class="linenos">1393</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">eigenvalues</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">):</span>
-</span><span id="covariance-1394"><a href="#covariance-1394"><span class="linenos">1394</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Covariance matrix is not positive semi-definite (Eigenvalues: &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">eigenvalues</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;)&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="covariance-1378"><a href="#covariance-1378"><span class="linenos">1378</span></a>    <span class="n">max_samples</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">([</span><span class="n">o</span><span class="o">.</span><span class="n">N</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">])</span>
+</span><span id="covariance-1379"><a href="#covariance-1379"><span class="linenos">1379</span></a>    <span class="k">if</span> <span class="n">max_samples</span> <span class="o">&lt;=</span> <span class="n">length</span> <span class="ow">and</span> <span class="ow">not</span> <span class="p">[</span><span class="n">item</span> <span class="k">for</span> <span class="n">sublist</span> <span class="ow">in</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">]</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">sublist</span><span class="p">]:</span>
+</span><span id="covariance-1380"><a href="#covariance-1380"><span class="linenos">1380</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;The dimension of the covariance matrix (</span><span class="si">{</span><span class="n">length</span><span class="si">}</span><span class="s2">) is larger or equal to the number of samples (</span><span class="si">{</span><span class="n">max_samples</span><span class="si">}</span><span class="s2">). This will result in a rank deficient matrix.&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="covariance-1381"><a href="#covariance-1381"><span class="linenos">1381</span></a>
+</span><span id="covariance-1382"><a href="#covariance-1382"><span class="linenos">1382</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="n">length</span><span class="p">,</span> <span class="n">length</span><span class="p">))</span>
+</span><span id="covariance-1383"><a href="#covariance-1383"><span class="linenos">1383</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">length</span><span class="p">):</span>
+</span><span id="covariance-1384"><a href="#covariance-1384"><span class="linenos">1384</span></a>        <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">i</span><span class="p">,</span> <span class="n">length</span><span class="p">):</span>
+</span><span id="covariance-1385"><a href="#covariance-1385"><span class="linenos">1385</span></a>            <span class="n">cov</span><span class="p">[</span><span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">_covariance_element</span><span class="p">(</span><span class="n">obs</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">obs</span><span class="p">[</span><span class="n">j</span><span class="p">])</span>
+</span><span id="covariance-1386"><a href="#covariance-1386"><span class="linenos">1386</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">cov</span> <span class="o">+</span> <span class="n">cov</span><span class="o">.</span><span class="n">T</span> <span class="o">-</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">))</span>
+</span><span id="covariance-1387"><a href="#covariance-1387"><span class="linenos">1387</span></a>
+</span><span id="covariance-1388"><a href="#covariance-1388"><span class="linenos">1388</span></a>    <span class="n">corr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">)))</span> <span class="o">@</span> <span class="n">cov</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">cov</span><span class="p">)))</span>
+</span><span id="covariance-1389"><a href="#covariance-1389"><span class="linenos">1389</span></a>
+</span><span id="covariance-1390"><a href="#covariance-1390"><span class="linenos">1390</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">smooth</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
+</span><span id="covariance-1391"><a href="#covariance-1391"><span class="linenos">1391</span></a>        <span class="n">corr</span> <span class="o">=</span> <span class="n">_smooth_eigenvalues</span><span class="p">(</span><span class="n">corr</span><span class="p">,</span> <span class="n">smooth</span><span class="p">)</span>
+</span><span id="covariance-1392"><a href="#covariance-1392"><span class="linenos">1392</span></a>
+</span><span id="covariance-1393"><a href="#covariance-1393"><span class="linenos">1393</span></a>    <span class="n">errors</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">obs</span><span class="p">]</span>
+</span><span id="covariance-1394"><a href="#covariance-1394"><span class="linenos">1394</span></a>    <span class="n">cov</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">errors</span><span class="p">)</span> <span class="o">@</span> <span class="n">corr</span> <span class="o">@</span> <span class="n">np</span><span class="o">.</span><span class="n">diag</span><span class="p">(</span><span class="n">errors</span><span class="p">)</span>
 </span><span id="covariance-1395"><a href="#covariance-1395"><span class="linenos">1395</span></a>
-</span><span id="covariance-1396"><a href="#covariance-1396"><span class="linenos">1396</span></a>    <span class="k">if</span> <span class="n">visualize</span><span class="p">:</span>
-</span><span id="covariance-1397"><a href="#covariance-1397"><span class="linenos">1397</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">matshow</span><span class="p">(</span><span class="n">corr</span><span class="p">,</span> <span class="n">vmin</span><span class="o">=-</span><span class="mi">1</span><span class="p">,</span> <span class="n">vmax</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
-</span><span id="covariance-1398"><a href="#covariance-1398"><span class="linenos">1398</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">set_cmap</span><span class="p">(</span><span class="s1">&#39;RdBu&#39;</span><span class="p">)</span>
-</span><span id="covariance-1399"><a href="#covariance-1399"><span class="linenos">1399</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">colorbar</span><span class="p">()</span>
-</span><span id="covariance-1400"><a href="#covariance-1400"><span class="linenos">1400</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
-</span><span id="covariance-1401"><a href="#covariance-1401"><span class="linenos">1401</span></a>
-</span><span id="covariance-1402"><a href="#covariance-1402"><span class="linenos">1402</span></a>    <span class="k">if</span> <span class="n">correlation</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
-</span><span id="covariance-1403"><a href="#covariance-1403"><span class="linenos">1403</span></a>        <span class="k">return</span> <span class="n">corr</span>
-</span><span id="covariance-1404"><a href="#covariance-1404"><span class="linenos">1404</span></a>    <span class="k">else</span><span class="p">:</span>
-</span><span id="covariance-1405"><a href="#covariance-1405"><span class="linenos">1405</span></a>        <span class="k">return</span> <span class="n">cov</span>
+</span><span id="covariance-1396"><a href="#covariance-1396"><span class="linenos">1396</span></a>    <span class="n">eigenvalues</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linalg</span><span class="o">.</span><span class="n">eigh</span><span class="p">(</span><span class="n">cov</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="covariance-1397"><a href="#covariance-1397"><span class="linenos">1397</span></a>    <span class="k">if</span> <span class="ow">not</span> <span class="n">np</span><span class="o">.</span><span class="n">all</span><span class="p">(</span><span class="n">eigenvalues</span> <span class="o">&gt;=</span> <span class="mi">0</span><span class="p">):</span>
+</span><span id="covariance-1398"><a href="#covariance-1398"><span class="linenos">1398</span></a>        <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s2">&quot;Covariance matrix is not positive semi-definite (Eigenvalues: &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">eigenvalues</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;)&quot;</span><span class="p">,</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
+</span><span id="covariance-1399"><a href="#covariance-1399"><span class="linenos">1399</span></a>
+</span><span id="covariance-1400"><a href="#covariance-1400"><span class="linenos">1400</span></a>    <span class="k">if</span> <span class="n">visualize</span><span class="p">:</span>
+</span><span id="covariance-1401"><a href="#covariance-1401"><span class="linenos">1401</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">matshow</span><span class="p">(</span><span class="n">corr</span><span class="p">,</span> <span class="n">vmin</span><span class="o">=-</span><span class="mi">1</span><span class="p">,</span> <span class="n">vmax</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
+</span><span id="covariance-1402"><a href="#covariance-1402"><span class="linenos">1402</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">set_cmap</span><span class="p">(</span><span class="s1">&#39;RdBu&#39;</span><span class="p">)</span>
+</span><span id="covariance-1403"><a href="#covariance-1403"><span class="linenos">1403</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">colorbar</span><span class="p">()</span>
+</span><span id="covariance-1404"><a href="#covariance-1404"><span class="linenos">1404</span></a>        <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
+</span><span id="covariance-1405"><a href="#covariance-1405"><span class="linenos">1405</span></a>
+</span><span id="covariance-1406"><a href="#covariance-1406"><span class="linenos">1406</span></a>    <span class="k">if</span> <span class="n">correlation</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
+</span><span id="covariance-1407"><a href="#covariance-1407"><span class="linenos">1407</span></a>        <span class="k">return</span> <span class="n">corr</span>
+</span><span id="covariance-1408"><a href="#covariance-1408"><span class="linenos">1408</span></a>    <span class="k">else</span><span class="p">:</span>
+</span><span id="covariance-1409"><a href="#covariance-1409"><span class="linenos">1409</span></a>        <span class="k">return</span> <span class="n">cov</span>
 </span></pre></div>
 
-        </details>
 
-            <div class="docstring"><p>Calculates the covariance matrix of a set of observables.</p>
+            <div class="docstring"><p>Calculates the error covariance matrix of a set of observables.</p>
 
 <p>The gamma method has to be applied first to all observables.</p>
 
@@ -4950,7 +4994,7 @@ List or one dimensional array of Obs</li>
 <li><strong>visualize</strong> (bool):
 If True plots the corresponding normalized correlation matrix (default False).</li>
 <li><strong>correlation</strong> (bool):
-If True the correlation instead of the covariance is returned (default False).</li>
+If True the correlation matrix instead of the error covariance matrix is returned (default False).</li>
 <li><strong>smooth</strong> (None or int):
 If smooth is an integer 'E' between 2 and the dimension of the matrix minus 1 the eigenvalue
 smoothing procedure of hep-lat/9412087 is applied to the correlation matrix which leaves the
@@ -4960,8 +5004,11 @@ small ones.</li>
 
 <h6 id="notes">Notes</h6>
 
-<p>The covariance is estimated by calculating the correlation matrix assuming no autocorrelation and then rescaling the correlation matrix by the full errors including the previous gamma method estimate for the autocorrelation of the observables. The covariance at windowsize 0 is guaranteed to be positive semi-definite
-$$v_i\Gamma_{ij}(0)v_j=\frac{1}{N}\sum_{s=1}^N\sum_{i,j}v_i\delta_i^s\delta_j^s v_j=\frac{1}{N}\sum_{s=1}^N\sum_{i}|v_i\delta_i^s|^2\geq 0\,,$$ for every $v\in\mathbb{R}^M$, while such an identity does not hold for larger windows/lags.
+<p>The error covariance is defined such that it agrees with the squared standard error for two identical observables
+$$\operatorname{cov}(a,a)=\sum_{s=1}^N\delta_a^s\delta_a^s/N^2=\Gamma_{aa}(0)/N=\operatorname{var}(a)/N=\sigma_a^2$$
+in the absence of autocorrelation.
+The error covariance is estimated by calculating the correlation matrix assuming no autocorrelation and then rescaling the correlation matrix by the full errors including the previous gamma method estimate for the autocorrelation of the observables. The covariance at windowsize 0 is guaranteed to be positive semi-definite
+$$\sum_{i,j}v_i\Gamma_{ij}(0)v_j=\frac{1}{N}\sum_{s=1}^N\sum_{i,j}v_i\delta_i^s\delta_j^s v_j=\frac{1}{N}\sum_{s=1}^N\sum_{i}|v_i\delta_i^s|^2\geq 0\,,$$ for every $v\in\mathbb{R}^M$, while such an identity does not hold for larger windows/lags.
 For observables defined on a single ensemble our approximation is equivalent to assuming that the integrated autocorrelation time of an off-diagonal element is equal to the geometric mean of the integrated autocorrelation times of the corresponding diagonal elements.
 $$\tau_{\mathrm{int}, ij}=\sqrt{\tau_{\mathrm{int}, i}\times \tau_{\mathrm{int}, j}}$$
 This construction ensures that the estimated covariance matrix is positive semi-definite (up to numerical rounding errors).</p>
@@ -4970,36 +5017,36 @@ This construction ensures that the estimated covariance matrix is positive semi-
 
                 </section>
                 <section id="import_jackknife">
-                            <div class="attr function"><a class="headerlink" href="#import_jackknife">#&nbsp;&nbsp</a>
+                            <input id="import_jackknife-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">import_jackknife</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">jacks</span>, </span><span class="param"><span class="n">name</span>, </span><span class="param"><span class="n">idl</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="import_jackknife-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">import_jackknife</span><span class="signature">(jacks, name, idl=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="import_jackknife-1484"><a href="#import_jackknife-1484"><span class="linenos">1484</span></a><span class="k">def</span> <span class="nf">import_jackknife</span><span class="p">(</span><span class="n">jacks</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="import_jackknife-1485"><a href="#import_jackknife-1485"><span class="linenos">1485</span></a>    <span class="sd">&quot;&quot;&quot;Imports jackknife samples and returns an Obs</span>
-</span><span id="import_jackknife-1486"><a href="#import_jackknife-1486"><span class="linenos">1486</span></a>
-</span><span id="import_jackknife-1487"><a href="#import_jackknife-1487"><span class="linenos">1487</span></a><span class="sd">    Parameters</span>
-</span><span id="import_jackknife-1488"><a href="#import_jackknife-1488"><span class="linenos">1488</span></a><span class="sd">    ----------</span>
-</span><span id="import_jackknife-1489"><a href="#import_jackknife-1489"><span class="linenos">1489</span></a><span class="sd">    jacks : numpy.ndarray</span>
-</span><span id="import_jackknife-1490"><a href="#import_jackknife-1490"><span class="linenos">1490</span></a><span class="sd">        numpy array containing the mean value as zeroth entry and</span>
-</span><span id="import_jackknife-1491"><a href="#import_jackknife-1491"><span class="linenos">1491</span></a><span class="sd">        the N jackknife samples as first to Nth entry.</span>
-</span><span id="import_jackknife-1492"><a href="#import_jackknife-1492"><span class="linenos">1492</span></a><span class="sd">    name : str</span>
-</span><span id="import_jackknife-1493"><a href="#import_jackknife-1493"><span class="linenos">1493</span></a><span class="sd">        name of the ensemble the samples are defined on.</span>
-</span><span id="import_jackknife-1494"><a href="#import_jackknife-1494"><span class="linenos">1494</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="import_jackknife-1495"><a href="#import_jackknife-1495"><span class="linenos">1495</span></a>    <span class="n">length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">jacks</span><span class="p">)</span> <span class="o">-</span> <span class="mi">1</span>
-</span><span id="import_jackknife-1496"><a href="#import_jackknife-1496"><span class="linenos">1496</span></a>    <span class="n">prj</span> <span class="o">=</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">((</span><span class="n">length</span><span class="p">,</span> <span class="n">length</span><span class="p">))</span> <span class="o">-</span> <span class="p">(</span><span class="n">length</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">length</span><span class="p">))</span>
-</span><span id="import_jackknife-1497"><a href="#import_jackknife-1497"><span class="linenos">1497</span></a>    <span class="n">samples</span> <span class="o">=</span> <span class="n">jacks</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="o">@</span> <span class="n">prj</span>
-</span><span id="import_jackknife-1498"><a href="#import_jackknife-1498"><span class="linenos">1498</span></a>    <span class="n">mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span>
-</span><span id="import_jackknife-1499"><a href="#import_jackknife-1499"><span class="linenos">1499</span></a>    <span class="n">new_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">samples</span> <span class="o">-</span> <span class="n">mean</span><span class="p">],</span> <span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">,</span> <span class="n">means</span><span class="o">=</span><span class="p">[</span><span class="n">mean</span><span class="p">])</span>
-</span><span id="import_jackknife-1500"><a href="#import_jackknife-1500"><span class="linenos">1500</span></a>    <span class="n">new_obs</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">jacks</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="import_jackknife-1501"><a href="#import_jackknife-1501"><span class="linenos">1501</span></a>    <span class="k">return</span> <span class="n">new_obs</span>
+    <a class="headerlink" href="#import_jackknife"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="import_jackknife-1488"><a href="#import_jackknife-1488"><span class="linenos">1488</span></a><span class="k">def</span> <span class="nf">import_jackknife</span><span class="p">(</span><span class="n">jacks</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="import_jackknife-1489"><a href="#import_jackknife-1489"><span class="linenos">1489</span></a>    <span class="sd">&quot;&quot;&quot;Imports jackknife samples and returns an Obs</span>
+</span><span id="import_jackknife-1490"><a href="#import_jackknife-1490"><span class="linenos">1490</span></a>
+</span><span id="import_jackknife-1491"><a href="#import_jackknife-1491"><span class="linenos">1491</span></a><span class="sd">    Parameters</span>
+</span><span id="import_jackknife-1492"><a href="#import_jackknife-1492"><span class="linenos">1492</span></a><span class="sd">    ----------</span>
+</span><span id="import_jackknife-1493"><a href="#import_jackknife-1493"><span class="linenos">1493</span></a><span class="sd">    jacks : numpy.ndarray</span>
+</span><span id="import_jackknife-1494"><a href="#import_jackknife-1494"><span class="linenos">1494</span></a><span class="sd">        numpy array containing the mean value as zeroth entry and</span>
+</span><span id="import_jackknife-1495"><a href="#import_jackknife-1495"><span class="linenos">1495</span></a><span class="sd">        the N jackknife samples as first to Nth entry.</span>
+</span><span id="import_jackknife-1496"><a href="#import_jackknife-1496"><span class="linenos">1496</span></a><span class="sd">    name : str</span>
+</span><span id="import_jackknife-1497"><a href="#import_jackknife-1497"><span class="linenos">1497</span></a><span class="sd">        name of the ensemble the samples are defined on.</span>
+</span><span id="import_jackknife-1498"><a href="#import_jackknife-1498"><span class="linenos">1498</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="import_jackknife-1499"><a href="#import_jackknife-1499"><span class="linenos">1499</span></a>    <span class="n">length</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">jacks</span><span class="p">)</span> <span class="o">-</span> <span class="mi">1</span>
+</span><span id="import_jackknife-1500"><a href="#import_jackknife-1500"><span class="linenos">1500</span></a>    <span class="n">prj</span> <span class="o">=</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">((</span><span class="n">length</span><span class="p">,</span> <span class="n">length</span><span class="p">))</span> <span class="o">-</span> <span class="p">(</span><span class="n">length</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">identity</span><span class="p">(</span><span class="n">length</span><span class="p">))</span>
+</span><span id="import_jackknife-1501"><a href="#import_jackknife-1501"><span class="linenos">1501</span></a>    <span class="n">samples</span> <span class="o">=</span> <span class="n">jacks</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="o">@</span> <span class="n">prj</span>
+</span><span id="import_jackknife-1502"><a href="#import_jackknife-1502"><span class="linenos">1502</span></a>    <span class="n">mean</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">samples</span><span class="p">)</span>
+</span><span id="import_jackknife-1503"><a href="#import_jackknife-1503"><span class="linenos">1503</span></a>    <span class="n">new_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">samples</span> <span class="o">-</span> <span class="n">mean</span><span class="p">],</span> <span class="p">[</span><span class="n">name</span><span class="p">],</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">,</span> <span class="n">means</span><span class="o">=</span><span class="p">[</span><span class="n">mean</span><span class="p">])</span>
+</span><span id="import_jackknife-1504"><a href="#import_jackknife-1504"><span class="linenos">1504</span></a>    <span class="n">new_obs</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">jacks</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="import_jackknife-1505"><a href="#import_jackknife-1505"><span class="linenos">1505</span></a>    <span class="k">return</span> <span class="n">new_obs</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Imports jackknife samples and returns an Obs</p>
 
@@ -5017,47 +5064,47 @@ name of the ensemble the samples are defined on.</li>
 
                 </section>
                 <section id="merge_obs">
-                            <div class="attr function"><a class="headerlink" href="#merge_obs">#&nbsp;&nbsp</a>
+                            <input id="merge_obs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">merge_obs</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">list_of_obs</span></span>)</span>
+
+                <label class="view-source-button" for="merge_obs-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">merge_obs</span><span class="signature">(list_of_obs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="merge_obs-1504"><a href="#merge_obs-1504"><span class="linenos">1504</span></a><span class="k">def</span> <span class="nf">merge_obs</span><span class="p">(</span><span class="n">list_of_obs</span><span class="p">):</span>
-</span><span id="merge_obs-1505"><a href="#merge_obs-1505"><span class="linenos">1505</span></a>    <span class="sd">&quot;&quot;&quot;Combine all observables in list_of_obs into one new observable</span>
-</span><span id="merge_obs-1506"><a href="#merge_obs-1506"><span class="linenos">1506</span></a>
-</span><span id="merge_obs-1507"><a href="#merge_obs-1507"><span class="linenos">1507</span></a><span class="sd">    Parameters</span>
-</span><span id="merge_obs-1508"><a href="#merge_obs-1508"><span class="linenos">1508</span></a><span class="sd">    ----------</span>
-</span><span id="merge_obs-1509"><a href="#merge_obs-1509"><span class="linenos">1509</span></a><span class="sd">    list_of_obs : list</span>
-</span><span id="merge_obs-1510"><a href="#merge_obs-1510"><span class="linenos">1510</span></a><span class="sd">        list of the Obs object to be combined</span>
-</span><span id="merge_obs-1511"><a href="#merge_obs-1511"><span class="linenos">1511</span></a>
-</span><span id="merge_obs-1512"><a href="#merge_obs-1512"><span class="linenos">1512</span></a><span class="sd">    Notes</span>
-</span><span id="merge_obs-1513"><a href="#merge_obs-1513"><span class="linenos">1513</span></a><span class="sd">    -----</span>
-</span><span id="merge_obs-1514"><a href="#merge_obs-1514"><span class="linenos">1514</span></a><span class="sd">    It is not possible to combine obs which are based on the same replicum</span>
-</span><span id="merge_obs-1515"><a href="#merge_obs-1515"><span class="linenos">1515</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="merge_obs-1516"><a href="#merge_obs-1516"><span class="linenos">1516</span></a>    <span class="n">replist</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="k">for</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">list_of_obs</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">names</span><span class="p">]</span>
-</span><span id="merge_obs-1517"><a href="#merge_obs-1517"><span class="linenos">1517</span></a>    <span class="k">if</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">replist</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">replist</span><span class="p">)))</span> <span class="ow">is</span> <span class="kc">False</span><span class="p">:</span>
-</span><span id="merge_obs-1518"><a href="#merge_obs-1518"><span class="linenos">1518</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;list_of_obs contains duplicate replica: </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">replist</span><span class="p">)))</span>
-</span><span id="merge_obs-1519"><a href="#merge_obs-1519"><span class="linenos">1519</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">]):</span>
-</span><span id="merge_obs-1520"><a href="#merge_obs-1520"><span class="linenos">1520</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Not possible to merge data that contains covobs!&#39;</span><span class="p">)</span>
-</span><span id="merge_obs-1521"><a href="#merge_obs-1521"><span class="linenos">1521</span></a>    <span class="n">new_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="merge_obs-1522"><a href="#merge_obs-1522"><span class="linenos">1522</span></a>    <span class="n">idl_dict</span> <span class="o">=</span> <span class="p">{}</span>
-</span><span id="merge_obs-1523"><a href="#merge_obs-1523"><span class="linenos">1523</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">:</span>
-</span><span id="merge_obs-1524"><a href="#merge_obs-1524"><span class="linenos">1524</span></a>        <span class="n">new_dict</span><span class="o">.</span><span class="n">update</span><span class="p">({</span><span class="n">key</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">o</span><span class="o">.</span><span class="n">r_values</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span>
-</span><span id="merge_obs-1525"><a href="#merge_obs-1525"><span class="linenos">1525</span></a>                        <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="nb">set</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">)</span> <span class="o">|</span> <span class="nb">set</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">r_values</span><span class="p">)})</span>
-</span><span id="merge_obs-1526"><a href="#merge_obs-1526"><span class="linenos">1526</span></a>        <span class="n">idl_dict</span><span class="o">.</span><span class="n">update</span><span class="p">({</span><span class="n">key</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="nb">set</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">)})</span>
-</span><span id="merge_obs-1527"><a href="#merge_obs-1527"><span class="linenos">1527</span></a>
-</span><span id="merge_obs-1528"><a href="#merge_obs-1528"><span class="linenos">1528</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">new_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
-</span><span id="merge_obs-1529"><a href="#merge_obs-1529"><span class="linenos">1529</span></a>    <span class="n">o</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">new_dict</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">],</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idl_dict</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">])</span>
-</span><span id="merge_obs-1530"><a href="#merge_obs-1530"><span class="linenos">1530</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">oi</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span> <span class="k">for</span> <span class="n">oi</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">])</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">names</span><span class="p">}</span>
-</span><span id="merge_obs-1531"><a href="#merge_obs-1531"><span class="linenos">1531</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">([</span><span class="n">oi</span><span class="o">.</span><span class="n">reweighted</span> <span class="k">for</span> <span class="n">oi</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">])</span>
-</span><span id="merge_obs-1532"><a href="#merge_obs-1532"><span class="linenos">1532</span></a>    <span class="k">return</span> <span class="n">o</span>
+    <a class="headerlink" href="#merge_obs"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="merge_obs-1508"><a href="#merge_obs-1508"><span class="linenos">1508</span></a><span class="k">def</span> <span class="nf">merge_obs</span><span class="p">(</span><span class="n">list_of_obs</span><span class="p">):</span>
+</span><span id="merge_obs-1509"><a href="#merge_obs-1509"><span class="linenos">1509</span></a>    <span class="sd">&quot;&quot;&quot;Combine all observables in list_of_obs into one new observable</span>
+</span><span id="merge_obs-1510"><a href="#merge_obs-1510"><span class="linenos">1510</span></a>
+</span><span id="merge_obs-1511"><a href="#merge_obs-1511"><span class="linenos">1511</span></a><span class="sd">    Parameters</span>
+</span><span id="merge_obs-1512"><a href="#merge_obs-1512"><span class="linenos">1512</span></a><span class="sd">    ----------</span>
+</span><span id="merge_obs-1513"><a href="#merge_obs-1513"><span class="linenos">1513</span></a><span class="sd">    list_of_obs : list</span>
+</span><span id="merge_obs-1514"><a href="#merge_obs-1514"><span class="linenos">1514</span></a><span class="sd">        list of the Obs object to be combined</span>
+</span><span id="merge_obs-1515"><a href="#merge_obs-1515"><span class="linenos">1515</span></a>
+</span><span id="merge_obs-1516"><a href="#merge_obs-1516"><span class="linenos">1516</span></a><span class="sd">    Notes</span>
+</span><span id="merge_obs-1517"><a href="#merge_obs-1517"><span class="linenos">1517</span></a><span class="sd">    -----</span>
+</span><span id="merge_obs-1518"><a href="#merge_obs-1518"><span class="linenos">1518</span></a><span class="sd">    It is not possible to combine obs which are based on the same replicum</span>
+</span><span id="merge_obs-1519"><a href="#merge_obs-1519"><span class="linenos">1519</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="merge_obs-1520"><a href="#merge_obs-1520"><span class="linenos">1520</span></a>    <span class="n">replist</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="k">for</span> <span class="n">obs</span> <span class="ow">in</span> <span class="n">list_of_obs</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">obs</span><span class="o">.</span><span class="n">names</span><span class="p">]</span>
+</span><span id="merge_obs-1521"><a href="#merge_obs-1521"><span class="linenos">1521</span></a>    <span class="k">if</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">replist</span><span class="p">)</span> <span class="o">==</span> <span class="nb">len</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">replist</span><span class="p">)))</span> <span class="ow">is</span> <span class="kc">False</span><span class="p">:</span>
+</span><span id="merge_obs-1522"><a href="#merge_obs-1522"><span class="linenos">1522</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;list_of_obs contains duplicate replica: </span><span class="si">%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">replist</span><span class="p">)))</span>
+</span><span id="merge_obs-1523"><a href="#merge_obs-1523"><span class="linenos">1523</span></a>    <span class="k">if</span> <span class="nb">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">cov_names</span><span class="p">)</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">]):</span>
+</span><span id="merge_obs-1524"><a href="#merge_obs-1524"><span class="linenos">1524</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Not possible to merge data that contains covobs!&#39;</span><span class="p">)</span>
+</span><span id="merge_obs-1525"><a href="#merge_obs-1525"><span class="linenos">1525</span></a>    <span class="n">new_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="merge_obs-1526"><a href="#merge_obs-1526"><span class="linenos">1526</span></a>    <span class="n">idl_dict</span> <span class="o">=</span> <span class="p">{}</span>
+</span><span id="merge_obs-1527"><a href="#merge_obs-1527"><span class="linenos">1527</span></a>    <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">:</span>
+</span><span id="merge_obs-1528"><a href="#merge_obs-1528"><span class="linenos">1528</span></a>        <span class="n">new_dict</span><span class="o">.</span><span class="n">update</span><span class="p">({</span><span class="n">key</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="o">+</span> <span class="n">o</span><span class="o">.</span><span class="n">r_values</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span>
+</span><span id="merge_obs-1529"><a href="#merge_obs-1529"><span class="linenos">1529</span></a>                        <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="nb">set</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">)</span> <span class="o">|</span> <span class="nb">set</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">r_values</span><span class="p">)})</span>
+</span><span id="merge_obs-1530"><a href="#merge_obs-1530"><span class="linenos">1530</span></a>        <span class="n">idl_dict</span><span class="o">.</span><span class="n">update</span><span class="p">({</span><span class="n">key</span><span class="p">:</span> <span class="n">o</span><span class="o">.</span><span class="n">idl</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">key</span><span class="p">,</span> <span class="mi">0</span><span class="p">)</span> <span class="k">for</span> <span class="n">key</span> <span class="ow">in</span> <span class="nb">set</span><span class="p">(</span><span class="n">o</span><span class="o">.</span><span class="n">deltas</span><span class="p">)})</span>
+</span><span id="merge_obs-1531"><a href="#merge_obs-1531"><span class="linenos">1531</span></a>
+</span><span id="merge_obs-1532"><a href="#merge_obs-1532"><span class="linenos">1532</span></a>    <span class="n">names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">new_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
+</span><span id="merge_obs-1533"><a href="#merge_obs-1533"><span class="linenos">1533</span></a>    <span class="n">o</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([</span><span class="n">new_dict</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">],</span> <span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">idl_dict</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">names</span><span class="p">])</span>
+</span><span id="merge_obs-1534"><a href="#merge_obs-1534"><span class="linenos">1534</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">is_merged</span> <span class="o">=</span> <span class="p">{</span><span class="n">name</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">oi</span><span class="o">.</span><span class="n">is_merged</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="n">name</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span> <span class="k">for</span> <span class="n">oi</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">])</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">o</span><span class="o">.</span><span class="n">names</span><span class="p">}</span>
+</span><span id="merge_obs-1535"><a href="#merge_obs-1535"><span class="linenos">1535</span></a>    <span class="n">o</span><span class="o">.</span><span class="n">reweighted</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">([</span><span class="n">oi</span><span class="o">.</span><span class="n">reweighted</span> <span class="k">for</span> <span class="n">oi</span> <span class="ow">in</span> <span class="n">list_of_obs</span><span class="p">])</span>
+</span><span id="merge_obs-1536"><a href="#merge_obs-1536"><span class="linenos">1536</span></a>    <span class="k">return</span> <span class="n">o</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Combine all observables in list_of_obs into one new observable</p>
 
@@ -5076,59 +5123,59 @@ list of the Obs object to be combined</li>
 
                 </section>
                 <section id="cov_Obs">
-                            <div class="attr function"><a class="headerlink" href="#cov_Obs">#&nbsp;&nbsp</a>
+                            <input id="cov_Obs-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">cov_Obs</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">means</span>, </span><span class="param"><span class="n">cov</span>, </span><span class="param"><span class="n">name</span>, </span><span class="param"><span class="n">grad</span><span class="o">=</span><span class="kc">None</span></span>)</span>
+
+                <label class="view-source-button" for="cov_Obs-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">cov_Obs</span><span class="signature">(means, cov, name, grad=None)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="cov_Obs-1535"><a href="#cov_Obs-1535"><span class="linenos">1535</span></a><span class="k">def</span> <span class="nf">cov_Obs</span><span class="p">(</span><span class="n">means</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
-</span><span id="cov_Obs-1536"><a href="#cov_Obs-1536"><span class="linenos">1536</span></a>    <span class="sd">&quot;&quot;&quot;Create an Obs based on mean(s) and a covariance matrix</span>
-</span><span id="cov_Obs-1537"><a href="#cov_Obs-1537"><span class="linenos">1537</span></a>
-</span><span id="cov_Obs-1538"><a href="#cov_Obs-1538"><span class="linenos">1538</span></a><span class="sd">    Parameters</span>
-</span><span id="cov_Obs-1539"><a href="#cov_Obs-1539"><span class="linenos">1539</span></a><span class="sd">    ----------</span>
-</span><span id="cov_Obs-1540"><a href="#cov_Obs-1540"><span class="linenos">1540</span></a><span class="sd">    mean : list of floats or float</span>
-</span><span id="cov_Obs-1541"><a href="#cov_Obs-1541"><span class="linenos">1541</span></a><span class="sd">        N mean value(s) of the new Obs</span>
-</span><span id="cov_Obs-1542"><a href="#cov_Obs-1542"><span class="linenos">1542</span></a><span class="sd">    cov : list or array</span>
-</span><span id="cov_Obs-1543"><a href="#cov_Obs-1543"><span class="linenos">1543</span></a><span class="sd">        2d (NxN) Covariance matrix, 1d diagonal entries or 0d covariance</span>
-</span><span id="cov_Obs-1544"><a href="#cov_Obs-1544"><span class="linenos">1544</span></a><span class="sd">    name : str</span>
-</span><span id="cov_Obs-1545"><a href="#cov_Obs-1545"><span class="linenos">1545</span></a><span class="sd">        identifier for the covariance matrix</span>
-</span><span id="cov_Obs-1546"><a href="#cov_Obs-1546"><span class="linenos">1546</span></a><span class="sd">    grad : list or array</span>
-</span><span id="cov_Obs-1547"><a href="#cov_Obs-1547"><span class="linenos">1547</span></a><span class="sd">        Gradient of the Covobs wrt. the means belonging to cov.</span>
-</span><span id="cov_Obs-1548"><a href="#cov_Obs-1548"><span class="linenos">1548</span></a><span class="sd">    &quot;&quot;&quot;</span>
-</span><span id="cov_Obs-1549"><a href="#cov_Obs-1549"><span class="linenos">1549</span></a>
-</span><span id="cov_Obs-1550"><a href="#cov_Obs-1550"><span class="linenos">1550</span></a>    <span class="k">def</span> <span class="nf">covobs_to_obs</span><span class="p">(</span><span class="n">co</span><span class="p">):</span>
-</span><span id="cov_Obs-1551"><a href="#cov_Obs-1551"><span class="linenos">1551</span></a>        <span class="sd">&quot;&quot;&quot;Make an Obs out of a Covobs</span>
-</span><span id="cov_Obs-1552"><a href="#cov_Obs-1552"><span class="linenos">1552</span></a>
-</span><span id="cov_Obs-1553"><a href="#cov_Obs-1553"><span class="linenos">1553</span></a><span class="sd">        Parameters</span>
-</span><span id="cov_Obs-1554"><a href="#cov_Obs-1554"><span class="linenos">1554</span></a><span class="sd">        ----------</span>
-</span><span id="cov_Obs-1555"><a href="#cov_Obs-1555"><span class="linenos">1555</span></a><span class="sd">        co : Covobs</span>
-</span><span id="cov_Obs-1556"><a href="#cov_Obs-1556"><span class="linenos">1556</span></a><span class="sd">            Covobs to be embedded into the Obs</span>
-</span><span id="cov_Obs-1557"><a href="#cov_Obs-1557"><span class="linenos">1557</span></a><span class="sd">        &quot;&quot;&quot;</span>
-</span><span id="cov_Obs-1558"><a href="#cov_Obs-1558"><span class="linenos">1558</span></a>        <span class="n">o</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([],</span> <span class="p">[],</span> <span class="n">means</span><span class="o">=</span><span class="p">[])</span>
-</span><span id="cov_Obs-1559"><a href="#cov_Obs-1559"><span class="linenos">1559</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">co</span><span class="o">.</span><span class="n">value</span>
-</span><span id="cov_Obs-1560"><a href="#cov_Obs-1560"><span class="linenos">1560</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">co</span><span class="o">.</span><span class="n">name</span><span class="p">)</span>
-</span><span id="cov_Obs-1561"><a href="#cov_Obs-1561"><span class="linenos">1561</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">_covobs</span><span class="p">[</span><span class="n">co</span><span class="o">.</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">co</span>
-</span><span id="cov_Obs-1562"><a href="#cov_Obs-1562"><span class="linenos">1562</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">co</span><span class="o">.</span><span class="n">errsq</span><span class="p">())</span>
-</span><span id="cov_Obs-1563"><a href="#cov_Obs-1563"><span class="linenos">1563</span></a>        <span class="k">return</span> <span class="n">o</span>
-</span><span id="cov_Obs-1564"><a href="#cov_Obs-1564"><span class="linenos">1564</span></a>
-</span><span id="cov_Obs-1565"><a href="#cov_Obs-1565"><span class="linenos">1565</span></a>    <span class="n">ol</span> <span class="o">=</span> <span class="p">[]</span>
-</span><span id="cov_Obs-1566"><a href="#cov_Obs-1566"><span class="linenos">1566</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">means</span><span class="p">,</span> <span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="nb">int</span><span class="p">)):</span>
-</span><span id="cov_Obs-1567"><a href="#cov_Obs-1567"><span class="linenos">1567</span></a>        <span class="n">means</span> <span class="o">=</span> <span class="p">[</span><span class="n">means</span><span class="p">]</span>
+    <a class="headerlink" href="#cov_Obs"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="cov_Obs-1539"><a href="#cov_Obs-1539"><span class="linenos">1539</span></a><span class="k">def</span> <span class="nf">cov_Obs</span><span class="p">(</span><span class="n">means</span><span class="p">,</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
+</span><span id="cov_Obs-1540"><a href="#cov_Obs-1540"><span class="linenos">1540</span></a>    <span class="sd">&quot;&quot;&quot;Create an Obs based on mean(s) and a covariance matrix</span>
+</span><span id="cov_Obs-1541"><a href="#cov_Obs-1541"><span class="linenos">1541</span></a>
+</span><span id="cov_Obs-1542"><a href="#cov_Obs-1542"><span class="linenos">1542</span></a><span class="sd">    Parameters</span>
+</span><span id="cov_Obs-1543"><a href="#cov_Obs-1543"><span class="linenos">1543</span></a><span class="sd">    ----------</span>
+</span><span id="cov_Obs-1544"><a href="#cov_Obs-1544"><span class="linenos">1544</span></a><span class="sd">    mean : list of floats or float</span>
+</span><span id="cov_Obs-1545"><a href="#cov_Obs-1545"><span class="linenos">1545</span></a><span class="sd">        N mean value(s) of the new Obs</span>
+</span><span id="cov_Obs-1546"><a href="#cov_Obs-1546"><span class="linenos">1546</span></a><span class="sd">    cov : list or array</span>
+</span><span id="cov_Obs-1547"><a href="#cov_Obs-1547"><span class="linenos">1547</span></a><span class="sd">        2d (NxN) Covariance matrix, 1d diagonal entries or 0d covariance</span>
+</span><span id="cov_Obs-1548"><a href="#cov_Obs-1548"><span class="linenos">1548</span></a><span class="sd">    name : str</span>
+</span><span id="cov_Obs-1549"><a href="#cov_Obs-1549"><span class="linenos">1549</span></a><span class="sd">        identifier for the covariance matrix</span>
+</span><span id="cov_Obs-1550"><a href="#cov_Obs-1550"><span class="linenos">1550</span></a><span class="sd">    grad : list or array</span>
+</span><span id="cov_Obs-1551"><a href="#cov_Obs-1551"><span class="linenos">1551</span></a><span class="sd">        Gradient of the Covobs wrt. the means belonging to cov.</span>
+</span><span id="cov_Obs-1552"><a href="#cov_Obs-1552"><span class="linenos">1552</span></a><span class="sd">    &quot;&quot;&quot;</span>
+</span><span id="cov_Obs-1553"><a href="#cov_Obs-1553"><span class="linenos">1553</span></a>
+</span><span id="cov_Obs-1554"><a href="#cov_Obs-1554"><span class="linenos">1554</span></a>    <span class="k">def</span> <span class="nf">covobs_to_obs</span><span class="p">(</span><span class="n">co</span><span class="p">):</span>
+</span><span id="cov_Obs-1555"><a href="#cov_Obs-1555"><span class="linenos">1555</span></a>        <span class="sd">&quot;&quot;&quot;Make an Obs out of a Covobs</span>
+</span><span id="cov_Obs-1556"><a href="#cov_Obs-1556"><span class="linenos">1556</span></a>
+</span><span id="cov_Obs-1557"><a href="#cov_Obs-1557"><span class="linenos">1557</span></a><span class="sd">        Parameters</span>
+</span><span id="cov_Obs-1558"><a href="#cov_Obs-1558"><span class="linenos">1558</span></a><span class="sd">        ----------</span>
+</span><span id="cov_Obs-1559"><a href="#cov_Obs-1559"><span class="linenos">1559</span></a><span class="sd">        co : Covobs</span>
+</span><span id="cov_Obs-1560"><a href="#cov_Obs-1560"><span class="linenos">1560</span></a><span class="sd">            Covobs to be embedded into the Obs</span>
+</span><span id="cov_Obs-1561"><a href="#cov_Obs-1561"><span class="linenos">1561</span></a><span class="sd">        &quot;&quot;&quot;</span>
+</span><span id="cov_Obs-1562"><a href="#cov_Obs-1562"><span class="linenos">1562</span></a>        <span class="n">o</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">([],</span> <span class="p">[],</span> <span class="n">means</span><span class="o">=</span><span class="p">[])</span>
+</span><span id="cov_Obs-1563"><a href="#cov_Obs-1563"><span class="linenos">1563</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">_value</span> <span class="o">=</span> <span class="n">co</span><span class="o">.</span><span class="n">value</span>
+</span><span id="cov_Obs-1564"><a href="#cov_Obs-1564"><span class="linenos">1564</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">co</span><span class="o">.</span><span class="n">name</span><span class="p">)</span>
+</span><span id="cov_Obs-1565"><a href="#cov_Obs-1565"><span class="linenos">1565</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">_covobs</span><span class="p">[</span><span class="n">co</span><span class="o">.</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">co</span>
+</span><span id="cov_Obs-1566"><a href="#cov_Obs-1566"><span class="linenos">1566</span></a>        <span class="n">o</span><span class="o">.</span><span class="n">_dvalue</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">co</span><span class="o">.</span><span class="n">errsq</span><span class="p">())</span>
+</span><span id="cov_Obs-1567"><a href="#cov_Obs-1567"><span class="linenos">1567</span></a>        <span class="k">return</span> <span class="n">o</span>
 </span><span id="cov_Obs-1568"><a href="#cov_Obs-1568"><span class="linenos">1568</span></a>
-</span><span id="cov_Obs-1569"><a href="#cov_Obs-1569"><span class="linenos">1569</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">means</span><span class="p">)):</span>
-</span><span id="cov_Obs-1570"><a href="#cov_Obs-1570"><span class="linenos">1570</span></a>        <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">covobs_to_obs</span><span class="p">(</span><span class="n">Covobs</span><span class="p">(</span><span class="n">means</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">pos</span><span class="o">=</span><span class="n">i</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="n">grad</span><span class="p">)))</span>
-</span><span id="cov_Obs-1571"><a href="#cov_Obs-1571"><span class="linenos">1571</span></a>    <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">means</span><span class="p">):</span>
-</span><span id="cov_Obs-1572"><a href="#cov_Obs-1572"><span class="linenos">1572</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You have to provide </span><span class="si">%d</span><span class="s1"> mean values!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
-</span><span id="cov_Obs-1573"><a href="#cov_Obs-1573"><span class="linenos">1573</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
-</span><span id="cov_Obs-1574"><a href="#cov_Obs-1574"><span class="linenos">1574</span></a>        <span class="k">return</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
-</span><span id="cov_Obs-1575"><a href="#cov_Obs-1575"><span class="linenos">1575</span></a>    <span class="k">return</span> <span class="n">ol</span>
+</span><span id="cov_Obs-1569"><a href="#cov_Obs-1569"><span class="linenos">1569</span></a>    <span class="n">ol</span> <span class="o">=</span> <span class="p">[]</span>
+</span><span id="cov_Obs-1570"><a href="#cov_Obs-1570"><span class="linenos">1570</span></a>    <span class="k">if</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">means</span><span class="p">,</span> <span class="p">(</span><span class="nb">float</span><span class="p">,</span> <span class="nb">int</span><span class="p">)):</span>
+</span><span id="cov_Obs-1571"><a href="#cov_Obs-1571"><span class="linenos">1571</span></a>        <span class="n">means</span> <span class="o">=</span> <span class="p">[</span><span class="n">means</span><span class="p">]</span>
+</span><span id="cov_Obs-1572"><a href="#cov_Obs-1572"><span class="linenos">1572</span></a>
+</span><span id="cov_Obs-1573"><a href="#cov_Obs-1573"><span class="linenos">1573</span></a>    <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">means</span><span class="p">)):</span>
+</span><span id="cov_Obs-1574"><a href="#cov_Obs-1574"><span class="linenos">1574</span></a>        <span class="n">ol</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">covobs_to_obs</span><span class="p">(</span><span class="n">Covobs</span><span class="p">(</span><span class="n">means</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">cov</span><span class="p">,</span> <span class="n">name</span><span class="p">,</span> <span class="n">pos</span><span class="o">=</span><span class="n">i</span><span class="p">,</span> <span class="n">grad</span><span class="o">=</span><span class="n">grad</span><span class="p">)))</span>
+</span><span id="cov_Obs-1575"><a href="#cov_Obs-1575"><span class="linenos">1575</span></a>    <span class="k">if</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">covobs</span><span class="p">[</span><span class="n">name</span><span class="p">]</span><span class="o">.</span><span class="n">N</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">means</span><span class="p">):</span>
+</span><span id="cov_Obs-1576"><a href="#cov_Obs-1576"><span class="linenos">1576</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You have to provide </span><span class="si">%d</span><span class="s1"> mean values!&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">N</span><span class="p">))</span>
+</span><span id="cov_Obs-1577"><a href="#cov_Obs-1577"><span class="linenos">1577</span></a>    <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ol</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
+</span><span id="cov_Obs-1578"><a href="#cov_Obs-1578"><span class="linenos">1578</span></a>        <span class="k">return</span> <span class="n">ol</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
+</span><span id="cov_Obs-1579"><a href="#cov_Obs-1579"><span class="linenos">1579</span></a>    <span class="k">return</span> <span class="n">ol</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Create an Obs based on mean(s) and a covariance matrix</p>
 
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@@ -67,102 +67,103 @@
 <a href="./../pyerrors.html">pyerrors</a><wbr>.roots    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos"> 0</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
-</span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a><span class="kn">import</span> <span class="nn">scipy.optimize</span>
-</span><span id="L-2"><a href="#L-2"><span class="linenos"> 2</span></a><span class="kn">from</span> <span class="nn">autograd</span> <span class="kn">import</span> <span class="n">jacobian</span>
-</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="n">derived_observable</span>
-</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a>
+                        <input id="roots-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="roots-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
+</span><span id="L-2"><a href="#L-2"><span class="linenos"> 2</span></a><span class="kn">import</span> <span class="nn">scipy.optimize</span>
+</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a><span class="kn">from</span> <span class="nn">autograd</span> <span class="kn">import</span> <span class="n">jacobian</span>
+</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a><span class="kn">from</span> <span class="nn">.obs</span> <span class="kn">import</span> <span class="n">derived_observable</span>
 </span><span id="L-5"><a href="#L-5"><span class="linenos"> 5</span></a>
-</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a><span class="k">def</span> <span class="nf">find_root</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="mf">1.0</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Finds the root of the function func(x, d) where d is an `Obs`.</span>
-</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a>
-</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a><span class="sd">    Parameters</span>
-</span><span id="L-10"><a href="#L-10"><span class="linenos">10</span></a><span class="sd">    -----------------</span>
-</span><span id="L-11"><a href="#L-11"><span class="linenos">11</span></a><span class="sd">    d : Obs</span>
-</span><span id="L-12"><a href="#L-12"><span class="linenos">12</span></a><span class="sd">        Obs passed to the function.</span>
-</span><span id="L-13"><a href="#L-13"><span class="linenos">13</span></a><span class="sd">    func : object</span>
-</span><span id="L-14"><a href="#L-14"><span class="linenos">14</span></a><span class="sd">        Function to be minimized. Any numpy functions have to use the autograd.numpy wrapper.</span>
-</span><span id="L-15"><a href="#L-15"><span class="linenos">15</span></a><span class="sd">        Example:</span>
-</span><span id="L-16"><a href="#L-16"><span class="linenos">16</span></a><span class="sd">        ```python</span>
-</span><span id="L-17"><a href="#L-17"><span class="linenos">17</span></a><span class="sd">        import autograd.numpy as anp</span>
-</span><span id="L-18"><a href="#L-18"><span class="linenos">18</span></a><span class="sd">        def root_func(x, d):</span>
-</span><span id="L-19"><a href="#L-19"><span class="linenos">19</span></a><span class="sd">            return anp.exp(-x ** 2) - d</span>
-</span><span id="L-20"><a href="#L-20"><span class="linenos">20</span></a><span class="sd">        ```</span>
-</span><span id="L-21"><a href="#L-21"><span class="linenos">21</span></a><span class="sd">    guess : float</span>
-</span><span id="L-22"><a href="#L-22"><span class="linenos">22</span></a><span class="sd">        Initial guess for the minimization.</span>
-</span><span id="L-23"><a href="#L-23"><span class="linenos">23</span></a>
-</span><span id="L-24"><a href="#L-24"><span class="linenos">24</span></a><span class="sd">    Returns</span>
-</span><span id="L-25"><a href="#L-25"><span class="linenos">25</span></a><span class="sd">    -------</span>
-</span><span id="L-26"><a href="#L-26"><span class="linenos">26</span></a><span class="sd">    Obs</span>
-</span><span id="L-27"><a href="#L-27"><span class="linenos">27</span></a><span class="sd">        `Obs` valued root of the function.</span>
-</span><span id="L-28"><a href="#L-28"><span class="linenos">28</span></a><span class="sd">    &#39;&#39;&#39;</span>
-</span><span id="L-29"><a href="#L-29"><span class="linenos">29</span></a>    <span class="n">root</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">optimize</span><span class="o">.</span><span class="n">fsolve</span><span class="p">(</span><span class="n">func</span><span class="p">,</span> <span class="n">guess</span><span class="p">,</span> <span class="n">d</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
-</span><span id="L-30"><a href="#L-30"><span class="linenos">30</span></a>
-</span><span id="L-31"><a href="#L-31"><span class="linenos">31</span></a>    <span class="c1"># Error propagation as detailed in arXiv:1809.01289</span>
-</span><span id="L-32"><a href="#L-32"><span class="linenos">32</span></a>    <span class="n">dx</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">d</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
-</span><span id="L-33"><a href="#L-33"><span class="linenos">33</span></a>    <span class="k">try</span><span class="p">:</span>
-</span><span id="L-34"><a href="#L-34"><span class="linenos">34</span></a>        <span class="n">da</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="k">lambda</span> <span class="n">u</span><span class="p">,</span> <span class="n">v</span><span class="p">:</span> <span class="n">func</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="n">u</span><span class="p">))(</span><span class="n">d</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="L-35"><a href="#L-35"><span class="linenos">35</span></a>    <span class="k">except</span> <span class="ne">TypeError</span><span class="p">:</span>
-</span><span id="L-36"><a href="#L-36"><span class="linenos">36</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It is required to use autograd.numpy instead of numpy within root functions, see the documentation for details.&quot;</span><span class="p">)</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="L-37"><a href="#L-37"><span class="linenos">37</span></a>    <span class="n">deriv</span> <span class="o">=</span> <span class="o">-</span> <span class="n">da</span> <span class="o">/</span> <span class="n">dx</span>
-</span><span id="L-38"><a href="#L-38"><span class="linenos">38</span></a>
-</span><span id="L-39"><a href="#L-39"><span class="linenos">39</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">d</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">*</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="n">d</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">deriv</span><span class="p">])</span>
-</span><span id="L-40"><a href="#L-40"><span class="linenos">40</span></a>    <span class="k">return</span> <span class="n">res</span>
+</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a>
+</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a><span class="k">def</span> <span class="nf">find_root</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="mf">1.0</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Finds the root of the function func(x, d) where d is an `Obs`.</span>
+</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a>
+</span><span id="L-10"><a href="#L-10"><span class="linenos">10</span></a><span class="sd">    Parameters</span>
+</span><span id="L-11"><a href="#L-11"><span class="linenos">11</span></a><span class="sd">    -----------------</span>
+</span><span id="L-12"><a href="#L-12"><span class="linenos">12</span></a><span class="sd">    d : Obs</span>
+</span><span id="L-13"><a href="#L-13"><span class="linenos">13</span></a><span class="sd">        Obs passed to the function.</span>
+</span><span id="L-14"><a href="#L-14"><span class="linenos">14</span></a><span class="sd">    func : object</span>
+</span><span id="L-15"><a href="#L-15"><span class="linenos">15</span></a><span class="sd">        Function to be minimized. Any numpy functions have to use the autograd.numpy wrapper.</span>
+</span><span id="L-16"><a href="#L-16"><span class="linenos">16</span></a><span class="sd">        Example:</span>
+</span><span id="L-17"><a href="#L-17"><span class="linenos">17</span></a><span class="sd">        ```python</span>
+</span><span id="L-18"><a href="#L-18"><span class="linenos">18</span></a><span class="sd">        import autograd.numpy as anp</span>
+</span><span id="L-19"><a href="#L-19"><span class="linenos">19</span></a><span class="sd">        def root_func(x, d):</span>
+</span><span id="L-20"><a href="#L-20"><span class="linenos">20</span></a><span class="sd">            return anp.exp(-x ** 2) - d</span>
+</span><span id="L-21"><a href="#L-21"><span class="linenos">21</span></a><span class="sd">        ```</span>
+</span><span id="L-22"><a href="#L-22"><span class="linenos">22</span></a><span class="sd">    guess : float</span>
+</span><span id="L-23"><a href="#L-23"><span class="linenos">23</span></a><span class="sd">        Initial guess for the minimization.</span>
+</span><span id="L-24"><a href="#L-24"><span class="linenos">24</span></a>
+</span><span id="L-25"><a href="#L-25"><span class="linenos">25</span></a><span class="sd">    Returns</span>
+</span><span id="L-26"><a href="#L-26"><span class="linenos">26</span></a><span class="sd">    -------</span>
+</span><span id="L-27"><a href="#L-27"><span class="linenos">27</span></a><span class="sd">    Obs</span>
+</span><span id="L-28"><a href="#L-28"><span class="linenos">28</span></a><span class="sd">        `Obs` valued root of the function.</span>
+</span><span id="L-29"><a href="#L-29"><span class="linenos">29</span></a><span class="sd">    &#39;&#39;&#39;</span>
+</span><span id="L-30"><a href="#L-30"><span class="linenos">30</span></a>    <span class="n">root</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">optimize</span><span class="o">.</span><span class="n">fsolve</span><span class="p">(</span><span class="n">func</span><span class="p">,</span> <span class="n">guess</span><span class="p">,</span> <span class="n">d</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
+</span><span id="L-31"><a href="#L-31"><span class="linenos">31</span></a>
+</span><span id="L-32"><a href="#L-32"><span class="linenos">32</span></a>    <span class="c1"># Error propagation as detailed in arXiv:1809.01289</span>
+</span><span id="L-33"><a href="#L-33"><span class="linenos">33</span></a>    <span class="n">dx</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">d</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
+</span><span id="L-34"><a href="#L-34"><span class="linenos">34</span></a>    <span class="k">try</span><span class="p">:</span>
+</span><span id="L-35"><a href="#L-35"><span class="linenos">35</span></a>        <span class="n">da</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="k">lambda</span> <span class="n">u</span><span class="p">,</span> <span class="n">v</span><span class="p">:</span> <span class="n">func</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="n">u</span><span class="p">))(</span><span class="n">d</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="L-36"><a href="#L-36"><span class="linenos">36</span></a>    <span class="k">except</span> <span class="ne">TypeError</span><span class="p">:</span>
+</span><span id="L-37"><a href="#L-37"><span class="linenos">37</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It is required to use autograd.numpy instead of numpy within root functions, see the documentation for details.&quot;</span><span class="p">)</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="L-38"><a href="#L-38"><span class="linenos">38</span></a>    <span class="n">deriv</span> <span class="o">=</span> <span class="o">-</span> <span class="n">da</span> <span class="o">/</span> <span class="n">dx</span>
+</span><span id="L-39"><a href="#L-39"><span class="linenos">39</span></a>
+</span><span id="L-40"><a href="#L-40"><span class="linenos">40</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">d</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">*</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="n">d</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">deriv</span><span class="p">])</span>
+</span><span id="L-41"><a href="#L-41"><span class="linenos">41</span></a>    <span class="k">return</span> <span class="n">res</span>
 </span></pre></div>
 
-        </details>
 
             </section>
                 <section id="find_root">
-                            <div class="attr function"><a class="headerlink" href="#find_root">#&nbsp;&nbsp</a>
+                            <input id="find_root-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+<div class="attr function">
+            
+        <span class="def">def</span>
+        <span class="name">find_root</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">d</span>, </span><span class="param"><span class="n">func</span>, </span><span class="param"><span class="n">guess</span><span class="o">=</span><span class="mf">1.0</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span>)</span>
+
+                <label class="view-source-button" for="find_root-view-source"><span>View Source</span></label>
 
-        
-            <span class="def">def</span>
-            <span class="name">find_root</span><span class="signature">(d, func, guess=1.0, **kwargs)</span>:
     </div>
-
-            <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="find_root-7"><a href="#find_root-7"><span class="linenos"> 7</span></a><span class="k">def</span> <span class="nf">find_root</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="mf">1.0</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
-</span><span id="find_root-8"><a href="#find_root-8"><span class="linenos"> 8</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Finds the root of the function func(x, d) where d is an `Obs`.</span>
-</span><span id="find_root-9"><a href="#find_root-9"><span class="linenos"> 9</span></a>
-</span><span id="find_root-10"><a href="#find_root-10"><span class="linenos">10</span></a><span class="sd">    Parameters</span>
-</span><span id="find_root-11"><a href="#find_root-11"><span class="linenos">11</span></a><span class="sd">    -----------------</span>
-</span><span id="find_root-12"><a href="#find_root-12"><span class="linenos">12</span></a><span class="sd">    d : Obs</span>
-</span><span id="find_root-13"><a href="#find_root-13"><span class="linenos">13</span></a><span class="sd">        Obs passed to the function.</span>
-</span><span id="find_root-14"><a href="#find_root-14"><span class="linenos">14</span></a><span class="sd">    func : object</span>
-</span><span id="find_root-15"><a href="#find_root-15"><span class="linenos">15</span></a><span class="sd">        Function to be minimized. Any numpy functions have to use the autograd.numpy wrapper.</span>
-</span><span id="find_root-16"><a href="#find_root-16"><span class="linenos">16</span></a><span class="sd">        Example:</span>
-</span><span id="find_root-17"><a href="#find_root-17"><span class="linenos">17</span></a><span class="sd">        ```python</span>
-</span><span id="find_root-18"><a href="#find_root-18"><span class="linenos">18</span></a><span class="sd">        import autograd.numpy as anp</span>
-</span><span id="find_root-19"><a href="#find_root-19"><span class="linenos">19</span></a><span class="sd">        def root_func(x, d):</span>
-</span><span id="find_root-20"><a href="#find_root-20"><span class="linenos">20</span></a><span class="sd">            return anp.exp(-x ** 2) - d</span>
-</span><span id="find_root-21"><a href="#find_root-21"><span class="linenos">21</span></a><span class="sd">        ```</span>
-</span><span id="find_root-22"><a href="#find_root-22"><span class="linenos">22</span></a><span class="sd">    guess : float</span>
-</span><span id="find_root-23"><a href="#find_root-23"><span class="linenos">23</span></a><span class="sd">        Initial guess for the minimization.</span>
-</span><span id="find_root-24"><a href="#find_root-24"><span class="linenos">24</span></a>
-</span><span id="find_root-25"><a href="#find_root-25"><span class="linenos">25</span></a><span class="sd">    Returns</span>
-</span><span id="find_root-26"><a href="#find_root-26"><span class="linenos">26</span></a><span class="sd">    -------</span>
-</span><span id="find_root-27"><a href="#find_root-27"><span class="linenos">27</span></a><span class="sd">    Obs</span>
-</span><span id="find_root-28"><a href="#find_root-28"><span class="linenos">28</span></a><span class="sd">        `Obs` valued root of the function.</span>
-</span><span id="find_root-29"><a href="#find_root-29"><span class="linenos">29</span></a><span class="sd">    &#39;&#39;&#39;</span>
-</span><span id="find_root-30"><a href="#find_root-30"><span class="linenos">30</span></a>    <span class="n">root</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">optimize</span><span class="o">.</span><span class="n">fsolve</span><span class="p">(</span><span class="n">func</span><span class="p">,</span> <span class="n">guess</span><span class="p">,</span> <span class="n">d</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
-</span><span id="find_root-31"><a href="#find_root-31"><span class="linenos">31</span></a>
-</span><span id="find_root-32"><a href="#find_root-32"><span class="linenos">32</span></a>    <span class="c1"># Error propagation as detailed in arXiv:1809.01289</span>
-</span><span id="find_root-33"><a href="#find_root-33"><span class="linenos">33</span></a>    <span class="n">dx</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">d</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
-</span><span id="find_root-34"><a href="#find_root-34"><span class="linenos">34</span></a>    <span class="k">try</span><span class="p">:</span>
-</span><span id="find_root-35"><a href="#find_root-35"><span class="linenos">35</span></a>        <span class="n">da</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="k">lambda</span> <span class="n">u</span><span class="p">,</span> <span class="n">v</span><span class="p">:</span> <span class="n">func</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="n">u</span><span class="p">))(</span><span class="n">d</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
-</span><span id="find_root-36"><a href="#find_root-36"><span class="linenos">36</span></a>    <span class="k">except</span> <span class="ne">TypeError</span><span class="p">:</span>
-</span><span id="find_root-37"><a href="#find_root-37"><span class="linenos">37</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It is required to use autograd.numpy instead of numpy within root functions, see the documentation for details.&quot;</span><span class="p">)</span> <span class="kn">from</span> <span class="bp">None</span>
-</span><span id="find_root-38"><a href="#find_root-38"><span class="linenos">38</span></a>    <span class="n">deriv</span> <span class="o">=</span> <span class="o">-</span> <span class="n">da</span> <span class="o">/</span> <span class="n">dx</span>
-</span><span id="find_root-39"><a href="#find_root-39"><span class="linenos">39</span></a>
-</span><span id="find_root-40"><a href="#find_root-40"><span class="linenos">40</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">d</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">*</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="n">d</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">deriv</span><span class="p">])</span>
-</span><span id="find_root-41"><a href="#find_root-41"><span class="linenos">41</span></a>    <span class="k">return</span> <span class="n">res</span>
+    <a class="headerlink" href="#find_root"></a>
+            <div class="pdoc-code codehilite"><pre><span></span><span id="find_root-8"><a href="#find_root-8"><span class="linenos"> 8</span></a><span class="k">def</span> <span class="nf">find_root</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">func</span><span class="p">,</span> <span class="n">guess</span><span class="o">=</span><span class="mf">1.0</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
+</span><span id="find_root-9"><a href="#find_root-9"><span class="linenos"> 9</span></a>    <span class="sa">r</span><span class="sd">&#39;&#39;&#39;Finds the root of the function func(x, d) where d is an `Obs`.</span>
+</span><span id="find_root-10"><a href="#find_root-10"><span class="linenos">10</span></a>
+</span><span id="find_root-11"><a href="#find_root-11"><span class="linenos">11</span></a><span class="sd">    Parameters</span>
+</span><span id="find_root-12"><a href="#find_root-12"><span class="linenos">12</span></a><span class="sd">    -----------------</span>
+</span><span id="find_root-13"><a href="#find_root-13"><span class="linenos">13</span></a><span class="sd">    d : Obs</span>
+</span><span id="find_root-14"><a href="#find_root-14"><span class="linenos">14</span></a><span class="sd">        Obs passed to the function.</span>
+</span><span id="find_root-15"><a href="#find_root-15"><span class="linenos">15</span></a><span class="sd">    func : object</span>
+</span><span id="find_root-16"><a href="#find_root-16"><span class="linenos">16</span></a><span class="sd">        Function to be minimized. Any numpy functions have to use the autograd.numpy wrapper.</span>
+</span><span id="find_root-17"><a href="#find_root-17"><span class="linenos">17</span></a><span class="sd">        Example:</span>
+</span><span id="find_root-18"><a href="#find_root-18"><span class="linenos">18</span></a><span class="sd">        ```python</span>
+</span><span id="find_root-19"><a href="#find_root-19"><span class="linenos">19</span></a><span class="sd">        import autograd.numpy as anp</span>
+</span><span id="find_root-20"><a href="#find_root-20"><span class="linenos">20</span></a><span class="sd">        def root_func(x, d):</span>
+</span><span id="find_root-21"><a href="#find_root-21"><span class="linenos">21</span></a><span class="sd">            return anp.exp(-x ** 2) - d</span>
+</span><span id="find_root-22"><a href="#find_root-22"><span class="linenos">22</span></a><span class="sd">        ```</span>
+</span><span id="find_root-23"><a href="#find_root-23"><span class="linenos">23</span></a><span class="sd">    guess : float</span>
+</span><span id="find_root-24"><a href="#find_root-24"><span class="linenos">24</span></a><span class="sd">        Initial guess for the minimization.</span>
+</span><span id="find_root-25"><a href="#find_root-25"><span class="linenos">25</span></a>
+</span><span id="find_root-26"><a href="#find_root-26"><span class="linenos">26</span></a><span class="sd">    Returns</span>
+</span><span id="find_root-27"><a href="#find_root-27"><span class="linenos">27</span></a><span class="sd">    -------</span>
+</span><span id="find_root-28"><a href="#find_root-28"><span class="linenos">28</span></a><span class="sd">    Obs</span>
+</span><span id="find_root-29"><a href="#find_root-29"><span class="linenos">29</span></a><span class="sd">        `Obs` valued root of the function.</span>
+</span><span id="find_root-30"><a href="#find_root-30"><span class="linenos">30</span></a><span class="sd">    &#39;&#39;&#39;</span>
+</span><span id="find_root-31"><a href="#find_root-31"><span class="linenos">31</span></a>    <span class="n">root</span> <span class="o">=</span> <span class="n">scipy</span><span class="o">.</span><span class="n">optimize</span><span class="o">.</span><span class="n">fsolve</span><span class="p">(</span><span class="n">func</span><span class="p">,</span> <span class="n">guess</span><span class="p">,</span> <span class="n">d</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
+</span><span id="find_root-32"><a href="#find_root-32"><span class="linenos">32</span></a>
+</span><span id="find_root-33"><a href="#find_root-33"><span class="linenos">33</span></a>    <span class="c1"># Error propagation as detailed in arXiv:1809.01289</span>
+</span><span id="find_root-34"><a href="#find_root-34"><span class="linenos">34</span></a>    <span class="n">dx</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="n">func</span><span class="p">)(</span><span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">d</span><span class="o">.</span><span class="n">value</span><span class="p">)</span>
+</span><span id="find_root-35"><a href="#find_root-35"><span class="linenos">35</span></a>    <span class="k">try</span><span class="p">:</span>
+</span><span id="find_root-36"><a href="#find_root-36"><span class="linenos">36</span></a>        <span class="n">da</span> <span class="o">=</span> <span class="n">jacobian</span><span class="p">(</span><span class="k">lambda</span> <span class="n">u</span><span class="p">,</span> <span class="n">v</span><span class="p">:</span> <span class="n">func</span><span class="p">(</span><span class="n">v</span><span class="p">,</span> <span class="n">u</span><span class="p">))(</span><span class="n">d</span><span class="o">.</span><span class="n">value</span><span class="p">,</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
+</span><span id="find_root-37"><a href="#find_root-37"><span class="linenos">37</span></a>    <span class="k">except</span> <span class="ne">TypeError</span><span class="p">:</span>
+</span><span id="find_root-38"><a href="#find_root-38"><span class="linenos">38</span></a>        <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It is required to use autograd.numpy instead of numpy within root functions, see the documentation for details.&quot;</span><span class="p">)</span> <span class="kn">from</span> <span class="bp">None</span>
+</span><span id="find_root-39"><a href="#find_root-39"><span class="linenos">39</span></a>    <span class="n">deriv</span> <span class="o">=</span> <span class="o">-</span> <span class="n">da</span> <span class="o">/</span> <span class="n">dx</span>
+</span><span id="find_root-40"><a href="#find_root-40"><span class="linenos">40</span></a>
+</span><span id="find_root-41"><a href="#find_root-41"><span class="linenos">41</span></a>    <span class="n">res</span> <span class="o">=</span> <span class="n">derived_observable</span><span class="p">(</span><span class="k">lambda</span> <span class="n">x</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">:</span> <span class="p">(</span><span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">d</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">np</span><span class="o">.</span><span class="n">finfo</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">float64</span><span class="p">)</span><span class="o">.</span><span class="n">eps</span><span class="p">)</span> <span class="o">*</span> <span class="n">root</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="p">[</span><span class="n">d</span><span class="p">],</span> <span class="n">man_grad</span><span class="o">=</span><span class="p">[</span><span class="n">deriv</span><span class="p">])</span>
+</span><span id="find_root-42"><a href="#find_root-42"><span class="linenos">42</span></a>    <span class="k">return</span> <span class="n">res</span>
 </span></pre></div>
 
-        </details>
 
             <div class="docstring"><p>Finds the root of the function func(x, d) where d is an <code>Obs</code>.</p>
 
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         tex: {
@@ -60,12 +60,13 @@
 <a href="./../pyerrors.html">pyerrors</a><wbr>.version    </h1>
 
                 
-                        <details>
-            <summary>View Source</summary>
-            <div class="pdoc-code codehilite"><pre><span></span><span id="L-0"><a href="#L-0"><span class="linenos">0</span></a><span class="n">__version__</span> <span class="o">=</span> <span class="s2">&quot;2.1.0+dev&quot;</span>
+                        <input id="version-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
+
+                        <label class="view-source-button" for="version-view-source"><span>View Source</span></label>
+
+                        <div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos">1</span></a><span class="n">__version__</span> <span class="o">=</span> <span class="s2">&quot;2.1.0+dev&quot;</span>
 </span></pre></div>
 
-        </details>
 
             </section>
     </main>
diff --git a/docs/search.js b/docs/search.js
index 54753b0d..f90f9af2 100644
--- a/docs/search.js
+++ b/docs/search.js
@@ -1,6 +1,6 @@
 window.pdocSearch = (function(){
 /** elasticlunr - http://weixsong.github.io * Copyright (C) 2017 Oliver Nightingale * Copyright (C) 2017 Wei Song * MIT Licensed */!function(){function e(e){if(null===e||"object"!=typeof e)return e;var t=e.constructor();for(var n in e)e.hasOwnProperty(n)&&(t[n]=e[n]);return t}var t=function(e){var n=new t.Index;return n.pipeline.add(t.trimmer,t.stopWordFilter,t.stemmer),e&&e.call(n,n),n};t.version="0.9.5",lunr=t,t.utils={},t.utils.warn=function(e){return function(t){e.console&&console.warn&&console.warn(t)}}(this),t.utils.toString=function(e){return void 0===e||null===e?"":e.toString()},t.EventEmitter=function(){this.events={}},t.EventEmitter.prototype.addListener=function(){var e=Array.prototype.slice.call(arguments),t=e.pop(),n=e;if("function"!=typeof t)throw new TypeError("last argument must be a function");n.forEach(function(e){this.hasHandler(e)||(this.events[e]=[]),this.events[e].push(t)},this)},t.EventEmitter.prototype.removeListener=function(e,t){if(this.hasHandler(e)){var n=this.events[e].indexOf(t);-1!==n&&(this.events[e].splice(n,1),0==this.events[e].length&&delete this.events[e])}},t.EventEmitter.prototype.emit=function(e){if(this.hasHandler(e)){var t=Array.prototype.slice.call(arguments,1);this.events[e].forEach(function(e){e.apply(void 0,t)},this)}},t.EventEmitter.prototype.hasHandler=function(e){return e in this.events},t.tokenizer=function(e){if(!arguments.length||null===e||void 0===e)return[];if(Array.isArray(e)){var n=e.filter(function(e){return null===e||void 0===e?!1:!0});n=n.map(function(e){return t.utils.toString(e).toLowerCase()});var i=[];return n.forEach(function(e){var n=e.split(t.tokenizer.seperator);i=i.concat(n)},this),i}return e.toString().trim().toLowerCase().split(t.tokenizer.seperator)},t.tokenizer.defaultSeperator=/[\s\-]+/,t.tokenizer.seperator=t.tokenizer.defaultSeperator,t.tokenizer.setSeperator=function(e){null!==e&&void 0!==e&&"object"==typeof e&&(t.tokenizer.seperator=e)},t.tokenizer.resetSeperator=function(){t.tokenizer.seperator=t.tokenizer.defaultSeperator},t.tokenizer.getSeperator=function(){return t.tokenizer.seperator},t.Pipeline=function(){this._queue=[]},t.Pipeline.registeredFunctions={},t.Pipeline.registerFunction=function(e,n){n in t.Pipeline.registeredFunctions&&t.utils.warn("Overwriting existing registered function: "+n),e.label=n,t.Pipeline.registeredFunctions[n]=e},t.Pipeline.getRegisteredFunction=function(e){return e in t.Pipeline.registeredFunctions!=!0?null:t.Pipeline.registeredFunctions[e]},t.Pipeline.warnIfFunctionNotRegistered=function(e){var n=e.label&&e.label in this.registeredFunctions;n||t.utils.warn("Function is not registered with pipeline. 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u=r[s];u=Math.sqrt(u),this.index[n].addToken(s,{ref:i,tf:u})}},this),n&&this.eventEmitter.emit("add",e,this)}},t.Index.prototype.removeDocByRef=function(e){if(e&&this.documentStore.isDocStored()!==!1&&this.documentStore.hasDoc(e)){var t=this.documentStore.getDoc(e);this.removeDoc(t,!1)}},t.Index.prototype.removeDoc=function(e,n){if(e){var n=void 0===n?!0:n,i=e[this._ref];this.documentStore.hasDoc(i)&&(this.documentStore.removeDoc(i),this._fields.forEach(function(n){var o=this.pipeline.run(t.tokenizer(e[n]));o.forEach(function(e){this.index[n].removeToken(e,i)},this)},this),n&&this.eventEmitter.emit("remove",e,this))}},t.Index.prototype.updateDoc=function(e,t){var t=void 0===t?!0:t;this.removeDocByRef(e[this._ref],!1),this.addDoc(e,!1),t&&this.eventEmitter.emit("update",e,this)},t.Index.prototype.idf=function(e,t){var n="@"+t+"/"+e;if(Object.prototype.hasOwnProperty.call(this._idfCache,n))return this._idfCache[n];var 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-    /** pdoc search index */const docs = {"version": "0.9.5", "fields": ["qualname", "fullname", "annotation", "default_value", "signature", "bases", "doc"], "ref": "fullname", "documentStore": {"docs": {"pyerrors": {"fullname": "pyerrors", "modulename": "pyerrors", "type": "module", "doc": "<h1 id=\"what-is-pyerrors\">What is pyerrors?</h1>\n\n<p><code>pyerrors</code> is a python package for error computation and propagation of Markov chain Monte Carlo data.\nIt is based on the gamma method <a href=\"https://arxiv.org/abs/hep-lat/0306017\">arXiv:hep-lat/0306017</a>. Some of its features are:</p>\n\n<ul>\n<li>automatic differentiation for exact liner error propagation as suggested in <a href=\"https://arxiv.org/abs/1809.01289\">arXiv:1809.01289</a> (partly based on the <a href=\"https://github.com/HIPS/autograd\">autograd</a> package).</li>\n<li>treatment of slow modes in the simulation as suggested in <a href=\"https://arxiv.org/abs/1009.5228\">arXiv:1009.5228</a>.</li>\n<li>coherent error propagation for data from different Markov chains.</li>\n<li>non-linear fits with x- and y-errors and exact linear error propagation based on automatic differentiation as introduced in <a href=\"https://arxiv.org/abs/1809.01289\">arXiv:1809.01289</a>.</li>\n<li>real and complex matrix operations and their error propagation based on automatic differentiation (Matrix inverse, Cholesky decomposition, calculation of eigenvalues and eigenvectors, singular value decomposition...).</li>\n</ul>\n\n<p>There exist similar publicly available implementations of gamma method error analysis suites in <a href=\"https://gitlab.ift.uam-csic.es/alberto/aderrors\">Fortran</a>, <a href=\"https://gitlab.ift.uam-csic.es/alberto/aderrors.jl\">Julia</a> and <a href=\"https://github.com/mbruno46/pyobs\">Python</a>.</p>\n\n<h2 id=\"basic-example\">Basic example</h2>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">numpy</span> <span class=\"k\">as</span> <span class=\"nn\">np</span>\n<span class=\"kn\">import</span> <span class=\"nn\">pyerrors</span> <span class=\"k\">as</span> <span class=\"nn\">pe</span>\n\n<span class=\"n\">my_obs</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble_name&#39;</span><span class=\"p\">])</span> <span class=\"c1\"># Initialize an Obs object</span>\n<span class=\"n\">my_new_obs</span> <span class=\"o\">=</span> <span class=\"mi\">2</span> <span class=\"o\">*</span> <span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">log</span><span class=\"p\">(</span><span class=\"n\">my_obs</span><span class=\"p\">)</span> <span class=\"o\">/</span> <span class=\"n\">my_obs</span> <span class=\"o\">**</span> <span class=\"mi\">2</span> <span class=\"c1\"># Construct derived Obs object</span>\n<span class=\"n\">my_new_obs</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">()</span>                     <span class=\"c1\"># Estimate the statistical error</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_new_obs</span><span class=\"p\">)</span>                             <span class=\"c1\"># Print the result to stdout</span>\n<span class=\"o\">&gt;</span> <span class=\"mf\">0.31498</span><span class=\"p\">(</span><span class=\"mi\">72</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<h1 id=\"the-obs-class\">The <code>Obs</code> class</h1>\n\n<p><code>pyerrors</code> introduces a new datatype, <code>Obs</code>, which simplifies error propagation and estimation for auto- and cross-correlated data.\nAn <code>Obs</code> object can be initialized with two arguments, the first is a list containing the samples for an observable from a Monte Carlo chain.\nThe samples can either be provided as python list or as numpy array.\nThe second argument is a list containing the names of the respective Monte Carlo chains as strings. These strings uniquely identify a Monte Carlo chain/ensemble.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">pyerrors</span> <span class=\"k\">as</span> <span class=\"nn\">pe</span>\n\n<span class=\"n\">my_obs</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble_name&#39;</span><span class=\"p\">])</span>\n</code></pre></div>\n\n<h2 id=\"error-propagation\">Error propagation</h2>\n\n<p>When performing mathematical operations on <code>Obs</code> objects the correct error propagation is intrinsically taken care of using a first order Taylor expansion\n$$\\delta_f^i=\\sum_\\alpha \\bar{f}_\\alpha \\delta_\\alpha^i\\,,\\quad \\delta_\\alpha^i=a_\\alpha^i-\\bar{a}_\\alpha\\,,$$\nas introduced in <a href=\"https://arxiv.org/abs/hep-lat/0306017\">arXiv:hep-lat/0306017</a>.\nThe required derivatives $\\bar{f}_\\alpha$ are evaluated up to machine precision via automatic differentiation as suggested in <a href=\"https://arxiv.org/abs/1809.01289\">arXiv:1809.01289</a>.</p>\n\n<p>The <code>Obs</code> class is designed such that mathematical numpy functions can be used on <code>Obs</code> just as for regular floats.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">numpy</span> <span class=\"k\">as</span> <span class=\"nn\">np</span>\n<span class=\"kn\">import</span> <span class=\"nn\">pyerrors</span> <span class=\"k\">as</span> <span class=\"nn\">pe</span>\n\n<span class=\"n\">my_obs1</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples1</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble_name&#39;</span><span class=\"p\">])</span>\n<span class=\"n\">my_obs2</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples2</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble_name&#39;</span><span class=\"p\">])</span>\n\n<span class=\"n\">my_sum</span> <span class=\"o\">=</span> <span class=\"n\">my_obs1</span> <span class=\"o\">+</span> <span class=\"n\">my_obs2</span>\n\n<span class=\"n\">my_m_eff</span> <span class=\"o\">=</span> <span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">log</span><span class=\"p\">(</span><span class=\"n\">my_obs1</span> <span class=\"o\">/</span> <span class=\"n\">my_obs2</span><span class=\"p\">)</span>\n\n<span class=\"n\">iamzero</span> <span class=\"o\">=</span> <span class=\"n\">my_m_eff</span> <span class=\"o\">-</span> <span class=\"n\">my_m_eff</span>\n<span class=\"c1\"># Check that value and fluctuations are zero within machine precision</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">iamzero</span> <span class=\"o\">==</span> <span class=\"mf\">0.0</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"kc\">True</span>\n</code></pre></div>\n\n<h2 id=\"error-estimation\">Error estimation</h2>\n\n<p>The error estimation within <code>pyerrors</code> is based on the gamma method introduced in <a href=\"https://arxiv.org/abs/hep-lat/0306017\">arXiv:hep-lat/0306017</a>.\nAfter having arrived at the derived quantity of interest the <code>gamma_method</code> can be called as detailed in the following example.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">()</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_sum</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mf\">1.70</span><span class=\"p\">(</span><span class=\"mi\">57</span><span class=\"p\">)</span>\n<span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">1.70000000e+00</span> <span class=\"o\">+/-</span> <span class=\"mf\">5.72046658e-01</span> <span class=\"o\">+/-</span> <span class=\"mf\">7.56746598e-02</span> <span class=\"p\">(</span><span class=\"mf\">33.650</span><span class=\"o\">%</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span>  <span class=\"n\">t_int</span>         <span class=\"mf\">2.71422900e+00</span> <span class=\"o\">+/-</span> <span class=\"mf\">6.40320983e-01</span> <span class=\"n\">S</span> <span class=\"o\">=</span> <span class=\"mf\">2.00</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1000</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble_name&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">1000</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">1000</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>We use the following definition of the integrated autocorrelation time established in <a href=\"https://link.springer.com/article/10.1007/BF01022990\">Madras &amp; Sokal 1988</a>\n$$\\tau_\\mathrm{int}=\\frac{1}{2}+\\sum_{t=1}^{W}\\rho(t)\\geq \\frac{1}{2}\\,.$$\nThe window $W$ is determined via the automatic windowing procedure described in <a href=\"https://arxiv.org/abs/hep-lat/0306017\">arXiv:hep-lat/0306017</a>.\nThe standard value for the parameter $S$ of this automatic windowing procedure is $S=2$. Other values for $S$ can be passed to the <code>gamma_method</code> as parameter.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">(</span><span class=\"n\">S</span><span class=\"o\">=</span><span class=\"mf\">3.0</span><span class=\"p\">)</span>\n<span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">1.70000000e+00</span> <span class=\"o\">+/-</span> <span class=\"mf\">6.30675201e-01</span> <span class=\"o\">+/-</span> <span class=\"mf\">1.04585650e-01</span> <span class=\"p\">(</span><span class=\"mf\">37.099</span><span class=\"o\">%</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span>  <span class=\"n\">t_int</span>         <span class=\"mf\">3.29909703e+00</span> <span class=\"o\">+/-</span> <span class=\"mf\">9.77310102e-01</span> <span class=\"n\">S</span> <span class=\"o\">=</span> <span class=\"mf\">3.00</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1000</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble_name&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">1000</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">1000</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>The integrated autocorrelation time $\\tau_\\mathrm{int}$ and the autocorrelation function $\\rho(W)$ can be monitored via the methods <code>pyerrors.obs.Obs.plot_tauint</code> and <code>pyerrors.obs.Obs.plot_tauint</code>.</p>\n\n<p>If the parameter $S$ is set to zero it is assumed that the dataset does not exhibit any autocorrelation and the windowsize is chosen to be zero.\nIn this case the error estimate is identical to the sample standard error.</p>\n\n<h3 id=\"exponential-tails\">Exponential tails</h3>\n\n<p>Slow modes in the Monte Carlo history can be accounted for by attaching an exponential tail to the autocorrelation function $\\rho$ as suggested in <a href=\"https://arxiv.org/abs/1009.5228\">arXiv:1009.5228</a>. The longest autocorrelation time in the history, $\\tau_\\mathrm{exp}$, can be passed to the <code>gamma_method</code> as parameter. In this case the automatic windowing procedure is vacated and the parameter $S$ does not affect the error estimate.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">(</span><span class=\"n\">tau_exp</span><span class=\"o\">=</span><span class=\"mf\">7.2</span><span class=\"p\">)</span>\n<span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">1.70000000e+00</span> <span class=\"o\">+/-</span> <span class=\"mf\">6.28097762e-01</span> <span class=\"o\">+/-</span> <span class=\"mf\">5.79077524e-02</span> <span class=\"p\">(</span><span class=\"mf\">36.947</span><span class=\"o\">%</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span>  <span class=\"n\">t_int</span>         <span class=\"mf\">3.27218667e+00</span> <span class=\"o\">+/-</span> <span class=\"mf\">7.99583654e-01</span> <span class=\"n\">tau_exp</span> <span class=\"o\">=</span> <span class=\"mf\">7.20</span><span class=\"p\">,</span>  <span class=\"n\">N_sigma</span> <span class=\"o\">=</span> <span class=\"mi\">1</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1000</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble_name&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">1000</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">1000</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>For the full API see <code>pyerrors.obs.Obs.gamma_method</code>.</p>\n\n<h2 id=\"multiple-ensemblesreplica\">Multiple ensembles/replica</h2>\n\n<p>Error propagation for multiple ensembles (Markov chains with different simulation parameters) is handled automatically. Ensembles are uniquely identified by their <code>name</code>.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">obs1</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples1</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">])</span>\n<span class=\"n\">obs2</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples2</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble2&#39;</span><span class=\"p\">])</span>\n\n<span class=\"n\">my_sum</span> <span class=\"o\">=</span> <span class=\"n\">obs1</span> <span class=\"o\">+</span> <span class=\"n\">obs2</span>\n<span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>   <span class=\"mf\">2.00697958e+00</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1500</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">2</span> <span class=\"n\">ensembles</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble1&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">1000</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">1000</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble2&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">500</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">500</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p><code>pyerrors</code> identifies multiple replica (independent Markov chains with identical simulation parameters) by the vertical bar <code>|</code> in the name of the data set.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">obs1</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples1</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1|r01&#39;</span><span class=\"p\">])</span>\n<span class=\"n\">obs2</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples2</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1|r02&#39;</span><span class=\"p\">])</span>\n\n<span class=\"o\">&gt;</span> <span class=\"n\">my_sum</span> <span class=\"o\">=</span> <span class=\"n\">obs1</span> <span class=\"o\">+</span> <span class=\"n\">obs2</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>   <span class=\"mf\">2.00697958e+00</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1500</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble1&#39;</span>\n<span class=\"o\">&gt;</span>     <span class=\"err\">\u00b7</span> <span class=\"n\">Replicum</span> <span class=\"s1\">&#39;r01&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">1000</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">1000</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span>     <span class=\"err\">\u00b7</span> <span class=\"n\">Replicum</span> <span class=\"s1\">&#39;r02&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">500</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">500</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<h3 id=\"error-estimation-for-multiple-ensembles\">Error estimation for multiple ensembles</h3>\n\n<p>In order to keep track of different error analysis parameters for different ensembles one can make use of global dictionaries as detailed in the following example.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"o\">.</span><span class=\"n\">S_dict</span><span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">]</span> <span class=\"o\">=</span> <span class=\"mf\">2.5</span>\n<span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"o\">.</span><span class=\"n\">tau_exp_dict</span><span class=\"p\">[</span><span class=\"s1\">&#39;ensemble2&#39;</span><span class=\"p\">]</span> <span class=\"o\">=</span> <span class=\"mf\">8.0</span>\n<span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"o\">.</span><span class=\"n\">tau_exp_dict</span><span class=\"p\">[</span><span class=\"s1\">&#39;ensemble3&#39;</span><span class=\"p\">]</span> <span class=\"o\">=</span> <span class=\"mf\">2.0</span>\n</code></pre></div>\n\n<p>In case the <code>gamma_method</code> is called without any parameters it will use the values specified in the dictionaries for the respective ensembles.\nPassing arguments to the <code>gamma_method</code> still dominates over the dictionaries.</p>\n\n<h2 id=\"irregular-monte-carlo-chains\">Irregular Monte Carlo chains</h2>\n\n<p><code>Obs</code> objects defined on irregular Monte Carlo chains can be initialized with the parameter <code>idl</code>.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"c1\"># Observable defined on configurations 20 to 519</span>\n<span class=\"n\">obs1</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples1</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">],</span> <span class=\"n\">idl</span><span class=\"o\">=</span><span class=\"p\">[</span><span class=\"nb\">range</span><span class=\"p\">(</span><span class=\"mi\">20</span><span class=\"p\">,</span> <span class=\"mi\">520</span><span class=\"p\">)])</span>\n<span class=\"n\">obs1</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">9.98319881e-01</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">500</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble1&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">500</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">20</span> <span class=\"n\">to</span> <span class=\"mi\">519</span><span class=\"p\">)</span>\n\n<span class=\"c1\"># Observable defined on every second configuration between 5 and 1003</span>\n<span class=\"n\">obs2</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples2</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">],</span> <span class=\"n\">idl</span><span class=\"o\">=</span><span class=\"p\">[</span><span class=\"nb\">range</span><span class=\"p\">(</span><span class=\"mi\">5</span><span class=\"p\">,</span> <span class=\"mi\">1005</span><span class=\"p\">,</span> <span class=\"mi\">2</span><span class=\"p\">)])</span>\n<span class=\"n\">obs2</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">9.99100712e-01</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">500</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble1&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">500</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">5</span> <span class=\"n\">to</span> <span class=\"mi\">1003</span> <span class=\"ow\">in</span> <span class=\"n\">steps</span> <span class=\"n\">of</span> <span class=\"mi\">2</span><span class=\"p\">)</span>\n\n<span class=\"c1\"># Observable defined on configurations 2, 9, 28, 29 and 501</span>\n<span class=\"n\">obs3</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples3</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">],</span> <span class=\"n\">idl</span><span class=\"o\">=</span><span class=\"p\">[[</span><span class=\"mi\">2</span><span class=\"p\">,</span> <span class=\"mi\">9</span><span class=\"p\">,</span> <span class=\"mi\">28</span><span class=\"p\">,</span> <span class=\"mi\">29</span><span class=\"p\">,</span> <span class=\"mi\">501</span><span class=\"p\">]])</span>\n<span class=\"n\">obs3</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">1.01718064e+00</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">5</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble1&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">5</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"n\">irregular</span> <span class=\"nb\">range</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p><code>Obs</code> objects defined on regular and irregular histories of the same ensemble can be combined with each other and the correct error propagation and estimation is automatically taken care of.</p>\n\n<p><strong>Warning:</strong> Irregular Monte Carlo chains can result in odd patterns in the autocorrelation functions.\nMake sure to check the autocorrelation time with e.g. <code>pyerrors.obs.Obs.plot_rho</code> or <code>pyerrors.obs.Obs.plot_tauint</code>.</p>\n\n<p>For the full API see <code>pyerrors.obs.Obs</code>.</p>\n\n<h1 id=\"correlators\">Correlators</h1>\n\n<p>When one is not interested in single observables but correlation functions, <code>pyerrors</code> offers the <code>Corr</code> class which simplifies the corresponding error propagation and provides the user with a set of standard methods. In order to initialize a <code>Corr</code> objects one needs to arrange the data as a list of <code>Obs</code></p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_corr</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Corr</span><span class=\"p\">([</span><span class=\"n\">obs_0</span><span class=\"p\">,</span> <span class=\"n\">obs_1</span><span class=\"p\">,</span> <span class=\"n\">obs_2</span><span class=\"p\">,</span> <span class=\"n\">obs_3</span><span class=\"p\">])</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_corr</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">x0</span><span class=\"o\">/</span><span class=\"n\">a</span>  <span class=\"n\">Corr</span><span class=\"p\">(</span><span class=\"n\">x0</span><span class=\"o\">/</span><span class=\"n\">a</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"o\">------------------</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">0</span>      <span class=\"mf\">0.7957</span><span class=\"p\">(</span><span class=\"mi\">80</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1</span>      <span class=\"mf\">0.5156</span><span class=\"p\">(</span><span class=\"mi\">51</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">2</span>      <span class=\"mf\">0.3227</span><span class=\"p\">(</span><span class=\"mi\">33</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">3</span>      <span class=\"mf\">0.2041</span><span class=\"p\">(</span><span class=\"mi\">21</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>In case the correlation functions are not defined on the outermost timeslices, for example because of fixed boundary conditions, a padding can be introduced.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_corr</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Corr</span><span class=\"p\">([</span><span class=\"n\">obs_0</span><span class=\"p\">,</span> <span class=\"n\">obs_1</span><span class=\"p\">,</span> <span class=\"n\">obs_2</span><span class=\"p\">,</span> <span class=\"n\">obs_3</span><span class=\"p\">],</span> <span class=\"n\">padding</span><span class=\"o\">=</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">,</span> <span class=\"mi\">1</span><span class=\"p\">])</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_corr</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">x0</span><span class=\"o\">/</span><span class=\"n\">a</span>  <span class=\"n\">Corr</span><span class=\"p\">(</span><span class=\"n\">x0</span><span class=\"o\">/</span><span class=\"n\">a</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"o\">------------------</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">0</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1</span>      <span class=\"mf\">0.7957</span><span class=\"p\">(</span><span class=\"mi\">80</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">2</span>      <span class=\"mf\">0.5156</span><span class=\"p\">(</span><span class=\"mi\">51</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">3</span>      <span class=\"mf\">0.3227</span><span class=\"p\">(</span><span class=\"mi\">33</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">4</span>      <span class=\"mf\">0.2041</span><span class=\"p\">(</span><span class=\"mi\">21</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">5</span>\n</code></pre></div>\n\n<p>The individual entries of a correlator can be accessed via slicing</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_corr</span><span class=\"p\">[</span><span class=\"mi\">3</span><span class=\"p\">])</span>\n<span class=\"o\">&gt;</span> <span class=\"mf\">0.3227</span><span class=\"p\">(</span><span class=\"mi\">33</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>Error propagation with the <code>Corr</code> class works very similar to <code>Obs</code> objects. Mathematical operations are overloaded and <code>Corr</code> objects can be computed together with other <code>Corr</code> objects, <code>Obs</code> objects or real numbers and integers.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_new_corr</span> <span class=\"o\">=</span> <span class=\"mf\">0.3</span> <span class=\"o\">*</span> <span class=\"n\">my_corr</span><span class=\"p\">[</span><span class=\"mi\">2</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">my_corr</span> <span class=\"o\">*</span> <span class=\"n\">my_corr</span> <span class=\"o\">+</span> <span class=\"mi\">12</span> <span class=\"o\">/</span> <span class=\"n\">my_corr</span>\n</code></pre></div>\n\n<p><code>pyerrors</code> provides the user with a set of regularly used methods for the manipulation of correlator objects:</p>\n\n<ul>\n<li><code>Corr.gamma_method</code> applies the gamma method to all entries of the correlator.</li>\n<li><code>Corr.m_eff</code> to construct effective masses. Various variants for periodic and fixed temporal boundary conditions are available.</li>\n<li><code>Corr.deriv</code> returns the first derivative of the correlator as <code>Corr</code>. Different discretizations of the numerical derivative are available.</li>\n<li><code>Corr.second_deriv</code> returns the second derivative of the correlator as <code>Corr</code>. Different discretizations of the numerical derivative are available.</li>\n<li><code>Corr.symmetric</code> symmetrizes parity even correlations functions, assuming periodic boundary conditions.</li>\n<li><code>Corr.anti_symmetric</code> anti-symmetrizes parity odd correlations functions, assuming periodic boundary conditions.</li>\n<li><code>Corr.T_symmetry</code> averages a correlator with its time symmetry partner, assuming fixed boundary conditions.</li>\n<li><code>Corr.plateau</code> extracts a plateau value from the correlator in a given range.</li>\n<li><code>Corr.roll</code> periodically shifts the correlator.</li>\n<li><code>Corr.reverse</code> reverses the time ordering of the correlator.</li>\n<li><code>Corr.correlate</code> constructs a disconnected correlation function from the correlator and another <code>Corr</code> or <code>Obs</code> object.</li>\n<li><code>Corr.reweight</code> reweights the correlator.</li>\n</ul>\n\n<p><code>pyerrors</code> can also handle matrices of correlation functions and extract energy states from these matrices via a generalized eigenvalue problem (see <code>pyerrors.correlators.Corr.GEVP</code>).</p>\n\n<p>For the full API see <code>pyerrors.correlators.Corr</code>.</p>\n\n<h1 id=\"complex-valued-observables\">Complex valued observables</h1>\n\n<p><code>pyerrors</code> can handle complex valued observables via the class <code>pyerrors.obs.CObs</code>.\n<code>CObs</code> are initialized with a real and an imaginary part which both can be <code>Obs</code> valued.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_real_part</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples1</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">])</span>\n<span class=\"n\">my_imag_part</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples2</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">])</span>\n\n<span class=\"n\">my_cobs</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">CObs</span><span class=\"p\">(</span><span class=\"n\">my_real_part</span><span class=\"p\">,</span> <span class=\"n\">my_imag_part</span><span class=\"p\">)</span>\n<span class=\"n\">my_cobs</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">()</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_cobs</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"p\">(</span><span class=\"mf\">0.9959</span><span class=\"p\">(</span><span class=\"mi\">91</span><span class=\"p\">)</span><span class=\"o\">+</span><span class=\"mf\">0.659</span><span class=\"p\">(</span><span class=\"mi\">28</span><span class=\"p\">)</span><span class=\"n\">j</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>Elementary mathematical operations are overloaded and samples are properly propagated as for the <code>Obs</code> class.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_derived_cobs</span> <span class=\"o\">=</span> <span class=\"p\">(</span><span class=\"n\">my_cobs</span> <span class=\"o\">+</span> <span class=\"n\">my_cobs</span><span class=\"o\">.</span><span class=\"n\">conjugate</span><span class=\"p\">())</span> <span class=\"o\">/</span> <span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">abs</span><span class=\"p\">(</span><span class=\"n\">my_cobs</span><span class=\"p\">)</span>\n<span class=\"n\">my_derived_cobs</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">()</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_derived_cobs</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"p\">(</span><span class=\"mf\">1.668</span><span class=\"p\">(</span><span class=\"mi\">23</span><span class=\"p\">)</span><span class=\"o\">+</span><span class=\"mf\">0.0</span><span class=\"n\">j</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<h1 id=\"the-covobs-class\">The <code>Covobs</code> class</h1>\n\n<p>In many projects, auxiliary data that is not based on Monte Carlo chains enters. Examples are experimentally determined mesons masses which are used to set the scale or renormalization constants. These numbers come with an error that has to be propagated through the analysis. The <code>Covobs</code> class allows to define such quantities in <code>pyerrors</code>. Furthermore, external input might consist of correlated quantities. An example are the parameters of an interpolation formula, which are defined via mean values and a covariance matrix between all parameters. The contribution of the interpolation formula to the error of a derived quantity therefore might depend on the complete covariance matrix.</p>\n\n<p>This concept is built into the definition of <code>Covobs</code>. In <code>pyerrors</code>, external input is defined by $M$ mean values, a $M\\times M$ covariance matrix, where $M=1$ is permissible, and a name that uniquely identifies the covariance matrix. Below, we define the pion mass, based on its mean value and error, 134.9768(5). Note, that the square of the error enters <code>cov_Obs</code>, since the second argument of this function is the covariance matrix of the <code>Covobs</code>.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">pyerrors.obs</span> <span class=\"k\">as</span> <span class=\"nn\">pe</span>\n\n<span class=\"n\">mpi</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">cov_Obs</span><span class=\"p\">(</span><span class=\"mf\">134.9768</span><span class=\"p\">,</span> <span class=\"mf\">0.0005</span><span class=\"o\">**</span><span class=\"mi\">2</span><span class=\"p\">,</span> <span class=\"s1\">&#39;pi^0 mass&#39;</span><span class=\"p\">)</span>\n<span class=\"n\">mpi</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">()</span>\n<span class=\"n\">mpi</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">1.34976800e+02</span> <span class=\"o\">+/-</span> <span class=\"mf\">5.00000000e-04</span> <span class=\"o\">+/-</span> <span class=\"mf\">0.00000000e+00</span> <span class=\"p\">(</span><span class=\"mf\">0.000</span><span class=\"o\">%</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span>  <span class=\"n\">pi</span><span class=\"o\">^</span><span class=\"mi\">0</span> <span class=\"n\">mass</span>     <span class=\"mf\">5.00000000e-04</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">0</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Covobs</span>   <span class=\"s1\">&#39;pi^0 mass&#39;</span>\n</code></pre></div>\n\n<p>The resulting object <code>mpi</code> is an <code>Obs</code> that contains a <code>Covobs</code>. In the following, it may be handled as any other <code>Obs</code>. The contribution of the covariance matrix to the error of an <code>Obs</code> is determined from the $M \\times M$ covariance matrix $\\Sigma$ and the gradient of the <code>Obs</code> with respect to the external quantities, which is the $1\\times M$ Jacobian matrix $J$, via\n$$s = \\sqrt{J^T \\Sigma J}\\,,$$\nwhere the Jacobian is computed for each derived quantity via automatic differentiation.</p>\n\n<p>Correlated auxiliary data is defined similarly to above, e.g., via</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">RAP</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">cov_Obs</span><span class=\"p\">([</span><span class=\"mf\">16.7457</span><span class=\"p\">,</span> <span class=\"o\">-</span><span class=\"mf\">19.0475</span><span class=\"p\">],</span> <span class=\"p\">[[</span><span class=\"mf\">3.49591</span><span class=\"p\">,</span> <span class=\"o\">-</span><span class=\"mf\">6.07560</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"o\">-</span><span class=\"mf\">6.07560</span><span class=\"p\">,</span> <span class=\"mf\">10.5834</span><span class=\"p\">]],</span> <span class=\"s1\">&#39;R_AP, 1906.03445, (5.3a)&#39;</span><span class=\"p\">)</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">RAP</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"p\">[</span><span class=\"n\">Obs</span><span class=\"p\">[</span><span class=\"mf\">16.7</span><span class=\"p\">(</span><span class=\"mf\">1.9</span><span class=\"p\">)],</span> <span class=\"n\">Obs</span><span class=\"p\">[</span><span class=\"o\">-</span><span class=\"mf\">19.0</span><span class=\"p\">(</span><span class=\"mf\">3.3</span><span class=\"p\">)]]</span>\n</code></pre></div>\n\n<p>where <code>RAP</code> now is a list of two <code>Obs</code> that contains the two correlated parameters.</p>\n\n<p>Since the gradient of a derived observable with respect to an external covariance matrix is propagated through the entire analysis, the <code>Covobs</code> class allows to quote the derivative of a result with respect to the external quantities. If these derivatives are published together with the result, small shifts in the definition of external quantities, e.g., the definition of the physical point, can be performed a posteriori based on the published information. This may help to compare results of different groups. The gradient of an <code>Obs</code> <code>o</code> with respect to a covariance matrix with the identifying string <code>k</code> may be accessed via</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">o</span><span class=\"o\">.</span><span class=\"n\">covobs</span><span class=\"p\">[</span><span class=\"n\">k</span><span class=\"p\">]</span><span class=\"o\">.</span><span class=\"n\">grad</span>\n</code></pre></div>\n\n<h1 id=\"error-propagation-in-iterative-algorithms\">Error propagation in iterative algorithms</h1>\n\n<p><code>pyerrors</code> supports exact linear error propagation for iterative algorithms like various variants of non-linear least sqaures fits or root finding. The derivatives required for the error propagation are calculated as described in <a href=\"https://arxiv.org/abs/1809.01289\">arXiv:1809.01289</a>.</p>\n\n<h2 id=\"least-squares-fits\">Least squares fits</h2>\n\n<p>Standard non-linear least square fits with errors on the dependent but not the independent variables can be performed with <code>pyerrors.fits.least_squares</code>. As default solver the Levenberg-Marquardt algorithm implemented in <a href=\"https://docs.scipy.org/doc/scipy/reference/generated/scipy.optimize.least_squares.html\">scipy</a> is used.</p>\n\n<p>Fit functions have to be of the following form</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">autograd.numpy</span> <span class=\"k\">as</span> <span class=\"nn\">anp</span>\n\n<span class=\"k\">def</span> <span class=\"nf\">func</span><span class=\"p\">(</span><span class=\"n\">a</span><span class=\"p\">,</span> <span class=\"n\">x</span><span class=\"p\">):</span>\n    <span class=\"k\">return</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">anp</span><span class=\"o\">.</span><span class=\"n\">exp</span><span class=\"p\">(</span><span class=\"o\">-</span><span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">0</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p><strong>It is important that numerical functions refer to <code>autograd.numpy</code> instead of <code>numpy</code> for the automatic differentiation in iterative algorithms to work properly.</strong></p>\n\n<p>Fits can then be performed via</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">fit_result</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">fits</span><span class=\"o\">.</span><span class=\"n\">least_squares</span><span class=\"p\">(</span><span class=\"n\">x</span><span class=\"p\">,</span> <span class=\"n\">y</span><span class=\"p\">,</span> <span class=\"n\">func</span><span class=\"p\">)</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"s2\">&quot;</span><span class=\"se\">\\n</span><span class=\"s2\">&quot;</span><span class=\"p\">,</span> <span class=\"n\">fit_result</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Fit</span> <span class=\"k\">with</span> <span class=\"mi\">2</span> <span class=\"n\">parameters</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Method</span><span class=\"p\">:</span> <span class=\"n\">Levenberg</span><span class=\"o\">-</span><span class=\"n\">Marquardt</span>\n<span class=\"o\">&gt;</span> <span class=\"err\">`</span><span class=\"n\">ftol</span><span class=\"err\">`</span> <span class=\"n\">termination</span> <span class=\"n\">condition</span> <span class=\"ow\">is</span> <span class=\"n\">satisfied</span><span class=\"o\">.</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">chisquare</span><span class=\"o\">/</span><span class=\"n\">d</span><span class=\"o\">.</span><span class=\"n\">o</span><span class=\"o\">.</span><span class=\"n\">f</span><span class=\"o\">.</span><span class=\"p\">:</span> <span class=\"mf\">0.9593035785160936</span>\n\n<span class=\"o\">&gt;</span>  <span class=\"n\">Goodness</span> <span class=\"n\">of</span> <span class=\"n\">fit</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">\u03c7</span><span class=\"err\">\u00b2</span><span class=\"o\">/</span><span class=\"n\">d</span><span class=\"o\">.</span><span class=\"n\">o</span><span class=\"o\">.</span><span class=\"n\">f</span><span class=\"o\">.</span> <span class=\"o\">=</span> <span class=\"mf\">0.959304</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">p</span><span class=\"o\">-</span><span class=\"n\">value</span>   <span class=\"o\">=</span> <span class=\"mf\">0.5673</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Fit</span> <span class=\"n\">parameters</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">0</span>      <span class=\"mf\">0.0548</span><span class=\"p\">(</span><span class=\"mi\">28</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1</span>      <span class=\"mf\">1.933</span><span class=\"p\">(</span><span class=\"mi\">64</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>where x is a <code>list</code> or <code>numpy.array</code> of <code>floats</code> and y is a <code>list</code> or <code>numpy.array</code> of <code>Obs</code>.</p>\n\n<p>Data stored in <code>Corr</code> objects can be fitted directly using the <code>Corr.fit</code> method.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_corr</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Corr</span><span class=\"p\">(</span><span class=\"n\">y</span><span class=\"p\">)</span>\n<span class=\"n\">fit_result</span> <span class=\"o\">=</span> <span class=\"n\">my_corr</span><span class=\"o\">.</span><span class=\"n\">fit</span><span class=\"p\">(</span><span class=\"n\">func</span><span class=\"p\">,</span> <span class=\"n\">fitrange</span><span class=\"o\">=</span><span class=\"p\">[</span><span class=\"mi\">12</span><span class=\"p\">,</span> <span class=\"mi\">25</span><span class=\"p\">])</span>\n</code></pre></div>\n\n<p>this can simplify working with absolute fit ranges and takes care of gaps in the data automatically.</p>\n\n<p>For fit functions with multiple independent variables the fit function can be of the form</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"k\">def</span> <span class=\"nf\">func</span><span class=\"p\">(</span><span class=\"n\">a</span><span class=\"p\">,</span> <span class=\"n\">x</span><span class=\"p\">):</span>\n    <span class=\"p\">(</span><span class=\"n\">x1</span><span class=\"p\">,</span> <span class=\"n\">x2</span><span class=\"p\">)</span> <span class=\"o\">=</span> <span class=\"n\">x</span>\n    <span class=\"k\">return</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">0</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x1</span> <span class=\"o\">**</span> <span class=\"mi\">2</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x2</span>\n</code></pre></div>\n\n<p><code>pyerrors</code> also supports correlated fits which can be triggered via the parameter <code>correlated_fit=True</code>.\nDetails about how the required covariance matrix is estimated can be found in <code>pyerrors.obs.covariance</code>.</p>\n\n<p>Direct visualizations of the performed fits can be triggered via <code>resplot=True</code> or <code>qqplot=True</code>. For all available options see <code>pyerrors.fits.least_squares</code>.</p>\n\n<h2 id=\"total-least-squares-fits\">Total least squares fits</h2>\n\n<p><code>pyerrors</code> can also fit data with errors on both the dependent and independent variables using the total least squares method also referred to orthogonal distance regression as implemented in <a href=\"https://docs.scipy.org/doc/scipy/reference/odr.html\">scipy</a>, see <code>pyerrors.fits.least_squares</code>. The syntax is identical to the standard least squares case, the only diffrence being that <code>x</code> also has to be a <code>list</code> or <code>numpy.array</code> of <code>Obs</code>.</p>\n\n<p>For the full API see <code>pyerrors.fits</code> for fits and <code>pyerrors.roots</code> for finding roots of functions.</p>\n\n<h1 id=\"matrix-operations\">Matrix operations</h1>\n\n<p><code>pyerrors</code> provides wrappers for <code>Obs</code>- and <code>CObs</code>-valued matrix operations based on <code>numpy.linalg</code>. The supported functions include:</p>\n\n<ul>\n<li><code>inv</code> for the matrix inverse.</li>\n<li><code>cholseky</code> for the Cholesky decomposition.</li>\n<li><code>det</code> for the matrix determinant.</li>\n<li><code>eigh</code> for eigenvalues and eigenvectors of hermitean matrices.</li>\n<li><code>eig</code> for eigenvalues of general matrices.</li>\n<li><code>pinv</code> for the Moore-Penrose pseudoinverse.</li>\n<li><code>svd</code> for the singular-value-decomposition.</li>\n</ul>\n\n<p>For the full API see <code>pyerrors.linalg</code>.</p>\n\n<h1 id=\"export-data\">Export data</h1>\n\n<p>The preferred exported file format within <code>pyerrors</code> is json.gz. Files written to this format are valid JSON files that have been compressed using gzip. The structure of the content is inspired by the dobs format of the ALPHA collaboration. The aim of the format is to facilitate the storage of data in a self-contained way such that, even years after the creation of the file, it is possible to extract all necessary information:</p>\n\n<ul>\n<li>What observables are stored? Possibly: How exactly are they defined.</li>\n<li>How does each single ensemble or external quantity contribute to the error of the observable?</li>\n<li>Who did write the file when and on which machine?</li>\n</ul>\n\n<p>This can be achieved by storing all information in one single file. The export routines of <code>pyerrors</code> are written such that as much information as possible is written automatically as described in the following example</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_obs</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s2\">&quot;test_ensemble&quot;</span><span class=\"p\">])</span>\n<span class=\"n\">my_obs</span><span class=\"o\">.</span><span class=\"n\">tag</span> <span class=\"o\">=</span> <span class=\"s2\">&quot;My observable&quot;</span>\n\n<span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">input</span><span class=\"o\">.</span><span class=\"n\">json</span><span class=\"o\">.</span><span class=\"n\">dump_to_json</span><span class=\"p\">(</span><span class=\"n\">my_obs</span><span class=\"p\">,</span> <span class=\"s2\">&quot;test_output_file&quot;</span><span class=\"p\">,</span> <span class=\"n\">description</span><span class=\"o\">=</span><span class=\"s2\">&quot;This file contains a test observable&quot;</span><span class=\"p\">)</span>\n<span class=\"c1\"># For a single observable one can equivalently use the class method dump</span>\n<span class=\"n\">my_obs</span><span class=\"o\">.</span><span class=\"n\">dump</span><span class=\"p\">(</span><span class=\"s2\">&quot;test_output_file&quot;</span><span class=\"p\">,</span> <span class=\"n\">description</span><span class=\"o\">=</span><span class=\"s2\">&quot;This file contains a test observable&quot;</span><span class=\"p\">)</span>\n\n<span class=\"n\">check</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">input</span><span class=\"o\">.</span><span class=\"n\">json</span><span class=\"o\">.</span><span class=\"n\">load_json</span><span class=\"p\">(</span><span class=\"s2\">&quot;test_output_file&quot;</span><span class=\"p\">)</span>\n\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_obs</span> <span class=\"o\">==</span> <span class=\"n\">check</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"kc\">True</span>\n</code></pre></div>\n\n<p>The format also allows to directly write out the content of <code>Corr</code> objects or lists and arrays of <code>Obs</code> objects by passing the desired data to <code>pyerrors.input.json.dump_to_json</code>.</p>\n\n<h2 id=\"jsongz-format-specification\">json.gz format specification</h2>\n\n<p>The first entries of the file provide optional auxiliary information:</p>\n\n<ul>\n<li><code>program</code> is a string that indicates which program was used to write the file.</li>\n<li><code>version</code> is a string that specifies the version of the format.</li>\n<li><code>who</code> is a string that specifies the user name of the creator of the file.</li>\n<li><code>date</code> is a string and contains the creation date of the file.</li>\n<li><code>host</code> is a string and contains the hostname of the machine where the file has been written.</li>\n<li><code>description</code> contains information on the content of the file. This field is not filled automatically in <code>pyerrors</code>. The user is advised to provide as detailed information as possible in this field. Examples are: Input files of measurements or simulations, LaTeX formulae or references to publications to specify how the observables have been computed, details on the analysis strategy, ... This field may be any valid JSON type. Strings, arrays or objects (equivalent to dicts in python) are well suited to provide information.</li>\n</ul>\n\n<p>The only necessary entry of the file is the field\n-<code>obsdata</code>, an array that contains the actual data.</p>\n\n<p>Each entry of the array belongs to a single structure of observables. Currently, these structures can be either of <code>Obs</code>, <code>list</code>, <code>numpy.ndarray</code>, <code>Corr</code>. All <code>Obs</code> inside a structure (with dimension &gt; 0) have to be defined on the same set of configurations. Different structures, that are represented by entries of the array <code>obsdata</code>, are treated independently. Each entry of the array <code>obsdata</code> has the following required entries:</p>\n\n<ul>\n<li><code>type</code> is a string that specifies the type of the structure. This allows to parse the content to the correct form after reading the file. It is always possible to interpret the content as list of Obs.</li>\n<li><code>value</code> is an array that contains the mean values of the Obs inside the structure.\nThe following entries are optional:</li>\n<li><code>layout</code> is a string that specifies the layout of multi-dimensional structures. Examples are \"2, 2\" for a 2x2 dimensional matrix or  \"64, 4, 4\" for a Corr with $T=64$ and 4x4 matrices on each time slices. \"1\" denotes a single Obs. Multi-dimensional structures are stored in row-major format (see below).</li>\n<li><code>tag</code> is any JSON type. It contains additional information concerning the structure. The <code>tag</code> of an <code>Obs</code> in <code>pyerrors</code> is written here.</li>\n<li><code>reweighted</code> is a Bool that may be used to specify, whether the <code>Obs</code> in the structure have been reweighted.</li>\n<li><code>data</code> is an array that contains the data from MC chains. We will define it below.</li>\n<li><code>cdata</code> is an array that contains the data from external quantities with an error (<code>Covobs</code> in <code>pyerrors</code>). We will define it below.</li>\n</ul>\n\n<p>The array <code>data</code> contains the data from MC chains. Each entry of the array corresponds to one ensemble and contains:</p>\n\n<ul>\n<li><code>id</code>, a string that contains the name of the ensemble</li>\n<li><code>replica</code>, an array that contains an entry per replica of the ensemble.</li>\n</ul>\n\n<p>Each entry of <code>replica</code> contains\n<code>name</code>, a string that contains the name of the replica\n<code>deltas</code>, an array that contains the actual data.</p>\n\n<p>Each entry in <code>deltas</code> corresponds to one configuration of the replica and has $1+N$ many entries. The first entry is an integer that specifies the configuration number that, together with ensemble and replica name, may be used to uniquely identify the configuration on which the data has been obtained. The following N entries specify the deltas, i.e., the deviation of the observable from the mean value on this configuration, of each <code>Obs</code> inside the structure. Multi-dimensional structures are stored in a row-major format. For primary observables, such as correlation functions, $value + delta_i$ matches the primary data obtained on the configuration.</p>\n\n<p>The array <code>cdata</code> contains information about the contribution of auxiliary observables, represented by <code>Covobs</code> in <code>pyerrors</code>, to the total error of the observables. Each entry of the array belongs to one auxiliary covariance matrix and contains:</p>\n\n<ul>\n<li><code>id</code>, a string that identifies the covariance matrix</li>\n<li><code>layout</code>, a string that defines the dimensions of the $M\\times M$ covariance matrix (has to be \"M, M\" or \"1\").</li>\n<li><code>cov</code>, an array that contains the $M\\times M$ many entries of the covariance matrix, stored in row-major format.</li>\n<li><code>grad</code>, an array that contains N entries, one for each <code>Obs</code> inside the structure. Each entry itself is an array, that contains the M gradients of the Nth observable  with respect to the quantity that corresponds to the Mth diagonal entry of the covariance matrix.</li>\n</ul>\n\n<p>A JSON schema that may be used to verify the correctness of a file with respect to the format definition is stored in ./examples/json_schema.json. The schema is a self-descriptive format definition and contains an exemplary file.</p>\n\n<p>Julia I/O routines for the json.gz format, compatible with <a href=\"https://gitlab.ift.uam-csic.es/alberto/aderrors.jl\">ADerrors.jl</a>, can be found <a href=\"https://github.com/fjosw/ADjson.jl\">here</a>.</p>\n\n<h1 id=\"citing\">Citing</h1>\n\n<p>If you use <code>pyerrors</code> for research that leads to a publication please consider citing:</p>\n\n<ul>\n<li>Ulli Wolff, <em>Monte Carlo errors with less errors</em>. Comput.Phys.Commun. 156 (2004) 143-153, Comput.Phys.Commun. 176 (2007) 383 (erratum).</li>\n<li>Stefan Schaefer, Rainer Sommer, Francesco Virotta, <em>Critical slowing down and error analysis in lattice QCD simulations</em>. Nucl.Phys.B 845 (2011) 93-119.</li>\n<li>Alberto Ramos, <em>Automatic differentiation for error analysis of Monte Carlo data</em>. Comput.Phys.Commun. 238 (2019) 19-35.</li>\n</ul>\n"}, "pyerrors.correlators": {"fullname": "pyerrors.correlators", "modulename": "pyerrors.correlators", "type": "module", "doc": "<p></p>\n"}, "pyerrors.correlators.Corr": {"fullname": "pyerrors.correlators.Corr", "modulename": "pyerrors.correlators", "qualname": "Corr", "type": "class", "doc": "<p>The class for a correlator (time dependent sequence of pe.Obs).</p>\n\n<p>Everything, this class does, can be achieved using lists or arrays of Obs.\nBut it is simply more convenient to have a dedicated object for correlators.\nOne often wants to add or multiply correlators of the same length at every timeslice and it is inconvenient\nto iterate over all timeslices for every operation. This is especially true, when dealing with matrices.</p>\n\n<p>The correlator can have two types of content: An Obs at every timeslice OR a GEVP\nmatrix at every timeslice. Other dependency (eg. spatial) are not supported.</p>\n"}, "pyerrors.correlators.Corr.__init__": {"fullname": "pyerrors.correlators.Corr.__init__", "modulename": "pyerrors.correlators", "qualname": "Corr.__init__", "type": "function", "doc": "<p>Initialize a Corr object.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>data_input</strong> (list or array):\nlist of Obs or list of arrays of Obs or array of Corrs</li>\n<li><strong>padding</strong> (list, optional):\nList with two entries where the first labels the padding\nat the front of the correlator and the second the padding\nat the back.</li>\n<li><strong>prange</strong> (list, optional):\nList containing the first and last timeslice of the plateau\nregion indentified for this correlator.</li>\n</ul>\n", "signature": "(self, data_input, padding=[0, 0], prange=None)", "funcdef": "def"}, "pyerrors.correlators.Corr.reweighted": {"fullname": "pyerrors.correlators.Corr.reweighted", "modulename": "pyerrors.correlators", "qualname": "Corr.reweighted", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.correlators.Corr.gamma_method": {"fullname": "pyerrors.correlators.Corr.gamma_method", "modulename": "pyerrors.correlators", "qualname": "Corr.gamma_method", "type": "function", "doc": "<p>Apply the gamma method to the content of the Corr.</p>\n", "signature": "(self, **kwargs)", "funcdef": "def"}, "pyerrors.correlators.Corr.projected": {"fullname": "pyerrors.correlators.Corr.projected", "modulename": "pyerrors.correlators", "qualname": "Corr.projected", "type": "function", "doc": "<p>We need to project the Correlator with a Vector to get a single value at each timeslice.</p>\n\n<p>The method can use one or two vectors.\nIf two are specified it returns v1@G@v2 (the order might be very important.)\nBy default it will return the lowest source, which usually means unsmeared-unsmeared (0,0), but it does not have to</p>\n", "signature": "(self, vector_l=None, vector_r=None, normalize=False)", "funcdef": "def"}, "pyerrors.correlators.Corr.item": {"fullname": "pyerrors.correlators.Corr.item", "modulename": "pyerrors.correlators", "qualname": "Corr.item", "type": "function", "doc": "<p>Picks the element [i,j] from every matrix and returns a correlator containing one Obs per timeslice.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>i</strong> (int):\nFirst index to be picked.</li>\n<li><strong>j</strong> (int):\nSecond index to be picked.</li>\n</ul>\n", "signature": "(self, i, j)", "funcdef": "def"}, "pyerrors.correlators.Corr.plottable": {"fullname": "pyerrors.correlators.Corr.plottable", "modulename": "pyerrors.correlators", "qualname": "Corr.plottable", "type": "function", "doc": "<p>Outputs the correlator in a plotable format.</p>\n\n<p>Outputs three lists containing the timeslice index, the value on each\ntimeslice and the error on each timeslice.</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.symmetric": {"fullname": "pyerrors.correlators.Corr.symmetric", "modulename": "pyerrors.correlators", "qualname": "Corr.symmetric", "type": "function", "doc": "<p>Symmetrize the correlator around x0=0.</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.anti_symmetric": {"fullname": "pyerrors.correlators.Corr.anti_symmetric", "modulename": "pyerrors.correlators", "qualname": "Corr.anti_symmetric", "type": "function", "doc": "<p>Anti-symmetrize the correlator around x0=0.</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.matrix_symmetric": {"fullname": "pyerrors.correlators.Corr.matrix_symmetric", "modulename": "pyerrors.correlators", "qualname": "Corr.matrix_symmetric", "type": "function", "doc": "<p>Symmetrizes the correlator matrices on every timeslice.</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.GEVP": {"fullname": "pyerrors.correlators.Corr.GEVP", "modulename": "pyerrors.correlators", "qualname": "Corr.GEVP", "type": "function", "doc": "<p>Solve the general eigenvalue problem on the current correlator</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>t0</strong> (int):\nThe time t0 for G(t)v= lambda G(t_0)v</li>\n<li><strong>ts</strong> (int):\nfixed time G(t_s)v= lambda G(t_0)v  if return_list=False\nIf return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</li>\n<li><strong>state</strong> (int):\nThe state one is interested in, ordered by energy. The lowest state is zero.</li>\n<li><strong>sorted_list</strong> (string):\nif this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.\n\"Eigenvalue\"  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.\n\"Eigenvector\" -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.\n                 The reference state is identified by its eigenvalue at t=ts</li>\n</ul>\n", "signature": "(self, t0, ts=None, state=0, sorted_list='Eigenvalue')", "funcdef": "def"}, "pyerrors.correlators.Corr.Eigenvalue": {"fullname": "pyerrors.correlators.Corr.Eigenvalue", "modulename": "pyerrors.correlators", "qualname": "Corr.Eigenvalue", "type": "function", "doc": "<p>Determines the eigenvalue of the GEVP by solving and projecting the correlator</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>t0</strong> (int):\nThe time t0 for G(t)v= lambda G(t_0)v</li>\n<li><strong>ts</strong> (int):\nfixed time G(t_s)v= lambda G(t_0)v  if return_list=False\nIf return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</li>\n<li><strong>state</strong> (int):\nThe state one is interested in ordered by energy. The lowest state is zero.</li>\n<li><strong>sorted_list</strong> (string):\nif this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.\n\"Eigenvalue\"  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.\n\"Eigenvector\" -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.\n                 The reference state is identified by its eigenvalue at t=ts</li>\n</ul>\n", "signature": "(self, t0, ts=None, state=0, sorted_list=None)", "funcdef": "def"}, "pyerrors.correlators.Corr.Hankel": {"fullname": "pyerrors.correlators.Corr.Hankel", "modulename": "pyerrors.correlators", "qualname": "Corr.Hankel", "type": "function", "doc": "<p>Constructs an NxN Hankel matrix</p>\n\n<p>C(t) c(t+1) ... c(t+n-1)\nC(t+1) c(t+2) ... c(t+n)\n.................\nC(t+(n-1)) c(t+n) ... c(t+2(n-1))</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>N</strong> (int):\nDimension of the Hankel matrix</li>\n<li><strong>periodic</strong> (bool, optional):\ndetermines whether the matrix is extended periodically</li>\n</ul>\n", "signature": "(self, N, periodic=False)", "funcdef": "def"}, "pyerrors.correlators.Corr.roll": {"fullname": "pyerrors.correlators.Corr.roll", "modulename": "pyerrors.correlators", "qualname": "Corr.roll", "type": "function", "doc": "<p>Periodically shift the correlator by dt timeslices</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>dt</strong> (int):\nnumber of timeslices</li>\n</ul>\n", "signature": "(self, dt)", "funcdef": "def"}, "pyerrors.correlators.Corr.reverse": {"fullname": "pyerrors.correlators.Corr.reverse", "modulename": "pyerrors.correlators", "qualname": "Corr.reverse", "type": "function", "doc": "<p>Reverse the time ordering of the Corr</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.thin": {"fullname": "pyerrors.correlators.Corr.thin", "modulename": "pyerrors.correlators", "qualname": "Corr.thin", "type": "function", "doc": "<p>Thin out a correlator to suppress correlations</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>spacing</strong> (int):\nKeep only every 'spacing'th entry of the correlator</li>\n<li><strong>offset</strong> (int):\nOffset the equal spacing</li>\n</ul>\n", "signature": "(self, spacing=2, offset=0)", "funcdef": "def"}, "pyerrors.correlators.Corr.correlate": {"fullname": "pyerrors.correlators.Corr.correlate", "modulename": "pyerrors.correlators", "qualname": "Corr.correlate", "type": "function", "doc": "<p>Correlate the correlator with another correlator or Obs</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>partner</strong> (Obs or Corr):\npartner to correlate the correlator with.\nCan either be an Obs which is correlated with all entries of the\ncorrelator or a Corr of same length.</li>\n</ul>\n", "signature": "(self, partner)", "funcdef": "def"}, "pyerrors.correlators.Corr.reweight": {"fullname": "pyerrors.correlators.Corr.reweight", "modulename": "pyerrors.correlators", "qualname": "Corr.reweight", "type": "function", "doc": "<p>Reweight the correlator.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>weight</strong> (Obs):\nReweighting factor. An Observable that has to be defined on a superset of the\nconfigurations in obs[i].idl for all i.</li>\n<li><strong>all_configs</strong> (bool):\nif True, the reweighted observables are normalized by the average of\nthe reweighting factor on all configurations in weight.idl and not\non the configurations in obs[i].idl.</li>\n</ul>\n", "signature": "(self, weight, **kwargs)", "funcdef": "def"}, "pyerrors.correlators.Corr.T_symmetry": {"fullname": "pyerrors.correlators.Corr.T_symmetry", "modulename": "pyerrors.correlators", "qualname": "Corr.T_symmetry", "type": "function", "doc": "<p>Return the time symmetry average of the correlator and its partner</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>partner</strong> (Corr):\nTime symmetry partner of the Corr</li>\n<li><strong>partity</strong> (int):\nParity quantum number of the correlator, can be +1 or -1</li>\n</ul>\n", "signature": "(self, partner, parity=1)", "funcdef": "def"}, "pyerrors.correlators.Corr.deriv": {"fullname": "pyerrors.correlators.Corr.deriv", "modulename": "pyerrors.correlators", "qualname": "Corr.deriv", "type": "function", "doc": "<p>Return the first derivative of the correlator with respect to x0.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>variant</strong> (str):\ndecides which definition of the finite differences derivative is used.\nAvailable choice: symmetric, forward, backward, improved, default: symmetric</li>\n</ul>\n", "signature": "(self, variant='symmetric')", "funcdef": "def"}, "pyerrors.correlators.Corr.second_deriv": {"fullname": "pyerrors.correlators.Corr.second_deriv", "modulename": "pyerrors.correlators", "qualname": "Corr.second_deriv", "type": "function", "doc": "<p>Return the second derivative of the correlator with respect to x0.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>variant</strong> (str):\ndecides which definition of the finite differences derivative is used.\nAvailable choice: symmetric, improved, default: symmetric</li>\n</ul>\n", "signature": "(self, variant='symmetric')", "funcdef": "def"}, "pyerrors.correlators.Corr.m_eff": {"fullname": "pyerrors.correlators.Corr.m_eff", "modulename": "pyerrors.correlators", "qualname": "Corr.m_eff", "type": "function", "doc": "<p>Returns the effective mass of the correlator as correlator object</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>variant</strong> (str):\nlog : uses the standard effective mass log(C(t) / C(t+1))\ncosh, periodic : Use periodicitiy of the correlator by solving C(t) / C(t+1) = cosh(m * (t - T/2)) / cosh(m * (t + 1 - T/2)) for m.\nsinh : Use anti-periodicitiy of the correlator by solving C(t) / C(t+1) = sinh(m * (t - T/2)) / sinh(m * (t + 1 - T/2)) for m.\nSee, e.g., arXiv:1205.5380\narccosh : Uses the explicit form of the symmetrized correlator (not recommended)</li>\n<li><strong>guess</strong> (float):\nguess for the root finder, only relevant for the root variant</li>\n</ul>\n", "signature": "(self, variant='log', guess=1.0)", "funcdef": "def"}, "pyerrors.correlators.Corr.fit": {"fullname": "pyerrors.correlators.Corr.fit", "modulename": "pyerrors.correlators", "qualname": "Corr.fit", "type": "function", "doc": "<p>Fits function to the data</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>function</strong> (obj):\nfunction to fit to the data. See fits.least_squares for details.</li>\n<li><strong>fitrange</strong> (list):\nTwo element list containing the timeslices on which the fit is supposed to start and stop.\nCaution: This range is inclusive as opposed to standard python indexing.\n<code>fitrange=[4, 6]</code> corresponds to the three entries 4, 5 and 6.\nIf not specified, self.prange or all timeslices are used.</li>\n<li><strong>silent</strong> (bool):\nDecides whether output is printed to the standard output.</li>\n</ul>\n", "signature": "(self, function, fitrange=None, silent=False, **kwargs)", "funcdef": "def"}, "pyerrors.correlators.Corr.plateau": {"fullname": "pyerrors.correlators.Corr.plateau", "modulename": "pyerrors.correlators", "qualname": "Corr.plateau", "type": "function", "doc": "<p>Extract a plateau value from a Corr object</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>plateau_range</strong> (list):\nlist with two entries, indicating the first and the last timeslice\nof the plateau region.</li>\n<li><strong>method</strong> (str):\nmethod to extract the plateau.\n   'fit' fits a constant to the plateau region\n   'avg', 'average' or 'mean' just average over the given timeslices.</li>\n<li><strong>auto_gamma</strong> (bool):\napply gamma_method with default parameters to the Corr. Defaults to None</li>\n</ul>\n", "signature": "(self, plateau_range=None, method='fit', auto_gamma=False)", "funcdef": "def"}, "pyerrors.correlators.Corr.set_prange": {"fullname": "pyerrors.correlators.Corr.set_prange", "modulename": "pyerrors.correlators", "qualname": "Corr.set_prange", "type": "function", "doc": "<p>Sets the attribute prange of the Corr object.</p>\n", "signature": "(self, prange)", "funcdef": "def"}, "pyerrors.correlators.Corr.show": {"fullname": "pyerrors.correlators.Corr.show", "modulename": "pyerrors.correlators", "qualname": "Corr.show", "type": "function", "doc": "<p>Plots the correlator using the tag of the correlator as label if available.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>x_range</strong> (list):\nlist of two values, determining the range of the x-axis e.g. [4, 8]</li>\n<li><strong>comp</strong> (Corr or list of Corr):\nCorrelator or list of correlators which are plotted for comparison.\nThe tags of these correlators are used as labels if available.</li>\n<li><strong>logscale</strong> (bool):\nSets y-axis to logscale</li>\n<li><strong>plateau</strong> (Obs):\nPlateau value to be visualized in the figure</li>\n<li><strong>fit_res</strong> (Fit_result):\nFit_result object to be visualized</li>\n<li><strong>ylabel</strong> (str):\nLabel for the y-axis</li>\n<li><strong>save</strong> (str):\npath to file in which the figure should be saved</li>\n<li><strong>auto_gamma</strong> (bool):\nApply the gamma method with standard parameters to all correlators and plateau values before plotting.</li>\n<li><strong>hide_sigma</strong> (float):\nHides data points from the first value on which is consistent with zero within 'hide_sigma' standard errors.</li>\n<li><strong>references</strong> (list):\nList of floating point values that are displayed as horizontal lines for reference.</li>\n</ul>\n", "signature": "(\n    self,\n    x_range=None,\n    comp=None,\n    y_range=None,\n    logscale=False,\n    plateau=None,\n    fit_res=None,\n    ylabel=None,\n    save=None,\n    auto_gamma=False,\n    hide_sigma=None,\n    references=None\n)", "funcdef": "def"}, "pyerrors.correlators.Corr.spaghetti_plot": {"fullname": "pyerrors.correlators.Corr.spaghetti_plot", "modulename": "pyerrors.correlators", "qualname": "Corr.spaghetti_plot", "type": "function", "doc": "<p>Produces a spaghetti plot of the correlator suited to monitor exceptional configurations.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>logscale</strong> (bool):\nDetermines whether the scale of the y-axis is logarithmic or standard.</li>\n</ul>\n", "signature": "(self, logscale=True)", "funcdef": "def"}, "pyerrors.correlators.Corr.dump": {"fullname": "pyerrors.correlators.Corr.dump", "modulename": "pyerrors.correlators", "qualname": "Corr.dump", "type": "function", "doc": "<p>Dumps the Corr into a file of chosen type</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>filename</strong> (str):\nName of the file to be saved.</li>\n<li><strong>datatype</strong> (str):\nFormat of the exported file. Supported formats include\n\"json.gz\" and \"pickle\"</li>\n<li><strong>path</strong> (str):\nspecifies a custom path for the file (default '.')</li>\n</ul>\n", "signature": "(self, filename, datatype='json.gz', **kwargs)", "funcdef": "def"}, "pyerrors.correlators.Corr.print": {"fullname": "pyerrors.correlators.Corr.print", "modulename": "pyerrors.correlators", "qualname": "Corr.print", "type": "function", "doc": "<p></p>\n", "signature": "(self, range=[0, None])", "funcdef": "def"}, "pyerrors.correlators.Corr.sqrt": {"fullname": "pyerrors.correlators.Corr.sqrt", "modulename": "pyerrors.correlators", "qualname": "Corr.sqrt", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.log": {"fullname": "pyerrors.correlators.Corr.log", "modulename": "pyerrors.correlators", "qualname": "Corr.log", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.exp": {"fullname": "pyerrors.correlators.Corr.exp", "modulename": "pyerrors.correlators", "qualname": "Corr.exp", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.sin": {"fullname": "pyerrors.correlators.Corr.sin", "modulename": "pyerrors.correlators", "qualname": "Corr.sin", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.cos": {"fullname": "pyerrors.correlators.Corr.cos", "modulename": "pyerrors.correlators", "qualname": "Corr.cos", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.tan": {"fullname": "pyerrors.correlators.Corr.tan", "modulename": "pyerrors.correlators", "qualname": "Corr.tan", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.sinh": {"fullname": "pyerrors.correlators.Corr.sinh", "modulename": "pyerrors.correlators", "qualname": "Corr.sinh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.cosh": {"fullname": "pyerrors.correlators.Corr.cosh", "modulename": "pyerrors.correlators", "qualname": "Corr.cosh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.tanh": {"fullname": "pyerrors.correlators.Corr.tanh", "modulename": "pyerrors.correlators", "qualname": "Corr.tanh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.arcsin": {"fullname": "pyerrors.correlators.Corr.arcsin", "modulename": "pyerrors.correlators", "qualname": "Corr.arcsin", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.arccos": {"fullname": "pyerrors.correlators.Corr.arccos", "modulename": "pyerrors.correlators", "qualname": "Corr.arccos", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.arctan": {"fullname": "pyerrors.correlators.Corr.arctan", "modulename": "pyerrors.correlators", "qualname": "Corr.arctan", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.arcsinh": {"fullname": "pyerrors.correlators.Corr.arcsinh", "modulename": "pyerrors.correlators", "qualname": "Corr.arcsinh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.arccosh": {"fullname": "pyerrors.correlators.Corr.arccosh", "modulename": "pyerrors.correlators", "qualname": "Corr.arccosh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.arctanh": {"fullname": "pyerrors.correlators.Corr.arctanh", "modulename": "pyerrors.correlators", "qualname": "Corr.arctanh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.real": {"fullname": "pyerrors.correlators.Corr.real", "modulename": "pyerrors.correlators", "qualname": "Corr.real", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.correlators.Corr.imag": {"fullname": "pyerrors.correlators.Corr.imag", "modulename": "pyerrors.correlators", "qualname": "Corr.imag", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.correlators.Corr.prune": {"fullname": "pyerrors.correlators.Corr.prune", "modulename": "pyerrors.correlators", "qualname": "Corr.prune", "type": "function", "doc": "<p>Project large correlation matrix to lowest states</p>\n\n<p>This method can be used to reduce the size of an (N x N) correlation matrix\nto (Ntrunc x Ntrunc) by solving a GEVP at very early times where the noise\nis still small.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>Ntrunc</strong> (int):\nRank of the target matrix.</li>\n<li><strong>tproj</strong> (int):\nTime where the eigenvectors are evaluated, corresponds to ts in the GEVP method.\nThe default value is 3.</li>\n<li><strong>t0proj</strong> (int):\nTime where the correlation matrix is inverted. Choosing t0proj=1 is strongly\ndiscouraged for O(a) improved theories, since the correctness of the procedure\ncannot be granted in this case. The default value is 2.</li>\n<li><strong>basematrix</strong> (Corr):\nCorrelation matrix that is used to determine the eigenvectors of the\nlowest states based on a GEVP. basematrix is taken to be the Corr itself if\nis is not specified.</li>\n</ul>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>We have the basematrix $C(t)$ and the target matrix $G(t)$. We start by solving\nthe GEVP $$C(t) v_n(t, t_0) = \\lambda_n(t, t_0) C(t_0) v_n(t, t_0)$$ where $t \\equiv t_\\mathrm{proj}$\nand $t_0 \\equiv t_{0, \\mathrm{proj}}$. The target matrix is projected onto the subspace of the\nresulting eigenvectors $v_n, n=1,\\dots,N_\\mathrm{trunc}$ via\n$$G^\\prime_{i, j}(t) = (v_i, G(t) v_j)$$. This allows to reduce the size of a large\ncorrelation matrix and to remove some noise that is added by irrelevant operators.\nThis may allow to use the GEVP on $G(t)$ at late times such that the theoretically motivated\nbound $t_0 \\leq t/2$ holds, since the condition number of $G(t)$ is decreased, compared to $C(t)$.</p>\n", "signature": "(self, Ntrunc, tproj=3, t0proj=2, basematrix=None)", "funcdef": "def"}, "pyerrors.covobs": {"fullname": "pyerrors.covobs", "modulename": "pyerrors.covobs", "type": "module", "doc": "<p></p>\n"}, "pyerrors.covobs.Covobs": {"fullname": "pyerrors.covobs.Covobs", "modulename": "pyerrors.covobs", "qualname": "Covobs", "type": "class", "doc": "<p></p>\n"}, "pyerrors.covobs.Covobs.__init__": {"fullname": "pyerrors.covobs.Covobs.__init__", "modulename": "pyerrors.covobs", "qualname": "Covobs.__init__", "type": "function", "doc": "<p>Initialize Covobs object.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>mean</strong> (float):\nMean value of the new Obs</li>\n<li><strong>cov</strong> (list or array):\n2d Covariance matrix or 1d diagonal entries</li>\n<li><strong>name</strong> (str):\nidentifier for the covariance matrix</li>\n<li><strong>pos</strong> (int):\nPosition of the variance belonging to mean in cov.\nIs taken to be 1 if cov is 0-dimensional</li>\n<li><strong>grad</strong> (list or array):\nGradient of the Covobs wrt. the means belonging to cov.</li>\n</ul>\n", "signature": "(self, mean, cov, name, pos=None, grad=None)", "funcdef": "def"}, "pyerrors.covobs.Covobs.errsq": {"fullname": "pyerrors.covobs.Covobs.errsq", "modulename": "pyerrors.covobs", "qualname": "Covobs.errsq", "type": "function", "doc": "<p>Return the variance (= square of the error) of the Covobs</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.covobs.Covobs.cov": {"fullname": "pyerrors.covobs.Covobs.cov", "modulename": "pyerrors.covobs", "qualname": "Covobs.cov", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.covobs.Covobs.grad": {"fullname": "pyerrors.covobs.Covobs.grad", "modulename": "pyerrors.covobs", "qualname": "Covobs.grad", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.dirac": {"fullname": "pyerrors.dirac", "modulename": "pyerrors.dirac", "type": "module", "doc": "<p></p>\n"}, "pyerrors.dirac.epsilon_tensor": {"fullname": "pyerrors.dirac.epsilon_tensor", "modulename": "pyerrors.dirac", "qualname": "epsilon_tensor", "type": "function", "doc": "<p>Rank-3 epsilon tensor</p>\n\n<p>Based on https://codegolf.stackexchange.com/a/160375</p>\n", "signature": "(i, j, k)", "funcdef": "def"}, "pyerrors.dirac.epsilon_tensor_rank4": {"fullname": "pyerrors.dirac.epsilon_tensor_rank4", "modulename": "pyerrors.dirac", "qualname": "epsilon_tensor_rank4", "type": "function", "doc": "<p>Rank-4 epsilon tensor</p>\n\n<p>Extension of https://codegolf.stackexchange.com/a/160375</p>\n", "signature": "(i, j, k, o)", "funcdef": "def"}, "pyerrors.dirac.Grid_gamma": {"fullname": "pyerrors.dirac.Grid_gamma", "modulename": "pyerrors.dirac", "qualname": "Grid_gamma", "type": "function", "doc": "<p>Returns gamma matrix in Grid labeling.</p>\n", "signature": "(gamma_tag)", "funcdef": "def"}, "pyerrors.fits": {"fullname": "pyerrors.fits", "modulename": "pyerrors.fits", "type": "module", "doc": "<p></p>\n"}, "pyerrors.fits.Fit_result": {"fullname": "pyerrors.fits.Fit_result", "modulename": "pyerrors.fits", "qualname": "Fit_result", "type": "class", "doc": "<p>Represents fit results.</p>\n\n<h6 id=\"attributes\">Attributes</h6>\n\n<ul>\n<li><strong>fit_parameters</strong> (list):\nresults for the individual fit parameters,\nalso accessible via indices.</li>\n</ul>\n", "bases": "collections.abc.Sequence"}, "pyerrors.fits.Fit_result.__init__": {"fullname": "pyerrors.fits.Fit_result.__init__", "modulename": "pyerrors.fits", "qualname": "Fit_result.__init__", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.fits.Fit_result.gamma_method": {"fullname": "pyerrors.fits.Fit_result.gamma_method", "modulename": "pyerrors.fits", "qualname": "Fit_result.gamma_method", "type": "function", "doc": "<p>Apply the gamma method to all fit parameters</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.fits.least_squares": {"fullname": "pyerrors.fits.least_squares", "modulename": "pyerrors.fits", "qualname": "least_squares", "type": "function", "doc": "<p>Performs a non-linear fit to y = func(x).</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>x</strong> (list):\nlist of floats.</li>\n<li><strong>y</strong> (list):\nlist of Obs.</li>\n<li><p><strong>func</strong> (object):\nfit function, has to be of the form</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">autograd.numpy</span> <span class=\"k\">as</span> <span class=\"nn\">anp</span>\n\n<span class=\"k\">def</span> <span class=\"nf\">func</span><span class=\"p\">(</span><span class=\"n\">a</span><span class=\"p\">,</span> <span class=\"n\">x</span><span class=\"p\">):</span>\n   <span class=\"k\">return</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">0</span><span class=\"p\">]</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">2</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">anp</span><span class=\"o\">.</span><span class=\"n\">sinh</span><span class=\"p\">(</span><span class=\"n\">x</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>For multiple x values func can be of the form</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"k\">def</span> <span class=\"nf\">func</span><span class=\"p\">(</span><span class=\"n\">a</span><span class=\"p\">,</span> <span class=\"n\">x</span><span class=\"p\">):</span>\n   <span class=\"p\">(</span><span class=\"n\">x1</span><span class=\"p\">,</span> <span class=\"n\">x2</span><span class=\"p\">)</span> <span class=\"o\">=</span> <span class=\"n\">x</span>\n   <span class=\"k\">return</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">0</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x1</span> <span class=\"o\">**</span> <span class=\"mi\">2</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x2</span>\n</code></pre></div>\n\n<p>It is important that all numpy functions refer to autograd.numpy, otherwise the differentiation\nwill not work.</p></li>\n<li><strong>priors</strong> (list, optional):\npriors has to be a list with an entry for every parameter in the fit. The entries can either be\nObs (e.g. results from a previous fit) or strings containing a value and an error formatted like\n0.548(23), 500(40) or 0.5(0.4)</li>\n<li><strong>silent</strong> (bool, optional):\nIf true all output to the console is omitted (default False).</li>\n<li><strong>initial_guess</strong> (list):\ncan provide an initial guess for the input parameters. Relevant for\nnon-linear fits with many parameters.</li>\n<li><strong>method</strong> (str, optional):\ncan be used to choose an alternative method for the minimization of chisquare.\nThe possible methods are the ones which can be used for scipy.optimize.minimize and\nmigrad of iminuit. If no method is specified, Levenberg-Marquard is used.\nReliable alternatives are migrad, Powell and Nelder-Mead.</li>\n<li><strong>correlated_fit</strong> (bool):\nIf True, use the full inverse covariance matrix in the definition of the chisquare cost function.\nFor details about how the covariance matrix is estimated see <code>pyerrors.obs.covariance</code>.\nIn practice the correlation matrix is Cholesky decomposed and inverted (instead of the covariance matrix).\nThis procedure should be numerically more stable as the correlation matrix is typically better conditioned (Jacobi preconditioning).\nAt the moment this option only works for <code>prior==None</code> and when no <code>method</code> is given.</li>\n<li><strong>expected_chisquare</strong> (bool):\nIf True estimates the expected chisquare which is\ncorrected by effects caused by correlated input data (default False).</li>\n<li><strong>resplot</strong> (bool):\nIf True, a plot which displays fit, data and residuals is generated (default False).</li>\n<li><strong>qqplot</strong> (bool):\nIf True, a quantile-quantile plot of the fit result is generated (default False).</li>\n</ul>\n", "signature": "(x, y, func, priors=None, silent=False, **kwargs)", "funcdef": "def"}, "pyerrors.fits.total_least_squares": {"fullname": "pyerrors.fits.total_least_squares", "modulename": "pyerrors.fits", "qualname": "total_least_squares", "type": "function", "doc": "<p>Performs a non-linear fit to y = func(x) and returns a list of Obs corresponding to the fit parameters.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>x</strong> (list):\nlist of Obs, or a tuple of lists of Obs</li>\n<li><strong>y</strong> (list):\nlist of Obs. The dvalues of the Obs are used as x- and yerror for the fit.</li>\n<li><p><strong>func</strong> (object):\nfunc has to be of the form</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">autograd.numpy</span> <span class=\"k\">as</span> <span class=\"nn\">anp</span>\n\n<span class=\"k\">def</span> <span class=\"nf\">func</span><span class=\"p\">(</span><span class=\"n\">a</span><span class=\"p\">,</span> <span class=\"n\">x</span><span class=\"p\">):</span>\n   <span class=\"k\">return</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">0</span><span class=\"p\">]</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">2</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">anp</span><span class=\"o\">.</span><span class=\"n\">sinh</span><span class=\"p\">(</span><span class=\"n\">x</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>For multiple x values func can be of the form</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"k\">def</span> <span class=\"nf\">func</span><span class=\"p\">(</span><span class=\"n\">a</span><span class=\"p\">,</span> <span class=\"n\">x</span><span class=\"p\">):</span>\n   <span class=\"p\">(</span><span class=\"n\">x1</span><span class=\"p\">,</span> <span class=\"n\">x2</span><span class=\"p\">)</span> <span class=\"o\">=</span> <span class=\"n\">x</span>\n   <span class=\"k\">return</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">0</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x1</span> <span class=\"o\">**</span> <span class=\"mi\">2</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x2</span>\n</code></pre></div>\n\n<p>It is important that all numpy functions refer to autograd.numpy, otherwise the differentiation\nwill not work.</p></li>\n<li><strong>silent</strong> (bool, optional):\nIf true all output to the console is omitted (default False).</li>\n<li><strong>initial_guess</strong> (list):\ncan provide an initial guess for the input parameters. Relevant for non-linear\nfits with many parameters.</li>\n<li><strong>expected_chisquare</strong> (bool):\nIf true prints the expected chisquare which is\ncorrected by effects caused by correlated input data.\nThis can take a while as the full correlation matrix\nhas to be calculated (default False).</li>\n</ul>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>Based on the orthogonal distance regression module of scipy</p>\n", "signature": "(x, y, func, silent=False, **kwargs)", "funcdef": "def"}, "pyerrors.fits.fit_lin": {"fullname": "pyerrors.fits.fit_lin", "modulename": "pyerrors.fits", "qualname": "fit_lin", "type": "function", "doc": "<p>Performs a linear fit to y = n + m * x and returns two Obs n, m.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>x</strong> (list):\nCan either be a list of floats in which case no xerror is assumed, or\na list of Obs, where the dvalues of the Obs are used as xerror for the fit.</li>\n<li><strong>y</strong> (list):\nList of Obs, the dvalues of the Obs are used as yerror for the fit.</li>\n</ul>\n", "signature": "(x, y, **kwargs)", "funcdef": "def"}, "pyerrors.fits.qqplot": {"fullname": "pyerrors.fits.qqplot", "modulename": "pyerrors.fits", "qualname": "qqplot", "type": "function", "doc": "<p>Generates a quantile-quantile plot of the fit result which can be used to\ncheck if the residuals of the fit are gaussian distributed.</p>\n", "signature": "(x, o_y, func, p)", "funcdef": "def"}, "pyerrors.fits.residual_plot": {"fullname": "pyerrors.fits.residual_plot", "modulename": "pyerrors.fits", "qualname": "residual_plot", "type": "function", "doc": "<p>Generates a plot which compares the fit to the data and displays the corresponding residuals</p>\n", "signature": "(x, y, func, fit_res)", "funcdef": "def"}, "pyerrors.fits.error_band": {"fullname": "pyerrors.fits.error_band", "modulename": "pyerrors.fits", "qualname": "error_band", "type": "function", "doc": "<p>Returns the error band for an array of sample values x, for given fit function func with optimized parameters beta.</p>\n", "signature": "(x, func, beta)", "funcdef": "def"}, "pyerrors.fits.ks_test": {"fullname": "pyerrors.fits.ks_test", "modulename": "pyerrors.fits", "qualname": "ks_test", "type": "function", "doc": "<p>Performs a Kolmogorov\u2013Smirnov test for the p-values of all fit object.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>objects</strong> (list):\nList of fit results to include in the analysis (optional).</li>\n</ul>\n", "signature": "(objects=None)", "funcdef": "def"}, "pyerrors.input": {"fullname": "pyerrors.input", "modulename": "pyerrors.input", "type": "module", "doc": "<p><code>pyerrors</code> includes an <code>input</code> submodule in which input routines and parsers for the output of various numerical programs are contained.</p>\n\n<h1 id=\"jackknife-samples\">Jackknife samples</h1>\n\n<p>For comparison with other analysis workflows <code>pyerrors</code> can also generate jackknife samples from an <code>Obs</code> object or import jackknife samples into an <code>Obs</code> object.\nSee <code>pyerrors.obs.Obs.export_jackknife</code> and <code>pyerrors.obs.import_jackknife</code> for details.</p>\n"}, "pyerrors.input.bdio": {"fullname": "pyerrors.input.bdio", "modulename": "pyerrors.input.bdio", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.bdio.read_ADerrors": {"fullname": "pyerrors.input.bdio.read_ADerrors", "modulename": "pyerrors.input.bdio", "qualname": "read_ADerrors", "type": "function", "doc": "<p>Extract generic MCMC data from a bdio file</p>\n\n<p>read_ADerrors requires bdio to be compiled into a shared library. This can be achieved by\nadding the flag -fPIC to CC and changing the all target to</p>\n\n<p>all:                bdio.o $(LIBDIR)\n            gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o\n            cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>file_path -- path to the bdio file</strong></li>\n<li><strong>bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)</strong></li>\n</ul>\n", "signature": "(file_path, bdio_path='./libbdio.so', **kwargs)", "funcdef": "def"}, "pyerrors.input.bdio.write_ADerrors": {"fullname": "pyerrors.input.bdio.write_ADerrors", "modulename": "pyerrors.input.bdio", "qualname": "write_ADerrors", "type": "function", "doc": "<p>Write Obs to a bdio file according to ADerrors conventions</p>\n\n<p>read_mesons requires bdio to be compiled into a shared library. This can be achieved by\nadding the flag -fPIC to CC and changing the all target to</p>\n\n<p>all:                bdio.o $(LIBDIR)\n            gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o\n            cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>file_path -- path to the bdio file</strong></li>\n<li><strong>bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)</strong></li>\n</ul>\n", "signature": "(obs_list, file_path, bdio_path='./libbdio.so', **kwargs)", "funcdef": "def"}, "pyerrors.input.bdio.read_mesons": {"fullname": "pyerrors.input.bdio.read_mesons", "modulename": "pyerrors.input.bdio", "qualname": "read_mesons", "type": "function", "doc": "<p>Extract mesons data from a bdio file and return it as a dictionary</p>\n\n<p>The dictionary can be accessed with a tuple consisting of (type, source_position, kappa1, kappa2)</p>\n\n<p>read_mesons requires bdio to be compiled into a shared library. This can be achieved by\nadding the flag -fPIC to CC and changing the all target to</p>\n\n<p>all:                bdio.o $(LIBDIR)\n            gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o\n            cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>file_path</strong> (str):\npath to the bdio file</li>\n<li><strong>bdio_path</strong> (str):\npath to the shared bdio library libbdio.so (default ./libbdio.so)</li>\n<li><strong>start</strong> (int):\nThe first configuration to be read (default 1)</li>\n<li><strong>stop</strong> (int):\nThe last configuration to be read (default None)</li>\n<li><strong>step</strong> (int):\nFixed step size between two measurements (default 1)</li>\n<li><strong>alternative_ensemble_name</strong> (str):\nManually overwrite ensemble name</li>\n</ul>\n", "signature": "(file_path, bdio_path='./libbdio.so', **kwargs)", "funcdef": "def"}, "pyerrors.input.bdio.read_dSdm": {"fullname": "pyerrors.input.bdio.read_dSdm", "modulename": "pyerrors.input.bdio", "qualname": "read_dSdm", "type": "function", "doc": "<p>Extract dSdm data from a bdio file and return it as a dictionary</p>\n\n<p>The dictionary can be accessed with a tuple consisting of (type, kappa)</p>\n\n<p>read_dSdm requires bdio to be compiled into a shared library. This can be achieved by\nadding the flag -fPIC to CC and changing the all target to</p>\n\n<p>all:                bdio.o $(LIBDIR)\n            gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o\n            cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>file_path</strong> (str):\npath to the bdio file</li>\n<li><strong>bdio_path</strong> (str):\npath to the shared bdio library libbdio.so (default ./libbdio.so)</li>\n<li><strong>start</strong> (int):\nThe first configuration to be read (default 1)</li>\n<li><strong>stop</strong> (int):\nThe last configuration to be read (default None)</li>\n<li><strong>step</strong> (int):\nFixed step size between two measurements (default 1)</li>\n<li><strong>alternative_ensemble_name</strong> (str):\nManually overwrite ensemble name</li>\n</ul>\n", "signature": "(file_path, bdio_path='./libbdio.so', **kwargs)", "funcdef": "def"}, "pyerrors.input.dobs": {"fullname": "pyerrors.input.dobs", "modulename": "pyerrors.input.dobs", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.dobs.create_pobs_string": {"fullname": "pyerrors.input.dobs.create_pobs_string", "modulename": "pyerrors.input.dobs", "qualname": "create_pobs_string", "type": "function", "doc": "<p>Export a list of Obs or structures containing Obs to an xml string\naccording to the Zeuthen pobs format.</p>\n\n<p>Tags are not written or recovered automatically. The separator | is removed from the replica names.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obsl</strong> (list):\nList of Obs that will be exported.\nThe Obs inside a structure have to be defined on the same ensemble.</li>\n<li><strong>name</strong> (str):\nThe name of the observable.</li>\n<li><strong>spec</strong> (str):\nOptional string that describes the contents of the file.</li>\n<li><strong>origin</strong> (str):\nSpecify where the data has its origin.</li>\n<li><strong>symbol</strong> (list):\nA list of symbols that describe the observables to be written. May be empty.</li>\n<li><strong>enstag</strong> (str):\nEnstag that is written to pobs. If None, the ensemble name is used.</li>\n</ul>\n", "signature": "(obsl, name, spec='', origin='', symbol=[], enstag=None)", "funcdef": "def"}, "pyerrors.input.dobs.write_pobs": {"fullname": "pyerrors.input.dobs.write_pobs", "modulename": "pyerrors.input.dobs", "qualname": "write_pobs", "type": "function", "doc": "<p>Export a list of Obs or structures containing Obs to a .xml.gz file\naccording to the Zeuthen pobs format.</p>\n\n<p>Tags are not written or recovered automatically. The separator | is removed from the replica names.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obsl</strong> (list):\nList of Obs that will be exported.\nThe Obs inside a structure have to be defined on the same ensemble.</li>\n<li><strong>fname</strong> (str):\nFilename of the output file.</li>\n<li><strong>name</strong> (str):\nThe name of the observable.</li>\n<li><strong>spec</strong> (str):\nOptional string that describes the contents of the file.</li>\n<li><strong>origin</strong> (str):\nSpecify where the data has its origin.</li>\n<li><strong>symbol</strong> (list):\nA list of symbols that describe the observables to be written. May be empty.</li>\n<li><strong>enstag</strong> (str):\nEnstag that is written to pobs. If None, the ensemble name is used.</li>\n<li><strong>gz</strong> (bool):\nIf True, the output is a gzipped xml. If False, the output is an xml file.</li>\n</ul>\n", "signature": "(\n    obsl,\n    fname,\n    name,\n    spec='',\n    origin='',\n    symbol=[],\n    enstag=None,\n    gz=True\n)", "funcdef": "def"}, "pyerrors.input.dobs.read_pobs": {"fullname": "pyerrors.input.dobs.read_pobs", "modulename": "pyerrors.input.dobs", "qualname": "read_pobs", "type": "function", "doc": "<p>Import a list of Obs from an xml.gz file in the Zeuthen pobs format.</p>\n\n<p>Tags are not written or recovered automatically.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>fname</strong> (str):\nFilename of the input file.</li>\n<li><strong>full_output</strong> (bool):\nIf True, a dict containing auxiliary information and the data is returned.\nIf False, only the data is returned as list.</li>\n<li><strong>separatior_insertion</strong> (str or int):\nstr: replace all occurences of \"separator_insertion\" within the replica names\nby \"|%s\" % (separator_insertion) when constructing the names of the replica.\nint: Insert the separator \"|\" at the position given by separator_insertion.\nNone (default): Replica names remain unchanged.</li>\n</ul>\n", "signature": "(fname, full_output=False, gz=True, separator_insertion=None)", "funcdef": "def"}, "pyerrors.input.dobs.import_dobs_string": {"fullname": "pyerrors.input.dobs.import_dobs_string", "modulename": "pyerrors.input.dobs", "qualname": "import_dobs_string", "type": "function", "doc": "<p>Import a list of Obs from a string in the Zeuthen dobs format.</p>\n\n<p>Tags are not written or recovered automatically.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>content</strong> (str):\nXML string containing the data</li>\n<li><strong>noemtpy</strong> (bool):\nIf True, ensembles with no contribution to the Obs are not included.\nIf False, ensembles are included as written in the file, possibly with vanishing entries.</li>\n<li><strong>full_output</strong> (bool):\nIf True, a dict containing auxiliary information and the data is returned.\nIf False, only the data is returned as list.</li>\n<li><strong>separatior_insertion</strong> (str, int or bool):\nstr: replace all occurences of \"separator_insertion\" within the replica names\nby \"|%s\" % (separator_insertion) when constructing the names of the replica.\nint: Insert the separator \"|\" at the position given by separator_insertion.\nTrue (default): separator \"|\" is inserted after len(ensname), assuming that the\nensemble name is a prefix to the replica name.\nNone or False: No separator is inserted.</li>\n</ul>\n", "signature": "(content, noempty=False, full_output=False, separator_insertion=True)", "funcdef": "def"}, "pyerrors.input.dobs.read_dobs": {"fullname": "pyerrors.input.dobs.read_dobs", "modulename": "pyerrors.input.dobs", "qualname": "read_dobs", "type": "function", "doc": "<p>Import a list of Obs from an xml.gz file in the Zeuthen dobs format.</p>\n\n<p>Tags are not written or recovered automatically.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>fname</strong> (str):\nFilename of the input file.</li>\n<li><strong>noemtpy</strong> (bool):\nIf True, ensembles with no contribution to the Obs are not included.\nIf False, ensembles are included as written in the file.</li>\n<li><strong>full_output</strong> (bool):\nIf True, a dict containing auxiliary information and the data is returned.\nIf False, only the data is returned as list.</li>\n<li><strong>gz</strong> (bool):\nIf True, assumes that data is gzipped. If False, assumes XML file.</li>\n<li><strong>separatior_insertion</strong> (str, int or bool):\nstr: replace all occurences of \"separator_insertion\" within the replica names\nby \"|%s\" % (separator_insertion) when constructing the names of the replica.\nint: Insert the separator \"|\" at the position given by separator_insertion.\nTrue (default): separator \"|\" is inserted after len(ensname), assuming that the\nensemble name is a prefix to the replica name.\nNone or False: No separator is inserted.</li>\n</ul>\n", "signature": "(\n    fname,\n    noempty=False,\n    full_output=False,\n    gz=True,\n    separator_insertion=True\n)", "funcdef": "def"}, "pyerrors.input.dobs.create_dobs_string": {"fullname": "pyerrors.input.dobs.create_dobs_string", "modulename": "pyerrors.input.dobs", "qualname": "create_dobs_string", "type": "function", "doc": "<p>Generate the string for the export of a list of Obs or structures containing Obs\nto a .xml.gz file according to the Zeuthen dobs format.</p>\n\n<p>Tags are not written or recovered automatically. The separator |is removed from the replica names.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obsl</strong> (list):\nList of Obs that will be exported.\nThe Obs inside a structure do not have to be defined on the same set of configurations,\nbut the storage requirement is increased, if this is not the case.</li>\n<li><strong>name</strong> (str):\nThe name of the observable.</li>\n<li><strong>spec</strong> (str):\nOptional string that describes the contents of the file.</li>\n<li><strong>origin</strong> (str):\nSpecify where the data has its origin.</li>\n<li><strong>symbol</strong> (list):\nA list of symbols that describe the observables to be written. May be empty.</li>\n<li><strong>who</strong> (str):\nProvide the name of the person that exports the data.</li>\n<li><strong>enstags</strong> (dict):\nProvide alternative enstag for ensembles in the form enstags = {ename: enstag}\nOtherwise, the ensemble name is used.</li>\n</ul>\n", "signature": "(\n    obsl,\n    name,\n    spec='dobs v1.0',\n    origin='',\n    symbol=[],\n    who=None,\n    enstags={}\n)", "funcdef": "def"}, "pyerrors.input.dobs.write_dobs": {"fullname": "pyerrors.input.dobs.write_dobs", "modulename": "pyerrors.input.dobs", "qualname": "write_dobs", "type": "function", "doc": "<p>Export a list of Obs or structures containing Obs to a .xml.gz file\naccording to the Zeuthen dobs format.</p>\n\n<p>Tags are not written or recovered automatically. The separator | is removed from the replica names.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obsl</strong> (list):\nList of Obs that will be exported.\nThe Obs inside a structure do not have to be defined on the same set of configurations,\nbut the storage requirement is increased, if this is not the case.</li>\n<li><strong>fname</strong> (str):\nFilename of the output file.</li>\n<li><strong>name</strong> (str):\nThe name of the observable.</li>\n<li><strong>spec</strong> (str):\nOptional string that describes the contents of the file.</li>\n<li><strong>origin</strong> (str):\nSpecify where the data has its origin.</li>\n<li><strong>symbol</strong> (list):\nA list of symbols that describe the observables to be written. May be empty.</li>\n<li><strong>who</strong> (str):\nProvide the name of the person that exports the data.</li>\n<li><strong>enstags</strong> (dict):\nProvide alternative enstag for ensembles in the form enstags = {ename: enstag}\nOtherwise, the ensemble name is used.</li>\n<li><strong>gz</strong> (bool):\nIf True, the output is a gzipped XML. If False, the output is a XML file.</li>\n</ul>\n", "signature": "(\n    obsl,\n    fname,\n    name,\n    spec='dobs v1.0',\n    origin='',\n    symbol=[],\n    who=None,\n    enstags={},\n    gz=True\n)", "funcdef": "def"}, "pyerrors.input.hadrons": {"fullname": "pyerrors.input.hadrons", "modulename": "pyerrors.input.hadrons", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.hadrons.read_meson_hd5": {"fullname": "pyerrors.input.hadrons.read_meson_hd5", "modulename": "pyerrors.input.hadrons", "qualname": "read_meson_hd5", "type": "function", "doc": "<p>Read hadrons meson hdf5 file and extract the meson labeled 'meson'</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath to the files to read</li>\n<li><strong>filestem</strong> (str):\nnamestem of the files to read</li>\n<li><strong>ens_id</strong> (str):\nname of the ensemble, required for internal bookkeeping</li>\n<li><strong>meson</strong> (str):\nlabel of the meson to be extracted, standard value meson_0 which\ncorresponds to the pseudoscalar pseudoscalar two-point function.</li>\n<li><strong>idl</strong> (range):\nIf specified only configurations in the given range are read in.</li>\n</ul>\n", "signature": "(path, filestem, ens_id, meson='meson_0', idl=None)", "funcdef": "def"}, "pyerrors.input.hadrons.Npr_matrix": {"fullname": "pyerrors.input.hadrons.Npr_matrix", "modulename": "pyerrors.input.hadrons", "qualname": "Npr_matrix", "type": "class", "doc": "<p>ndarray(shape, dtype=float, buffer=None, offset=0,\n        strides=None, order=None)</p>\n\n<p>An array object represents a multidimensional, homogeneous array\nof fixed-size items.  An associated data-type object describes the\nformat of each element in the array (its byte-order, how many bytes it\noccupies in memory, whether it is an integer, a floating point number,\nor something else, etc.)</p>\n\n<p>Arrays should be constructed using <code>array</code>, <code>zeros</code> or <code>empty</code> (refer\nto the See Also section below).  The parameters given here refer to\na low-level method (<code>ndarray(...)</code>) for instantiating an array.</p>\n\n<p>For more information, refer to the <code>numpy</code> module and examine the\nmethods and attributes of an array.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>(for the __new__ method; see Notes below)</strong></li>\n<li><strong>shape</strong> (tuple of ints):\nShape of created array.</li>\n<li><strong>dtype</strong> (data-type, optional):\nAny object that can be interpreted as a numpy data type.</li>\n<li><strong>buffer</strong> (object exposing buffer interface, optional):\nUsed to fill the array with data.</li>\n<li><strong>offset</strong> (int, optional):\nOffset of array data in buffer.</li>\n<li><strong>strides</strong> (tuple of ints, optional):\nStrides of data in memory.</li>\n<li><strong>order</strong> ({'C', 'F'}, optional):\nRow-major (C-style) or column-major (Fortran-style) order.</li>\n</ul>\n\n<h6 id=\"attributes\">Attributes</h6>\n\n<ul>\n<li><strong>T</strong> (ndarray):\nTranspose of the array.</li>\n<li><strong>data</strong> (buffer):\nThe array's elements, in memory.</li>\n<li><strong>dtype</strong> (dtype object):\nDescribes the format of the elements in the array.</li>\n<li><strong>flags</strong> (dict):\nDictionary containing information related to memory use, e.g.,\n'C_CONTIGUOUS', 'OWNDATA', 'WRITEABLE', etc.</li>\n<li><strong>flat</strong> (numpy.flatiter object):\nFlattened version of the array as an iterator.  The iterator\nallows assignments, e.g., <code>x.flat = 3</code> (See <code>ndarray.flat</code> for\nassignment examples; TODO).</li>\n<li><strong>imag</strong> (ndarray):\nImaginary part of the array.</li>\n<li><strong>real</strong> (ndarray):\nReal part of the array.</li>\n<li><strong>size</strong> (int):\nNumber of elements in the array.</li>\n<li><strong>itemsize</strong> (int):\nThe memory use of each array element in bytes.</li>\n<li><strong>nbytes</strong> (int):\nThe total number of bytes required to store the array data,\ni.e., <code>itemsize * size</code>.</li>\n<li><strong>ndim</strong> (int):\nThe array's number of dimensions.</li>\n<li><strong>shape</strong> (tuple of ints):\nShape of the array.</li>\n<li><strong>strides</strong> (tuple of ints):\nThe step-size required to move from one element to the next in\nmemory. For example, a contiguous <code>(3, 4)</code> array of type\n<code>int16</code> in C-order has strides <code>(8, 2)</code>.  This implies that\nto move from element to element in memory requires jumps of 2 bytes.\nTo move from row-to-row, one needs to jump 8 bytes at a time\n(<code>2 * 4</code>).</li>\n<li><strong>ctypes</strong> (ctypes object):\nClass containing properties of the array needed for interaction\nwith ctypes.</li>\n<li><strong>base</strong> (ndarray):\nIf the array is a view into another array, that array is its <code>base</code>\n(unless that array is also a view).  The <code>base</code> array is where the\narray data is actually stored.</li>\n</ul>\n\n<h6 id=\"see-also\">See Also</h6>\n\n<p><code>array</code>:  Construct an array. <br />\n<code>zeros</code>:  Create an array, each element of which is zero. <br />\n<code>empty</code>:  Create an array, but leave its allocated memory unchanged (i.e.,\nit contains \"garbage\"). <br />\n<code>dtype</code>:  Create a data-type. <br />\n<code>numpy.typing.NDArray</code>:  An ndarray alias :term:<code>generic &lt;generic type&gt;</code>\nw.r.t. its <code>dtype.type &lt;numpy.dtype.type&gt;</code>.  </p>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>There are two modes of creating an array using <code>__new__</code>:</p>\n\n<ol>\n<li>If <code>buffer</code> is None, then only <code>shape</code>, <code>dtype</code>, and <code>order</code>\nare used.</li>\n<li>If <code>buffer</code> is an object exposing the buffer interface, then\nall keywords are interpreted.</li>\n</ol>\n\n<p>No <code>__init__</code> method is needed because the array is fully initialized\nafter the <code>__new__</code> method.</p>\n\n<h6 id=\"examples\">Examples</h6>\n\n<p>These examples illustrate the low-level <code>ndarray</code> constructor.  Refer\nto the <code>See Also</code> section above for easier ways of constructing an\nndarray.</p>\n\n<p>First mode, <code>buffer</code> is None:</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"gp\">&gt;&gt;&gt; </span><span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">ndarray</span><span class=\"p\">(</span><span class=\"n\">shape</span><span class=\"o\">=</span><span class=\"p\">(</span><span class=\"mi\">2</span><span class=\"p\">,</span><span class=\"mi\">2</span><span class=\"p\">),</span> <span class=\"n\">dtype</span><span class=\"o\">=</span><span class=\"nb\">float</span><span class=\"p\">,</span> <span class=\"n\">order</span><span class=\"o\">=</span><span class=\"s1\">&#39;F&#39;</span><span class=\"p\">)</span>\n<span class=\"go\">array([[0.0e+000, 0.0e+000], # random</span>\n<span class=\"go\">       [     nan, 2.5e-323]])</span>\n</code></pre></div>\n\n<p>Second mode:</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"gp\">&gt;&gt;&gt; </span><span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">ndarray</span><span class=\"p\">((</span><span class=\"mi\">2</span><span class=\"p\">,),</span> <span class=\"n\">buffer</span><span class=\"o\">=</span><span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">array</span><span class=\"p\">([</span><span class=\"mi\">1</span><span class=\"p\">,</span><span class=\"mi\">2</span><span class=\"p\">,</span><span class=\"mi\">3</span><span class=\"p\">]),</span>\n<span class=\"gp\">... </span>           <span class=\"n\">offset</span><span class=\"o\">=</span><span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">int_</span><span class=\"p\">()</span><span class=\"o\">.</span><span class=\"n\">itemsize</span><span class=\"p\">,</span>\n<span class=\"gp\">... </span>           <span class=\"n\">dtype</span><span class=\"o\">=</span><span class=\"nb\">int</span><span class=\"p\">)</span> <span class=\"c1\"># offset = 1*itemsize, i.e. skip first element</span>\n<span class=\"go\">array([2, 3])</span>\n</code></pre></div>\n", "bases": "numpy.ndarray"}, "pyerrors.input.hadrons.Npr_matrix.__init__": {"fullname": "pyerrors.input.hadrons.Npr_matrix.__init__", "modulename": "pyerrors.input.hadrons", "qualname": "Npr_matrix.__init__", "type": "function", "doc": "<p></p>\n", "signature": "()", "funcdef": "def"}, "pyerrors.input.hadrons.Npr_matrix.g5H": {"fullname": "pyerrors.input.hadrons.Npr_matrix.g5H", "modulename": "pyerrors.input.hadrons", "qualname": "Npr_matrix.g5H", "type": "variable", "doc": "<p>Gamma_5 hermitean conjugate</p>\n\n<p>Uses the fact that the propagator is gamma5 hermitean, so just the\nin and out momenta of the propagator are exchanged.</p>\n"}, "pyerrors.input.hadrons.read_ExternalLeg_hd5": {"fullname": "pyerrors.input.hadrons.read_ExternalLeg_hd5", "modulename": "pyerrors.input.hadrons", "qualname": "read_ExternalLeg_hd5", "type": "function", "doc": "<p>Read hadrons ExternalLeg hdf5 file and output an array of CObs</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath to the files to read</li>\n<li><strong>filestem</strong> (str):\nnamestem of the files to read</li>\n<li><strong>ens_id</strong> (str):\nname of the ensemble, required for internal bookkeeping</li>\n<li><strong>idl</strong> (range):\nIf specified only configurations in the given range are read in.</li>\n</ul>\n", "signature": "(path, filestem, ens_id, idl=None)", "funcdef": "def"}, "pyerrors.input.hadrons.read_Bilinear_hd5": {"fullname": "pyerrors.input.hadrons.read_Bilinear_hd5", "modulename": "pyerrors.input.hadrons", "qualname": "read_Bilinear_hd5", "type": "function", "doc": "<p>Read hadrons Bilinear hdf5 file and output an array of CObs</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath to the files to read</li>\n<li><strong>filestem</strong> (str):\nnamestem of the files to read</li>\n<li><strong>ens_id</strong> (str):\nname of the ensemble, required for internal bookkeeping</li>\n<li><strong>idl</strong> (range):\nIf specified only configurations in the given range are read in.</li>\n</ul>\n", "signature": "(path, filestem, ens_id, idl=None)", "funcdef": "def"}, "pyerrors.input.hadrons.read_Fourquark_hd5": {"fullname": "pyerrors.input.hadrons.read_Fourquark_hd5", "modulename": "pyerrors.input.hadrons", "qualname": "read_Fourquark_hd5", "type": "function", "doc": "<p>Read hadrons FourquarkFullyConnected hdf5 file and output an array of CObs</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath to the files to read</li>\n<li><strong>filestem</strong> (str):\nnamestem of the files to read</li>\n<li><strong>ens_id</strong> (str):\nname of the ensemble, required for internal bookkeeping</li>\n<li><strong>idl</strong> (range):\nIf specified only configurations in the given range are read in.</li>\n<li><strong>vertices</strong> (list):\nVertex functions to be extracted.</li>\n</ul>\n", "signature": "(path, filestem, ens_id, idl=None, vertices=['VA', 'AV'])", "funcdef": "def"}, "pyerrors.input.json": {"fullname": "pyerrors.input.json", "modulename": "pyerrors.input.json", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.json.create_json_string": {"fullname": "pyerrors.input.json.create_json_string", "modulename": "pyerrors.input.json", "qualname": "create_json_string", "type": "function", "doc": "<p>Generate the string for the export of a list of Obs or structures containing Obs\nto a .json(.gz) file</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>ol</strong> (list):\nList of objects that will be exported. At the moment, these objects can be\neither of: Obs, list, numpy.ndarray, Corr.\nAll Obs inside a structure have to be defined on the same set of configurations.</li>\n<li><strong>description</strong> (str):\nOptional string that describes the contents of the json file.</li>\n<li><strong>indent</strong> (int):\nSpecify the indentation level of the json file. None or 0 is permissible and\nsaves disk space.</li>\n</ul>\n", "signature": "(ol, description='', indent=1)", "funcdef": "def"}, "pyerrors.input.json.dump_to_json": {"fullname": "pyerrors.input.json.dump_to_json", "modulename": "pyerrors.input.json", "qualname": "dump_to_json", "type": "function", "doc": "<p>Export a list of Obs or structures containing Obs to a .json(.gz) file</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>ol</strong> (list):\nList of objects that will be exported. At the moment, these objects can be\neither of: Obs, list, numpy.ndarray, Corr.\nAll Obs inside a structure have to be defined on the same set of configurations.</li>\n<li><strong>fname</strong> (str):\nFilename of the output file.</li>\n<li><strong>description</strong> (str):\nOptional string that describes the contents of the json file.</li>\n<li><strong>indent</strong> (int):\nSpecify the indentation level of the json file. None or 0 is permissible and\nsaves disk space.</li>\n<li><strong>gz</strong> (bool):\nIf True, the output is a gzipped json. If False, the output is a json file.</li>\n</ul>\n", "signature": "(ol, fname, description='', indent=1, gz=True)", "funcdef": "def"}, "pyerrors.input.json.import_json_string": {"fullname": "pyerrors.input.json.import_json_string", "modulename": "pyerrors.input.json", "qualname": "import_json_string", "type": "function", "doc": "<p>Reconstruct a list of Obs or structures containing Obs from a json string.</p>\n\n<p>The following structures are supported: Obs, list, numpy.ndarray, Corr\nIf the list contains only one element, it is unpacked from the list.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>json_string</strong> (str):\njson string containing the data.</li>\n<li><strong>verbose</strong> (bool):\nPrint additional information that was written to the file.</li>\n<li><strong>full_output</strong> (bool):\nIf True, a dict containing auxiliary information and the data is returned.\nIf False, only the data is returned.</li>\n</ul>\n", "signature": "(json_string, verbose=True, full_output=False)", "funcdef": "def"}, "pyerrors.input.json.load_json": {"fullname": "pyerrors.input.json.load_json", "modulename": "pyerrors.input.json", "qualname": "load_json", "type": "function", "doc": "<p>Import a list of Obs or structures containing Obs from a .json(.gz) file.</p>\n\n<p>The following structures are supported: Obs, list, numpy.ndarray, Corr\nIf the list contains only one element, it is unpacked from the list.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>fname</strong> (str):\nFilename of the input file.</li>\n<li><strong>verbose</strong> (bool):\nPrint additional information that was written to the file.</li>\n<li><strong>gz</strong> (bool):\nIf True, assumes that data is gzipped. If False, assumes JSON file.</li>\n<li><strong>full_output</strong> (bool):\nIf True, a dict containing auxiliary information and the data is returned.\nIf False, only the data is returned.</li>\n</ul>\n", "signature": "(fname, verbose=True, gz=True, full_output=False)", "funcdef": "def"}, "pyerrors.input.json.dump_dict_to_json": {"fullname": "pyerrors.input.json.dump_dict_to_json", "modulename": "pyerrors.input.json", "qualname": "dump_dict_to_json", "type": "function", "doc": "<p>Export a dict of Obs or structures containing Obs to a .json(.gz) file</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>od</strong> (dict):\nDict of JSON valid structures and objects that will be exported.\nAt the moment, these objects can be either of: Obs, list, numpy.ndarray, Corr.\nAll Obs inside a structure have to be defined on the same set of configurations.</li>\n<li><strong>fname</strong> (str):\nFilename of the output file.</li>\n<li><strong>description</strong> (str):\nOptional string that describes the contents of the json file.</li>\n<li><strong>indent</strong> (int):\nSpecify the indentation level of the json file. None or 0 is permissible and\nsaves disk space.</li>\n<li><strong>reps</strong> (str):\nSpecify the structure of the placeholder in exported dict to be reps[0-9]+.</li>\n<li><strong>gz</strong> (bool):\nIf True, the output is a gzipped json. If False, the output is a json file.</li>\n</ul>\n", "signature": "(od, fname, description='', indent=1, reps='DICTOBS', gz=True)", "funcdef": "def"}, "pyerrors.input.json.load_json_dict": {"fullname": "pyerrors.input.json.load_json_dict", "modulename": "pyerrors.input.json", "qualname": "load_json_dict", "type": "function", "doc": "<p>Import a dict of Obs or structures containing Obs from a .json(.gz) file.</p>\n\n<p>The following structures are supported: Obs, list, numpy.ndarray, Corr</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>fname</strong> (str):\nFilename of the input file.</li>\n<li><strong>verbose</strong> (bool):\nPrint additional information that was written to the file.</li>\n<li><strong>gz</strong> (bool):\nIf True, assumes that data is gzipped. If False, assumes JSON file.</li>\n<li><strong>full_output</strong> (bool):\nIf True, a dict containing auxiliary information and the data is returned.\nIf False, only the data is returned.</li>\n<li><strong>reps</strong> (str):\nSpecify the structure of the placeholder in imported dict to be reps[0-9]+.</li>\n</ul>\n", "signature": "(fname, verbose=True, gz=True, full_output=False, reps='DICTOBS')", "funcdef": "def"}, "pyerrors.input.misc": {"fullname": "pyerrors.input.misc", "modulename": "pyerrors.input.misc", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.misc.read_pbp": {"fullname": "pyerrors.input.misc.read_pbp", "modulename": "pyerrors.input.misc", "qualname": "read_pbp", "type": "function", "doc": "<p>Read pbp format from given folder structure. Returns a list of length nrw</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>r_start</strong> (list):\nlist which contains the first config to be read for each replicum</li>\n<li><strong>r_stop</strong> (list):\nlist which contains the last config to be read for each replicum</li>\n</ul>\n", "signature": "(path, prefix, **kwargs)", "funcdef": "def"}, "pyerrors.input.openQCD": {"fullname": "pyerrors.input.openQCD", "modulename": "pyerrors.input.openQCD", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.openQCD.read_rwms": {"fullname": "pyerrors.input.openQCD.read_rwms", "modulename": "pyerrors.input.openQCD", "qualname": "read_rwms", "type": "function", "doc": "<p>Read rwms format from given folder structure. Returns a list of length nrw</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath that contains the data files</li>\n<li><strong>prefix</strong> (str):\nall files in path that start with prefix are considered as input files.\nMay be used together postfix to consider only special file endings.\nPrefix is ignored, if the keyword 'files' is used.</li>\n<li><strong>version</strong> (str):\nversion of openQCD, default 2.0</li>\n<li><strong>names</strong> (list):\nlist of names that is assigned to the data according according\nto the order in the file list. Use careful, if you do not provide file names!</li>\n<li><strong>r_start</strong> (list):\nlist which contains the first config to be read for each replicum</li>\n<li><strong>r_stop</strong> (list):\nlist which contains the last config to be read for each replicum</li>\n<li><strong>r_step</strong> (int):\ninteger that defines a fixed step size between two measurements (in units of configs)\nIf not given, r_step=1 is assumed.</li>\n<li><strong>postfix</strong> (str):\npostfix of the file to read, e.g. '.ms1' for openQCD-files</li>\n<li><strong>files</strong> (list):\nlist which contains the filenames to be read. No automatic detection of\nfiles performed if given.</li>\n<li><strong>print_err</strong> (bool):\nPrint additional information that is useful for debugging.</li>\n</ul>\n", "signature": "(path, prefix, version='2.0', names=None, **kwargs)", "funcdef": "def"}, "pyerrors.input.openQCD.extract_t0": {"fullname": "pyerrors.input.openQCD.extract_t0", "modulename": "pyerrors.input.openQCD", "qualname": "extract_t0", "type": "function", "doc": "<p>Extract t0 from given .ms.dat files. Returns t0 as Obs.</p>\n\n<p>It is assumed that all boundary effects have\nsufficiently decayed at x0=xmin.\nThe data around the zero crossing of t^2<E> - 0.3\nis fitted with a linear function\nfrom which the exact root is extracted.</p>\n\n<p>It is assumed that one measurement is performed for each config.\nIf this is not the case, the resulting idl, as well as the handling\nof r_start, r_stop and r_step is wrong and the user has to correct\nthis in the resulting observable.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\nPath to .ms.dat files</li>\n<li><strong>prefix</strong> (str):\nEnsemble prefix</li>\n<li><strong>dtr_read</strong> (int):\nDetermines how many trajectories should be skipped\nwhen reading the ms.dat files.\nCorresponds to dtr_cnfg / dtr_ms in the openQCD input file.</li>\n<li><strong>xmin</strong> (int):\nFirst timeslice where the boundary\neffects have sufficiently decayed.</li>\n<li><strong>spatial_extent</strong> (int):\nspatial extent of the lattice, required for normalization.</li>\n<li><strong>fit_range</strong> (int):\nNumber of data points left and right of the zero\ncrossing to be included in the linear fit. (Default: 5)</li>\n<li><strong>r_start</strong> (list):\nlist which contains the first config to be read for each replicum.</li>\n<li><strong>r_stop</strong> (list):\nlist which contains the last config to be read for each replicum.</li>\n<li><strong>r_step</strong> (int):\ninteger that defines a fixed step size between two measurements (in units of configs)\nIf not given, r_step=1 is assumed.</li>\n<li><strong>plaquette</strong> (bool):\nIf true extract the plaquette estimate of t0 instead.</li>\n<li><strong>names</strong> (list):\nlist of names that is assigned to the data according according\nto the order in the file list. Use careful, if you do not provide file names!</li>\n<li><strong>files</strong> (list):\nlist which contains the filenames to be read. No automatic detection of\nfiles performed if given.</li>\n<li><strong>plot_fit</strong> (bool):\nIf true, the fit for the extraction of t0 is shown together with the data.</li>\n<li><strong>assume_thermalization</strong> (bool):\nIf True: If the first record divided by the distance between two measurements is larger than\n1, it is assumed that this is due to thermalization and the first measurement belongs\nto the first config (default).\nIf False: The config numbers are assumed to be traj_number // difference</li>\n</ul>\n", "signature": "(path, prefix, dtr_read, xmin, spatial_extent, fit_range=5, **kwargs)", "funcdef": "def"}, "pyerrors.input.openQCD.read_qtop": {"fullname": "pyerrors.input.openQCD.read_qtop", "modulename": "pyerrors.input.openQCD", "qualname": "read_qtop", "type": "function", "doc": "<p>Read the topologial charge based on openQCD gradient flow measurements.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath of the measurement files</li>\n<li><strong>prefix</strong> (str):\nprefix of the measurement files, e.g. <prefix>_id0_r0.ms.dat.\nIgnored if file names are passed explicitly via keyword files.</li>\n<li><strong>c</strong> (double):\nSmearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</li>\n<li><strong>dtr_cnfg</strong> (int):\n(optional) parameter that specifies the number of measurements\nbetween two configs.\nIf it is not set, the distance between two measurements\nin the file is assumed to be the distance between two configurations.</li>\n<li><strong>steps</strong> (int):\n(optional) Distance between two configurations in units of trajectories /\ncycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</li>\n<li><strong>version</strong> (str):\nEither openQCD or sfqcd, depending on the data.</li>\n<li><strong>L</strong> (int):\nspatial length of the lattice in L/a.\nHAS to be set if version != sfqcd, since openQCD does not provide\nthis in the header</li>\n<li><strong>r_start</strong> (list):\nlist which contains the first config to be read for each replicum.</li>\n<li><strong>r_stop</strong> (list):\nlist which contains the last config to be read for each replicum.</li>\n<li><strong>files</strong> (list):\nspecify the exact files that need to be read\nfrom path, practical if e.g. only one replicum is needed</li>\n<li><strong>names</strong> (list):\nAlternative labeling for replicas/ensembles.\nHas to have the appropriate length.</li>\n<li><strong>Zeuthen_flow</strong> (bool):\n(optional) If True, the Zeuthen flow is used for Qtop. Only possible\nfor version=='sfqcd' If False, the Wilson flow is used.</li>\n<li><strong>integer_charge</strong> (bool):\nIf True, the charge is rounded towards the nearest integer on each config.</li>\n</ul>\n", "signature": "(path, prefix, c, dtr_cnfg=1, version='openQCD', **kwargs)", "funcdef": "def"}, "pyerrors.input.openQCD.qtop_projection": {"fullname": "pyerrors.input.openQCD.qtop_projection", "modulename": "pyerrors.input.openQCD", "qualname": "qtop_projection", "type": "function", "doc": "<p>Returns the projection to the topological charge sector defined by target.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (Obs):\nTopological charge.</li>\n<li><strong>target</strong> (int):\nSpecifies the topological sector to be reweighted to (default 0)</li>\n</ul>\n", "signature": "(qtop, target=0)", "funcdef": "def"}, "pyerrors.input.openQCD.read_qtop_sector": {"fullname": "pyerrors.input.openQCD.read_qtop_sector", "modulename": "pyerrors.input.openQCD", "qualname": "read_qtop_sector", "type": "function", "doc": "<p>Constructs reweighting factors to a specified topological sector.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath of the measurement files</li>\n<li><strong>prefix</strong> (str):\nprefix of the measurement files, e.g. <prefix>_id0_r0.ms.dat</li>\n<li><strong>c</strong> (double):\nSmearing radius in units of the lattice extent, c = sqrt(8 t0) / L</li>\n<li><strong>target</strong> (int):\nSpecifies the topological sector to be reweighted to (default 0)</li>\n<li><strong>dtr_cnfg</strong> (int):\n(optional) parameter that specifies the number of trajectories\nbetween two configs.\nif it is not set, the distance between two measurements\nin the file is assumed to be the distance between two configurations.</li>\n<li><strong>steps</strong> (int):\n(optional) Distance between two configurations in units of trajectories /\ncycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</li>\n<li><strong>version</strong> (str):\nversion string of the openQCD (sfqcd) version used to create\nthe ensemble. Default is 2.0. May also be set to sfqcd.</li>\n<li><strong>L</strong> (int):\nspatial length of the lattice in L/a.\nHAS to be set if version != sfqcd, since openQCD does not provide\nthis in the header</li>\n<li><strong>r_start</strong> (list):\noffset of the first ensemble, making it easier to match\nlater on with other Obs</li>\n<li><strong>r_stop</strong> (list):\nlast configurations that need to be read (per replicum)</li>\n<li><strong>files</strong> (list):\nspecify the exact files that need to be read\nfrom path, practical if e.g. only one replicum is needed</li>\n<li><strong>names</strong> (list):\nAlternative labeling for replicas/ensembles.\nHas to have the appropriate length</li>\n<li><strong>Zeuthen_flow</strong> (bool):\n(optional) If True, the Zeuthen flow is used for Qtop. Only possible\nfor version=='sfqcd' If False, the Wilson flow is used.</li>\n</ul>\n", "signature": "(path, prefix, c, target=0, **kwargs)", "funcdef": "def"}, "pyerrors.input.sfcf": {"fullname": "pyerrors.input.sfcf", "modulename": "pyerrors.input.sfcf", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.sfcf.read_sfcf": {"fullname": "pyerrors.input.sfcf.read_sfcf", "modulename": "pyerrors.input.sfcf", "qualname": "read_sfcf", "type": "function", "doc": "<p>Read sfcf c format from given folder structure.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>quarks</strong> (str):\nLabel of the quarks used in the sfcf input file. e.g. \"quark quark\"\nfor version 0.0 this does NOT need to be given with the typical \" - \"\nthat is present in the output file,\nthis is done automatically for this version</li>\n<li><strong>noffset</strong> (int):\nOffset of the source (only relevant when wavefunctions are used)</li>\n<li><strong>wf</strong> (int):\nID of wave function</li>\n<li><strong>wf2</strong> (int):\nID of the second wavefunction\n(only relevant for boundary-to-boundary correlation functions)</li>\n<li><strong>im</strong> (bool):\nif True, read imaginary instead of real part\nof the correlation function.</li>\n<li><strong>corr_type</strong> (str):\nchange between bi (boundary - inner) (default) bib (boundary - inner - boundary) and bb (boundary - boundary)\ncorrelator types</li>\n<li><strong>names</strong> (list):\nAlternative labeling for replicas/ensembles.\nHas to have the appropriate length</li>\n<li><strong>ens_name</strong> (str):\nreplaces the name of the ensemble</li>\n<li><strong>version</strong> (str):\nversion of SFCF, with which the measurement was done.\nif the compact output option (-c) was specified,\nappend a \"c\" to the version (e.g. \"1.0c\")\nif the append output option (-a) was specified,\nappend an \"a\" to the version</li>\n<li><strong>cfg_separator</strong> (str):\nString that separates the ensemble identifier from the configuration number (default 'n').</li>\n<li><strong>replica</strong> (list):\nlist of replica to be read, default is all</li>\n<li><strong>files</strong> (list):\nlist of files to be read per replica, default is all.\nfor non-compact output format, hand the folders to be read here.</li>\n<li><strong>check_configs:</strong>: list of list of supposed configs, eg. [range(1,1000)]\nfor one replicum with 1000 configs</li>\n</ul>\n", "signature": "(\n    path,\n    prefix,\n    name,\n    quarks='.*',\n    corr_type='bi',\n    noffset=0,\n    wf=0,\n    wf2=0,\n    version='1.0c',\n    cfg_separator='n',\n    **kwargs\n)", "funcdef": "def"}, "pyerrors.input.utils": {"fullname": "pyerrors.input.utils", "modulename": "pyerrors.input.utils", "type": "module", "doc": "<p>Utilities for the input</p>\n"}, "pyerrors.input.utils.check_idl": {"fullname": "pyerrors.input.utils.check_idl", "modulename": "pyerrors.input.utils", "qualname": "check_idl", "type": "function", "doc": "<p>Checks if list of configurations is contained in an idl</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>idl</strong> (range or list):\nidl of the current replicum</li>\n<li><strong>che</strong> (list):\nlist of configurations to be checked against</li>\n</ul>\n", "signature": "(idl, che)", "funcdef": "def"}, "pyerrors.linalg": {"fullname": "pyerrors.linalg", "modulename": "pyerrors.linalg", "type": "module", "doc": "<p></p>\n"}, "pyerrors.linalg.matmul": {"fullname": "pyerrors.linalg.matmul", "modulename": "pyerrors.linalg", "qualname": "matmul", "type": "function", "doc": "<p>Matrix multiply all operands.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>operands</strong> (numpy.ndarray):\nArbitrary number of 2d-numpy arrays which can be real or complex\nObs valued.</li>\n<li><strong>This implementation is faster compared to standard multiplication via the @ operator.</strong></li>\n</ul>\n", "signature": "(*operands)", "funcdef": "def"}, "pyerrors.linalg.jack_matmul": {"fullname": "pyerrors.linalg.jack_matmul", "modulename": "pyerrors.linalg", "qualname": "jack_matmul", "type": "function", "doc": "<p>Matrix multiply both operands making use of the jackknife approximation.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>operands</strong> (numpy.ndarray):\nArbitrary number of 2d-numpy arrays which can be real or complex\nObs valued.</li>\n<li><strong>For large matrices this is considerably faster compared to matmul.</strong></li>\n</ul>\n", "signature": "(*operands)", "funcdef": "def"}, "pyerrors.linalg.einsum": {"fullname": "pyerrors.linalg.einsum", "modulename": "pyerrors.linalg", "qualname": "einsum", "type": "function", "doc": "<p>Wrapper for numpy.einsum</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>subscripts</strong> (str):\nSubscripts for summation (see numpy documentation for details)</li>\n<li><strong>operands</strong> (numpy.ndarray):\nArbitrary number of 2d-numpy arrays which can be real or complex\nObs valued.</li>\n</ul>\n", "signature": "(subscripts, *operands)", "funcdef": "def"}, "pyerrors.linalg.inv": {"fullname": "pyerrors.linalg.inv", "modulename": "pyerrors.linalg", "qualname": "inv", "type": "function", "doc": "<p>Inverse of Obs or CObs valued matrices.</p>\n", "signature": "(x)", "funcdef": "def"}, "pyerrors.linalg.cholesky": {"fullname": "pyerrors.linalg.cholesky", "modulename": "pyerrors.linalg", "qualname": "cholesky", "type": "function", "doc": "<p>Cholesky decomposition of Obs valued matrices.</p>\n", "signature": "(x)", "funcdef": "def"}, "pyerrors.linalg.det": {"fullname": "pyerrors.linalg.det", "modulename": "pyerrors.linalg", "qualname": "det", "type": "function", "doc": "<p>Determinant of Obs valued matrices.</p>\n", "signature": "(x)", "funcdef": "def"}, "pyerrors.linalg.eigh": {"fullname": "pyerrors.linalg.eigh", "modulename": "pyerrors.linalg", "qualname": "eigh", "type": "function", "doc": "<p>Computes the eigenvalues and eigenvectors of a given hermitian matrix of Obs according to np.linalg.eigh.</p>\n", "signature": "(obs, **kwargs)", "funcdef": "def"}, "pyerrors.linalg.eig": {"fullname": "pyerrors.linalg.eig", "modulename": "pyerrors.linalg", "qualname": "eig", "type": "function", "doc": "<p>Computes the eigenvalues of a given matrix of Obs according to np.linalg.eig.</p>\n", "signature": "(obs, **kwargs)", "funcdef": "def"}, "pyerrors.linalg.pinv": {"fullname": "pyerrors.linalg.pinv", "modulename": "pyerrors.linalg", "qualname": "pinv", "type": "function", "doc": "<p>Computes the Moore-Penrose pseudoinverse of a matrix of Obs.</p>\n", "signature": "(obs, **kwargs)", "funcdef": "def"}, "pyerrors.linalg.svd": {"fullname": "pyerrors.linalg.svd", "modulename": "pyerrors.linalg", "qualname": "svd", "type": "function", "doc": "<p>Computes the singular value decomposition of a matrix of Obs.</p>\n", "signature": "(obs, **kwargs)", "funcdef": "def"}, "pyerrors.misc": {"fullname": "pyerrors.misc", "modulename": "pyerrors.misc", "type": "module", "doc": "<p></p>\n"}, "pyerrors.misc.dump_object": {"fullname": "pyerrors.misc.dump_object", "modulename": "pyerrors.misc", "qualname": "dump_object", "type": "function", "doc": "<p>Dump object into pickle file.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obj</strong> (object):\nobject to be saved in the pickle file</li>\n<li><strong>name</strong> (str):\nname of the file</li>\n<li><strong>path</strong> (str):\nspecifies a custom path for the file (default '.')</li>\n</ul>\n", "signature": "(obj, name, **kwargs)", "funcdef": "def"}, "pyerrors.misc.load_object": {"fullname": "pyerrors.misc.load_object", "modulename": "pyerrors.misc", "qualname": "load_object", "type": "function", "doc": "<p>Load object from pickle file.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath to the file</li>\n</ul>\n", "signature": "(path)", "funcdef": "def"}, "pyerrors.misc.pseudo_Obs": {"fullname": "pyerrors.misc.pseudo_Obs", "modulename": "pyerrors.misc", "qualname": "pseudo_Obs", "type": "function", "doc": "<p>Generate an Obs object with given value, dvalue and name for test purposes</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>value</strong> (float):\ncentral value of the Obs to be generated.</li>\n<li><strong>dvalue</strong> (float):\nerror of the Obs to be generated.</li>\n<li><strong>name</strong> (str):\nname of the ensemble for which the Obs is to be generated.</li>\n<li><strong>samples</strong> (int):\nnumber of samples for the Obs (default 1000).</li>\n</ul>\n", "signature": "(value, dvalue, name, samples=1000)", "funcdef": "def"}, "pyerrors.misc.gen_correlated_data": {"fullname": "pyerrors.misc.gen_correlated_data", "modulename": "pyerrors.misc", "qualname": "gen_correlated_data", "type": "function", "doc": "<p>Generate observables with given covariance and autocorrelation times.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>means</strong> (list):\nlist containing the mean value of each observable.</li>\n<li><strong>cov</strong> (numpy.ndarray):\ncovariance matrix for the data to be generated.</li>\n<li><strong>name</strong> (str):\nensemble name for the data to be geneated.</li>\n<li><strong>tau</strong> (float or list):\ncan either be a real number or a list with an entry for\nevery dataset.</li>\n<li><strong>samples</strong> (int):\nnumber of samples to be generated for each observable.</li>\n</ul>\n", "signature": "(means, cov, name, tau=0.5, samples=1000)", "funcdef": "def"}, "pyerrors.mpm": {"fullname": "pyerrors.mpm", "modulename": "pyerrors.mpm", "type": "module", "doc": "<p></p>\n"}, "pyerrors.mpm.matrix_pencil_method": {"fullname": "pyerrors.mpm.matrix_pencil_method", "modulename": "pyerrors.mpm", "qualname": "matrix_pencil_method", "type": "function", "doc": "<p>Matrix pencil method to extract k energy levels from data</p>\n\n<p>Implementation of the matrix pencil method based on\neq. (2.17) of Y. Hua, T. K. Sarkar, IEEE Trans. Acoust. 38, 814-824 (1990)</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>data</strong> (list):\ncan be a list of Obs for the analysis of a single correlator, or a list of lists\nof Obs if several correlators are to analyzed at once.</li>\n<li><strong>k</strong> (int):\nNumber of states to extract (default 1).</li>\n<li><strong>p</strong> (int):\nmatrix pencil parameter which filters noise. The optimal value is expected between\nlen(data)/3 and 2*len(data)/3. The computation is more expensive the closer p is\nto len(data)/2 but could possibly suppress more noise (default len(data)//2).</li>\n</ul>\n", "signature": "(corrs, k=1, p=None, **kwargs)", "funcdef": "def"}, "pyerrors.obs": {"fullname": "pyerrors.obs", "modulename": "pyerrors.obs", "type": "module", "doc": "<p></p>\n"}, "pyerrors.obs.Obs": {"fullname": "pyerrors.obs.Obs", "modulename": "pyerrors.obs", "qualname": "Obs", "type": "class", "doc": "<p>Class for a general observable.</p>\n\n<p>Instances of Obs are the basic objects of a pyerrors error analysis.\nThey are initialized with a list which contains arrays of samples for\ndifferent ensembles/replica and another list of same length which contains\nthe names of the ensembles/replica. Mathematical operations can be\nperformed on instances. The result is another instance of Obs. The error of\nan instance can be computed with the gamma_method. Also contains additional\nmethods for output and visualization of the error calculation.</p>\n\n<h6 id=\"attributes\">Attributes</h6>\n\n<ul>\n<li><strong>S_global</strong> (float):\nStandard value for S (default 2.0)</li>\n<li><strong>S_dict</strong> (dict):\nDictionary for S values. If an entry for a given ensemble\nexists this overwrites the standard value for that ensemble.</li>\n<li><strong>tau_exp_global</strong> (float):\nStandard value for tau_exp (default 0.0)</li>\n<li><strong>tau_exp_dict</strong> (dict):\nDictionary for tau_exp values. If an entry for a given ensemble exists\nthis overwrites the standard value for that ensemble.</li>\n<li><strong>N_sigma_global</strong> (float):\nStandard value for N_sigma (default 1.0)</li>\n<li><strong>N_sigma_dict</strong> (dict):\nDictionary for N_sigma values. If an entry for a given ensemble exists\nthis overwrites the standard value for that ensemble.</li>\n</ul>\n"}, "pyerrors.obs.Obs.__init__": {"fullname": "pyerrors.obs.Obs.__init__", "modulename": "pyerrors.obs", "qualname": "Obs.__init__", "type": "function", "doc": "<p>Initialize Obs object.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>samples</strong> (list):\nlist of numpy arrays containing the Monte Carlo samples</li>\n<li><strong>names</strong> (list):\nlist of strings labeling the individual samples</li>\n<li><strong>idl</strong> (list, optional):\nlist of ranges or lists on which the samples are defined</li>\n</ul>\n", "signature": "(self, samples, names, idl=None, **kwargs)", "funcdef": "def"}, "pyerrors.obs.Obs.S_global": {"fullname": "pyerrors.obs.Obs.S_global", "modulename": "pyerrors.obs", "qualname": "Obs.S_global", "type": "variable", "doc": "<p></p>\n", "default_value": " = 2.0"}, "pyerrors.obs.Obs.S_dict": {"fullname": "pyerrors.obs.Obs.S_dict", "modulename": "pyerrors.obs", "qualname": "Obs.S_dict", "type": "variable", "doc": "<p></p>\n", "default_value": " = {}"}, "pyerrors.obs.Obs.tau_exp_global": {"fullname": "pyerrors.obs.Obs.tau_exp_global", "modulename": "pyerrors.obs", "qualname": "Obs.tau_exp_global", "type": "variable", "doc": "<p></p>\n", "default_value": " = 0.0"}, "pyerrors.obs.Obs.tau_exp_dict": {"fullname": "pyerrors.obs.Obs.tau_exp_dict", "modulename": "pyerrors.obs", "qualname": "Obs.tau_exp_dict", "type": "variable", "doc": "<p></p>\n", "default_value": " = {}"}, "pyerrors.obs.Obs.N_sigma_global": {"fullname": "pyerrors.obs.Obs.N_sigma_global", "modulename": "pyerrors.obs", "qualname": "Obs.N_sigma_global", "type": "variable", "doc": "<p></p>\n", "default_value": " = 1.0"}, "pyerrors.obs.Obs.N_sigma_dict": {"fullname": "pyerrors.obs.Obs.N_sigma_dict", "modulename": "pyerrors.obs", "qualname": "Obs.N_sigma_dict", "type": "variable", "doc": "<p></p>\n", "default_value": " = {}"}, "pyerrors.obs.Obs.filter_eps": {"fullname": "pyerrors.obs.Obs.filter_eps", "modulename": "pyerrors.obs", "qualname": "Obs.filter_eps", "type": "variable", "doc": "<p></p>\n", "default_value": " = 1e-10"}, "pyerrors.obs.Obs.names": {"fullname": "pyerrors.obs.Obs.names", "modulename": "pyerrors.obs", "qualname": "Obs.names", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.shape": {"fullname": "pyerrors.obs.Obs.shape", "modulename": "pyerrors.obs", "qualname": "Obs.shape", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.r_values": {"fullname": "pyerrors.obs.Obs.r_values", "modulename": "pyerrors.obs", "qualname": "Obs.r_values", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.deltas": {"fullname": "pyerrors.obs.Obs.deltas", "modulename": "pyerrors.obs", "qualname": "Obs.deltas", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.N": {"fullname": "pyerrors.obs.Obs.N", "modulename": "pyerrors.obs", "qualname": "Obs.N", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.is_merged": {"fullname": "pyerrors.obs.Obs.is_merged", "modulename": "pyerrors.obs", "qualname": "Obs.is_merged", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.idl": {"fullname": "pyerrors.obs.Obs.idl", "modulename": "pyerrors.obs", "qualname": "Obs.idl", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.ddvalue": {"fullname": "pyerrors.obs.Obs.ddvalue", "modulename": "pyerrors.obs", "qualname": "Obs.ddvalue", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.reweighted": {"fullname": "pyerrors.obs.Obs.reweighted", "modulename": "pyerrors.obs", "qualname": "Obs.reweighted", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.tag": {"fullname": "pyerrors.obs.Obs.tag", "modulename": "pyerrors.obs", "qualname": "Obs.tag", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.value": {"fullname": "pyerrors.obs.Obs.value", "modulename": "pyerrors.obs", "qualname": "Obs.value", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.dvalue": {"fullname": "pyerrors.obs.Obs.dvalue", "modulename": "pyerrors.obs", "qualname": "Obs.dvalue", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_names": {"fullname": "pyerrors.obs.Obs.e_names", "modulename": "pyerrors.obs", "qualname": "Obs.e_names", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.cov_names": {"fullname": "pyerrors.obs.Obs.cov_names", "modulename": "pyerrors.obs", "qualname": "Obs.cov_names", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.mc_names": {"fullname": "pyerrors.obs.Obs.mc_names", "modulename": "pyerrors.obs", "qualname": "Obs.mc_names", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_content": {"fullname": "pyerrors.obs.Obs.e_content", "modulename": "pyerrors.obs", "qualname": "Obs.e_content", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.covobs": {"fullname": "pyerrors.obs.Obs.covobs", "modulename": "pyerrors.obs", "qualname": "Obs.covobs", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.gamma_method": {"fullname": "pyerrors.obs.Obs.gamma_method", "modulename": "pyerrors.obs", "qualname": "Obs.gamma_method", "type": "function", "doc": "<p>Estimate the error and related properties of the Obs.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>S</strong> (float):\nspecifies a custom value for the parameter S (default 2.0).\nIf set to 0 it is assumed that the data exhibits no\nautocorrelation. In this case the error estimates coincides\nwith the sample standard error.</li>\n<li><strong>tau_exp</strong> (float):\npositive value triggers the critical slowing down analysis\n(default 0.0).</li>\n<li><strong>N_sigma</strong> (float):\nnumber of standard deviations from zero until the tail is\nattached to the autocorrelation function (default 1).</li>\n<li><strong>fft</strong> (bool):\ndetermines whether the fft algorithm is used for the computation\nof the autocorrelation function (default True)</li>\n</ul>\n", "signature": "(self, **kwargs)", "funcdef": "def"}, "pyerrors.obs.Obs.details": {"fullname": "pyerrors.obs.Obs.details", "modulename": "pyerrors.obs", "qualname": "Obs.details", "type": "function", "doc": "<p>Output detailed properties of the Obs.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>ens_content</strong> (bool):\nprint details about the ensembles and replica if true.</li>\n</ul>\n", "signature": "(self, ens_content=True)", "funcdef": "def"}, "pyerrors.obs.Obs.is_zero_within_error": {"fullname": "pyerrors.obs.Obs.is_zero_within_error", "modulename": "pyerrors.obs", "qualname": "Obs.is_zero_within_error", "type": "function", "doc": "<p>Checks whether the observable is zero within 'sigma' standard errors.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>sigma</strong> (int):\nNumber of standard errors used for the check.</li>\n<li><strong>Works only properly when the gamma method was run.</strong></li>\n</ul>\n", "signature": "(self, sigma=1)", "funcdef": "def"}, "pyerrors.obs.Obs.is_zero": {"fullname": "pyerrors.obs.Obs.is_zero", "modulename": "pyerrors.obs", "qualname": "Obs.is_zero", "type": "function", "doc": "<p>Checks whether the observable is zero within a given tolerance.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>atol</strong> (float):\nAbsolute tolerance (for details see numpy documentation).</li>\n</ul>\n", "signature": "(self, atol=1e-10)", "funcdef": "def"}, "pyerrors.obs.Obs.plot_tauint": {"fullname": "pyerrors.obs.Obs.plot_tauint", "modulename": "pyerrors.obs", "qualname": "Obs.plot_tauint", "type": "function", "doc": "<p>Plot integrated autocorrelation time for each ensemble.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>save</strong> (str):\nsaves the figure to a file named 'save' if.</li>\n</ul>\n", "signature": "(self, save=None)", "funcdef": "def"}, "pyerrors.obs.Obs.plot_rho": {"fullname": "pyerrors.obs.Obs.plot_rho", "modulename": "pyerrors.obs", "qualname": "Obs.plot_rho", "type": "function", "doc": "<p>Plot normalized autocorrelation function time for each ensemble.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>save</strong> (str):\nsaves the figure to a file named 'save' if.</li>\n</ul>\n", "signature": "(self, save=None)", "funcdef": "def"}, "pyerrors.obs.Obs.plot_rep_dist": {"fullname": "pyerrors.obs.Obs.plot_rep_dist", "modulename": "pyerrors.obs", "qualname": "Obs.plot_rep_dist", "type": "function", "doc": "<p>Plot replica distribution for each ensemble with more than one replicum.</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.plot_history": {"fullname": "pyerrors.obs.Obs.plot_history", "modulename": "pyerrors.obs", "qualname": "Obs.plot_history", "type": "function", "doc": "<p>Plot derived Monte Carlo history for each ensemble</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>expand</strong> (bool):\nshow expanded history for irregular Monte Carlo chains (default: True).</li>\n</ul>\n", "signature": "(self, expand=True)", "funcdef": "def"}, "pyerrors.obs.Obs.plot_piechart": {"fullname": "pyerrors.obs.Obs.plot_piechart", "modulename": "pyerrors.obs", "qualname": "Obs.plot_piechart", "type": "function", "doc": "<p>Plot piechart which shows the fractional contribution of each\nensemble to the error and returns a dictionary containing the fractions.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>save</strong> (str):\nsaves the figure to a file named 'save' if.</li>\n</ul>\n", "signature": "(self, save=None)", "funcdef": "def"}, "pyerrors.obs.Obs.dump": {"fullname": "pyerrors.obs.Obs.dump", "modulename": "pyerrors.obs", "qualname": "Obs.dump", "type": "function", "doc": "<p>Dump the Obs to a file 'name' of chosen format.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>filename</strong> (str):\nname of the file to be saved.</li>\n<li><strong>datatype</strong> (str):\nFormat of the exported file. Supported formats include\n\"json.gz\" and \"pickle\"</li>\n<li><strong>description</strong> (str):\nDescription for output file, only relevant for json.gz format.</li>\n<li><strong>path</strong> (str):\nspecifies a custom path for the file (default '.')</li>\n</ul>\n", "signature": "(self, filename, datatype='json.gz', description='', **kwargs)", "funcdef": "def"}, "pyerrors.obs.Obs.export_jackknife": {"fullname": "pyerrors.obs.Obs.export_jackknife", "modulename": "pyerrors.obs", "qualname": "Obs.export_jackknife", "type": "function", "doc": "<p>Export jackknife samples from the Obs</p>\n\n<h6 id=\"returns\">Returns</h6>\n\n<ul>\n<li><strong>numpy.ndarray</strong>: Returns a numpy array of length N + 1 where N is the number of samples\nfor the given ensemble and replicum. The zeroth entry of the array contains\nthe mean value of the Obs, entries 1 to N contain the N jackknife samples\nderived from the Obs. The current implementation only works for observables\ndefined on exactly one ensemble and replicum. The derived jackknife samples\nshould agree with samples from a full jackknife analysis up to O(1/N).</li>\n</ul>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.sqrt": {"fullname": "pyerrors.obs.Obs.sqrt", "modulename": "pyerrors.obs", "qualname": "Obs.sqrt", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.log": {"fullname": "pyerrors.obs.Obs.log", "modulename": "pyerrors.obs", "qualname": "Obs.log", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.exp": {"fullname": "pyerrors.obs.Obs.exp", "modulename": "pyerrors.obs", "qualname": "Obs.exp", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.sin": {"fullname": "pyerrors.obs.Obs.sin", "modulename": "pyerrors.obs", "qualname": "Obs.sin", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.cos": {"fullname": "pyerrors.obs.Obs.cos", "modulename": "pyerrors.obs", "qualname": "Obs.cos", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.tan": {"fullname": "pyerrors.obs.Obs.tan", "modulename": "pyerrors.obs", "qualname": "Obs.tan", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.arcsin": {"fullname": "pyerrors.obs.Obs.arcsin", "modulename": "pyerrors.obs", "qualname": "Obs.arcsin", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.arccos": {"fullname": "pyerrors.obs.Obs.arccos", "modulename": "pyerrors.obs", "qualname": "Obs.arccos", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.arctan": {"fullname": "pyerrors.obs.Obs.arctan", "modulename": "pyerrors.obs", "qualname": "Obs.arctan", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.sinh": {"fullname": "pyerrors.obs.Obs.sinh", "modulename": "pyerrors.obs", "qualname": "Obs.sinh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.cosh": {"fullname": "pyerrors.obs.Obs.cosh", "modulename": "pyerrors.obs", "qualname": "Obs.cosh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.tanh": {"fullname": "pyerrors.obs.Obs.tanh", "modulename": "pyerrors.obs", "qualname": "Obs.tanh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.arcsinh": {"fullname": "pyerrors.obs.Obs.arcsinh", "modulename": "pyerrors.obs", "qualname": "Obs.arcsinh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.arccosh": {"fullname": "pyerrors.obs.Obs.arccosh", "modulename": "pyerrors.obs", "qualname": "Obs.arccosh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.arctanh": {"fullname": "pyerrors.obs.Obs.arctanh", "modulename": "pyerrors.obs", "qualname": "Obs.arctanh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.N_sigma": {"fullname": "pyerrors.obs.Obs.N_sigma", "modulename": "pyerrors.obs", "qualname": "Obs.N_sigma", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.S": {"fullname": "pyerrors.obs.Obs.S", "modulename": "pyerrors.obs", "qualname": "Obs.S", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_ddvalue": {"fullname": "pyerrors.obs.Obs.e_ddvalue", "modulename": "pyerrors.obs", "qualname": "Obs.e_ddvalue", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_drho": {"fullname": "pyerrors.obs.Obs.e_drho", "modulename": "pyerrors.obs", "qualname": "Obs.e_drho", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_dtauint": {"fullname": "pyerrors.obs.Obs.e_dtauint", "modulename": "pyerrors.obs", "qualname": "Obs.e_dtauint", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_dvalue": {"fullname": "pyerrors.obs.Obs.e_dvalue", "modulename": "pyerrors.obs", "qualname": "Obs.e_dvalue", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_n_dtauint": {"fullname": "pyerrors.obs.Obs.e_n_dtauint", "modulename": "pyerrors.obs", "qualname": "Obs.e_n_dtauint", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_n_tauint": {"fullname": "pyerrors.obs.Obs.e_n_tauint", "modulename": "pyerrors.obs", "qualname": "Obs.e_n_tauint", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_rho": {"fullname": "pyerrors.obs.Obs.e_rho", "modulename": "pyerrors.obs", "qualname": "Obs.e_rho", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_tauint": {"fullname": "pyerrors.obs.Obs.e_tauint", "modulename": "pyerrors.obs", "qualname": "Obs.e_tauint", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_windowsize": {"fullname": "pyerrors.obs.Obs.e_windowsize", "modulename": "pyerrors.obs", "qualname": "Obs.e_windowsize", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.tau_exp": {"fullname": "pyerrors.obs.Obs.tau_exp", "modulename": "pyerrors.obs", "qualname": "Obs.tau_exp", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.CObs": {"fullname": "pyerrors.obs.CObs", "modulename": "pyerrors.obs", "qualname": "CObs", "type": "class", "doc": "<p>Class for a complex valued observable.</p>\n"}, "pyerrors.obs.CObs.__init__": {"fullname": "pyerrors.obs.CObs.__init__", "modulename": "pyerrors.obs", "qualname": "CObs.__init__", "type": "function", "doc": "<p></p>\n", "signature": "(self, real, imag=0.0)", "funcdef": "def"}, "pyerrors.obs.CObs.tag": {"fullname": "pyerrors.obs.CObs.tag", "modulename": "pyerrors.obs", "qualname": "CObs.tag", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.CObs.real": {"fullname": "pyerrors.obs.CObs.real", "modulename": "pyerrors.obs", "qualname": "CObs.real", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.CObs.imag": {"fullname": "pyerrors.obs.CObs.imag", "modulename": "pyerrors.obs", "qualname": "CObs.imag", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.CObs.gamma_method": {"fullname": "pyerrors.obs.CObs.gamma_method", "modulename": "pyerrors.obs", "qualname": "CObs.gamma_method", "type": "function", "doc": "<p>Executes the gamma_method for the real and the imaginary part.</p>\n", "signature": "(self, **kwargs)", "funcdef": "def"}, "pyerrors.obs.CObs.is_zero": {"fullname": "pyerrors.obs.CObs.is_zero", "modulename": "pyerrors.obs", "qualname": "CObs.is_zero", "type": "function", "doc": "<p>Checks whether both real and imaginary part are zero within machine precision.</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.CObs.conjugate": {"fullname": "pyerrors.obs.CObs.conjugate", "modulename": "pyerrors.obs", "qualname": "CObs.conjugate", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.derived_observable": {"fullname": "pyerrors.obs.derived_observable", "modulename": "pyerrors.obs", "qualname": "derived_observable", "type": "function", "doc": "<p>Construct a derived Obs according to func(data, **kwargs) using automatic differentiation.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>func</strong> (object):\narbitrary function of the form func(data, **kwargs). For the\nautomatic differentiation to work, all numpy functions have to have\nthe autograd wrapper (use 'import autograd.numpy as anp').</li>\n<li><strong>data</strong> (list):\nlist of Obs, e.g. [obs1, obs2, obs3].</li>\n<li><strong>num_grad</strong> (bool):\nif True, numerical derivatives are used instead of autograd\n(default False). To control the numerical differentiation the\nkwargs of numdifftools.step_generators.MaxStepGenerator\ncan be used.</li>\n<li><strong>man_grad</strong> (list):\nmanually supply a list or an array which contains the jacobian\nof func. Use cautiously, supplying the wrong derivative will\nnot be intercepted.</li>\n</ul>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>For simple mathematical operations it can be practical to use anonymous\nfunctions. For the ratio of two observables one can e.g. use</p>\n\n<p>new_obs = derived_observable(lambda x: x[0] / x[1], [obs1, obs2])</p>\n", "signature": "(func, data, array_mode=False, **kwargs)", "funcdef": "def"}, "pyerrors.obs.reweight": {"fullname": "pyerrors.obs.reweight", "modulename": "pyerrors.obs", "qualname": "reweight", "type": "function", "doc": "<p>Reweight a list of observables.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>weight</strong> (Obs):\nReweighting factor. An Observable that has to be defined on a superset of the\nconfigurations in obs[i].idl for all i.</li>\n<li><strong>obs</strong> (list):\nlist of Obs, e.g. [obs1, obs2, obs3].</li>\n<li><strong>all_configs</strong> (bool):\nif True, the reweighted observables are normalized by the average of\nthe reweighting factor on all configurations in weight.idl and not\non the configurations in obs[i].idl.</li>\n</ul>\n", "signature": "(weight, obs, **kwargs)", "funcdef": "def"}, "pyerrors.obs.correlate": {"fullname": "pyerrors.obs.correlate", "modulename": "pyerrors.obs", "qualname": "correlate", "type": "function", "doc": "<p>Correlate two observables.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obs_a</strong> (Obs):\nFirst observable</li>\n<li><strong>obs_b</strong> (Obs):\nSecond observable</li>\n</ul>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>Keep in mind to only correlate primary observables which have not been reweighted\nyet. The reweighting has to be applied after correlating the observables.\nCurrently only works if ensembles are identical (this is not strictly necessary).</p>\n", "signature": "(obs_a, obs_b)", "funcdef": "def"}, "pyerrors.obs.covariance": {"fullname": "pyerrors.obs.covariance", "modulename": "pyerrors.obs", "qualname": "covariance", "type": "function", "doc": "<p>Calculates the covariance matrix of a set of observables.</p>\n\n<p>The gamma method has to be applied first to all observables.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obs</strong> (list or numpy.ndarray):\nList or one dimensional array of Obs</li>\n<li><strong>visualize</strong> (bool):\nIf True plots the corresponding normalized correlation matrix (default False).</li>\n<li><strong>correlation</strong> (bool):\nIf True the correlation instead of the covariance is returned (default False).</li>\n<li><strong>smooth</strong> (None or int):\nIf smooth is an integer 'E' between 2 and the dimension of the matrix minus 1 the eigenvalue\nsmoothing procedure of hep-lat/9412087 is applied to the correlation matrix which leaves the\nlargest E eigenvalues essentially unchanged and smoothes the smaller eigenvalues to avoid extremely\nsmall ones.</li>\n</ul>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>The covariance is estimated by calculating the correlation matrix assuming no autocorrelation and then rescaling the correlation matrix by the full errors including the previous gamma method estimate for the autocorrelation of the observables. The covariance at windowsize 0 is guaranteed to be positive semi-definite\n$$v_i\\Gamma_{ij}(0)v_j=\\frac{1}{N}\\sum_{s=1}^N\\sum_{i,j}v_i\\delta_i^s\\delta_j^s v_j=\\frac{1}{N}\\sum_{s=1}^N\\sum_{i}|v_i\\delta_i^s|^2\\geq 0\\,,$$ for every $v\\in\\mathbb{R}^M$, while such an identity does not hold for larger windows/lags.\nFor observables defined on a single ensemble our approximation is equivalent to assuming that the integrated autocorrelation time of an off-diagonal element is equal to the geometric mean of the integrated autocorrelation times of the corresponding diagonal elements.\n$$\\tau_{\\mathrm{int}, ij}=\\sqrt{\\tau_{\\mathrm{int}, i}\\times \\tau_{\\mathrm{int}, j}}$$\nThis construction ensures that the estimated covariance matrix is positive semi-definite (up to numerical rounding errors).</p>\n", "signature": "(obs, visualize=False, correlation=False, smooth=None, **kwargs)", "funcdef": "def"}, "pyerrors.obs.import_jackknife": {"fullname": "pyerrors.obs.import_jackknife", "modulename": "pyerrors.obs", "qualname": "import_jackknife", "type": "function", "doc": "<p>Imports jackknife samples and returns an Obs</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>jacks</strong> (numpy.ndarray):\nnumpy array containing the mean value as zeroth entry and\nthe N jackknife samples as first to Nth entry.</li>\n<li><strong>name</strong> (str):\nname of the ensemble the samples are defined on.</li>\n</ul>\n", "signature": "(jacks, name, idl=None)", "funcdef": "def"}, "pyerrors.obs.merge_obs": {"fullname": "pyerrors.obs.merge_obs", "modulename": "pyerrors.obs", "qualname": "merge_obs", "type": "function", "doc": "<p>Combine all observables in list_of_obs into one new observable</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>list_of_obs</strong> (list):\nlist of the Obs object to be combined</li>\n</ul>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>It is not possible to combine obs which are based on the same replicum</p>\n", "signature": "(list_of_obs)", "funcdef": "def"}, "pyerrors.obs.cov_Obs": {"fullname": "pyerrors.obs.cov_Obs", "modulename": "pyerrors.obs", "qualname": "cov_Obs", "type": "function", "doc": "<p>Create an Obs based on mean(s) and a covariance matrix</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>mean</strong> (list of floats or float):\nN mean value(s) of the new Obs</li>\n<li><strong>cov</strong> (list or array):\n2d (NxN) Covariance matrix, 1d diagonal entries or 0d covariance</li>\n<li><strong>name</strong> (str):\nidentifier for the covariance matrix</li>\n<li><strong>grad</strong> (list or array):\nGradient of the Covobs wrt. the means belonging to cov.</li>\n</ul>\n", "signature": "(means, cov, name, grad=None)", "funcdef": "def"}, "pyerrors.roots": {"fullname": "pyerrors.roots", "modulename": "pyerrors.roots", "type": "module", "doc": "<p></p>\n"}, "pyerrors.roots.find_root": {"fullname": "pyerrors.roots.find_root", "modulename": "pyerrors.roots", "qualname": "find_root", "type": "function", "doc": "<p>Finds the root of the function func(x, d) where d is an <code>Obs</code>.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>d</strong> (Obs):\nObs passed to the function.</li>\n<li><strong>func</strong> (object):\nFunction to be minimized. Any numpy functions have to use the autograd.numpy wrapper.\nExample:\n<code>python\nimport autograd.numpy as anp\ndef root_func(x, d):\n   return anp.exp(-x ** 2) - d\n</code></li>\n<li><strong>guess</strong> (float):\nInitial guess for the minimization.</li>\n</ul>\n\n<h6 id=\"returns\">Returns</h6>\n\n<ul>\n<li><strong>Obs</strong>: <code>Obs</code> valued root of the function.</li>\n</ul>\n", "signature": "(d, func, guess=1.0, **kwargs)", "funcdef": "def"}, "pyerrors.version": {"fullname": "pyerrors.version", "modulename": "pyerrors.version", "type": "module", "doc": "<p></p>\n"}}, "docInfo": {"pyerrors": {"qualname": 0, "fullname": 1, "annotation": 0, "default_value": 0, "signature": 0, "bases": 0, "doc": 7902}, "pyerrors.correlators": {"qualname": 0, "fullname": 2, "annotation": 0, "default_value": 0, "signature": 0, "bases": 0, "doc": 3}, "pyerrors.correlators.Corr": {"qualname": 1, "fullname": 3, "annotation": 0, "default_value": 0, "signature": 0, "bases": 0, "doc": 108}, 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+    /** pdoc search index */const docs = {"version": "0.9.5", "fields": ["qualname", "fullname", "annotation", "default_value", "signature", "bases", "doc"], "ref": "fullname", "documentStore": {"docs": {"pyerrors": {"fullname": "pyerrors", "modulename": "pyerrors", "type": "module", "doc": "<h1 id=\"what-is-pyerrors\">What is pyerrors?</h1>\n\n<p><code>pyerrors</code> is a python package for error computation and propagation of Markov chain Monte Carlo data.\nIt is based on the gamma method <a href=\"https://arxiv.org/abs/hep-lat/0306017\">arXiv:hep-lat/0306017</a>. Some of its features are:</p>\n\n<ul>\n<li>automatic differentiation for exact liner error propagation as suggested in <a href=\"https://arxiv.org/abs/1809.01289\">arXiv:1809.01289</a> (partly based on the <a href=\"https://github.com/HIPS/autograd\">autograd</a> package).</li>\n<li>treatment of slow modes in the simulation as suggested in <a href=\"https://arxiv.org/abs/1009.5228\">arXiv:1009.5228</a>.</li>\n<li>coherent error propagation for data from different Markov chains.</li>\n<li>non-linear fits with x- and y-errors and exact linear error propagation based on automatic differentiation as introduced in <a href=\"https://arxiv.org/abs/1809.01289\">arXiv:1809.01289</a>.</li>\n<li>real and complex matrix operations and their error propagation based on automatic differentiation (Matrix inverse, Cholesky decomposition, calculation of eigenvalues and eigenvectors, singular value decomposition...).</li>\n</ul>\n\n<p>There exist similar publicly available implementations of gamma method error analysis suites in <a href=\"https://gitlab.ift.uam-csic.es/alberto/aderrors\">Fortran</a>, <a href=\"https://gitlab.ift.uam-csic.es/alberto/aderrors.jl\">Julia</a> and <a href=\"https://github.com/mbruno46/pyobs\">Python</a>.</p>\n\n<h2 id=\"basic-example\">Basic example</h2>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">numpy</span> <span class=\"k\">as</span> <span class=\"nn\">np</span>\n<span class=\"kn\">import</span> <span class=\"nn\">pyerrors</span> <span class=\"k\">as</span> <span class=\"nn\">pe</span>\n\n<span class=\"n\">my_obs</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble_name&#39;</span><span class=\"p\">])</span> <span class=\"c1\"># Initialize an Obs object</span>\n<span class=\"n\">my_new_obs</span> <span class=\"o\">=</span> <span class=\"mi\">2</span> <span class=\"o\">*</span> <span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">log</span><span class=\"p\">(</span><span class=\"n\">my_obs</span><span class=\"p\">)</span> <span class=\"o\">/</span> <span class=\"n\">my_obs</span> <span class=\"o\">**</span> <span class=\"mi\">2</span> <span class=\"c1\"># Construct derived Obs object</span>\n<span class=\"n\">my_new_obs</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">()</span>                     <span class=\"c1\"># Estimate the statistical error</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_new_obs</span><span class=\"p\">)</span>                             <span class=\"c1\"># Print the result to stdout</span>\n<span class=\"o\">&gt;</span> <span class=\"mf\">0.31498</span><span class=\"p\">(</span><span class=\"mi\">72</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<h1 id=\"the-obs-class\">The <code>Obs</code> class</h1>\n\n<p><code>pyerrors</code> introduces a new datatype, <code>Obs</code>, which simplifies error propagation and estimation for auto- and cross-correlated data.\nAn <code>Obs</code> object can be initialized with two arguments, the first is a list containing the samples for an observable from a Monte Carlo chain.\nThe samples can either be provided as python list or as numpy array.\nThe second argument is a list containing the names of the respective Monte Carlo chains as strings. These strings uniquely identify a Monte Carlo chain/ensemble.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">pyerrors</span> <span class=\"k\">as</span> <span class=\"nn\">pe</span>\n\n<span class=\"n\">my_obs</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble_name&#39;</span><span class=\"p\">])</span>\n</code></pre></div>\n\n<h2 id=\"error-propagation\">Error propagation</h2>\n\n<p>When performing mathematical operations on <code>Obs</code> objects the correct error propagation is intrinsically taken care of using a first order Taylor expansion\n$$\\delta_f^i=\\sum_\\alpha \\bar{f}_\\alpha \\delta_\\alpha^i\\,,\\quad \\delta_\\alpha^i=a_\\alpha^i-\\bar{a}_\\alpha\\,,$$\nas introduced in <a href=\"https://arxiv.org/abs/hep-lat/0306017\">arXiv:hep-lat/0306017</a>.\nThe required derivatives $\\bar{f}_\\alpha$ are evaluated up to machine precision via automatic differentiation as suggested in <a href=\"https://arxiv.org/abs/1809.01289\">arXiv:1809.01289</a>.</p>\n\n<p>The <code>Obs</code> class is designed such that mathematical numpy functions can be used on <code>Obs</code> just as for regular floats.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">numpy</span> <span class=\"k\">as</span> <span class=\"nn\">np</span>\n<span class=\"kn\">import</span> <span class=\"nn\">pyerrors</span> <span class=\"k\">as</span> <span class=\"nn\">pe</span>\n\n<span class=\"n\">my_obs1</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples1</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble_name&#39;</span><span class=\"p\">])</span>\n<span class=\"n\">my_obs2</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples2</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble_name&#39;</span><span class=\"p\">])</span>\n\n<span class=\"n\">my_sum</span> <span class=\"o\">=</span> <span class=\"n\">my_obs1</span> <span class=\"o\">+</span> <span class=\"n\">my_obs2</span>\n\n<span class=\"n\">my_m_eff</span> <span class=\"o\">=</span> <span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">log</span><span class=\"p\">(</span><span class=\"n\">my_obs1</span> <span class=\"o\">/</span> <span class=\"n\">my_obs2</span><span class=\"p\">)</span>\n\n<span class=\"n\">iamzero</span> <span class=\"o\">=</span> <span class=\"n\">my_m_eff</span> <span class=\"o\">-</span> <span class=\"n\">my_m_eff</span>\n<span class=\"c1\"># Check that value and fluctuations are zero within machine precision</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">iamzero</span> <span class=\"o\">==</span> <span class=\"mf\">0.0</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"kc\">True</span>\n</code></pre></div>\n\n<h2 id=\"error-estimation\">Error estimation</h2>\n\n<p>The error estimation within <code>pyerrors</code> is based on the gamma method introduced in <a href=\"https://arxiv.org/abs/hep-lat/0306017\">arXiv:hep-lat/0306017</a>.\nAfter having arrived at the derived quantity of interest the <code>gamma_method</code> can be called as detailed in the following example.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">()</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_sum</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mf\">1.70</span><span class=\"p\">(</span><span class=\"mi\">57</span><span class=\"p\">)</span>\n<span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">1.70000000e+00</span> <span class=\"o\">+/-</span> <span class=\"mf\">5.72046658e-01</span> <span class=\"o\">+/-</span> <span class=\"mf\">7.56746598e-02</span> <span class=\"p\">(</span><span class=\"mf\">33.650</span><span class=\"o\">%</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span>  <span class=\"n\">t_int</span>         <span class=\"mf\">2.71422900e+00</span> <span class=\"o\">+/-</span> <span class=\"mf\">6.40320983e-01</span> <span class=\"n\">S</span> <span class=\"o\">=</span> <span class=\"mf\">2.00</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1000</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble_name&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">1000</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">1000</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>We use the following definition of the integrated autocorrelation time established in <a href=\"https://link.springer.com/article/10.1007/BF01022990\">Madras &amp; Sokal 1988</a>\n$$\\tau_\\mathrm{int}=\\frac{1}{2}+\\sum_{t=1}^{W}\\rho(t)\\geq \\frac{1}{2}\\,.$$\nThe window $W$ is determined via the automatic windowing procedure described in <a href=\"https://arxiv.org/abs/hep-lat/0306017\">arXiv:hep-lat/0306017</a>.\nThe standard value for the parameter $S$ of this automatic windowing procedure is $S=2$. Other values for $S$ can be passed to the <code>gamma_method</code> as parameter.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">(</span><span class=\"n\">S</span><span class=\"o\">=</span><span class=\"mf\">3.0</span><span class=\"p\">)</span>\n<span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">1.70000000e+00</span> <span class=\"o\">+/-</span> <span class=\"mf\">6.30675201e-01</span> <span class=\"o\">+/-</span> <span class=\"mf\">1.04585650e-01</span> <span class=\"p\">(</span><span class=\"mf\">37.099</span><span class=\"o\">%</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span>  <span class=\"n\">t_int</span>         <span class=\"mf\">3.29909703e+00</span> <span class=\"o\">+/-</span> <span class=\"mf\">9.77310102e-01</span> <span class=\"n\">S</span> <span class=\"o\">=</span> <span class=\"mf\">3.00</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1000</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble_name&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">1000</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">1000</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>The integrated autocorrelation time $\\tau_\\mathrm{int}$ and the autocorrelation function $\\rho(W)$ can be monitored via the methods <code>pyerrors.obs.Obs.plot_tauint</code> and <code>pyerrors.obs.Obs.plot_tauint</code>.</p>\n\n<p>If the parameter $S$ is set to zero it is assumed that the dataset does not exhibit any autocorrelation and the windowsize is chosen to be zero.\nIn this case the error estimate is identical to the sample standard error.</p>\n\n<h3 id=\"exponential-tails\">Exponential tails</h3>\n\n<p>Slow modes in the Monte Carlo history can be accounted for by attaching an exponential tail to the autocorrelation function $\\rho$ as suggested in <a href=\"https://arxiv.org/abs/1009.5228\">arXiv:1009.5228</a>. The longest autocorrelation time in the history, $\\tau_\\mathrm{exp}$, can be passed to the <code>gamma_method</code> as parameter. In this case the automatic windowing procedure is vacated and the parameter $S$ does not affect the error estimate.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">(</span><span class=\"n\">tau_exp</span><span class=\"o\">=</span><span class=\"mf\">7.2</span><span class=\"p\">)</span>\n<span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">1.70000000e+00</span> <span class=\"o\">+/-</span> <span class=\"mf\">6.28097762e-01</span> <span class=\"o\">+/-</span> <span class=\"mf\">5.79077524e-02</span> <span class=\"p\">(</span><span class=\"mf\">36.947</span><span class=\"o\">%</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span>  <span class=\"n\">t_int</span>         <span class=\"mf\">3.27218667e+00</span> <span class=\"o\">+/-</span> <span class=\"mf\">7.99583654e-01</span> <span class=\"n\">tau_exp</span> <span class=\"o\">=</span> <span class=\"mf\">7.20</span><span class=\"p\">,</span>  <span class=\"n\">N_sigma</span> <span class=\"o\">=</span> <span class=\"mi\">1</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1000</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble_name&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">1000</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">1000</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>For the full API see <code>pyerrors.obs.Obs.gamma_method</code>.</p>\n\n<h2 id=\"multiple-ensemblesreplica\">Multiple ensembles/replica</h2>\n\n<p>Error propagation for multiple ensembles (Markov chains with different simulation parameters) is handled automatically. Ensembles are uniquely identified by their <code>name</code>.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">obs1</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples1</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">])</span>\n<span class=\"n\">obs2</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples2</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble2&#39;</span><span class=\"p\">])</span>\n\n<span class=\"n\">my_sum</span> <span class=\"o\">=</span> <span class=\"n\">obs1</span> <span class=\"o\">+</span> <span class=\"n\">obs2</span>\n<span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>   <span class=\"mf\">2.00697958e+00</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1500</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">2</span> <span class=\"n\">ensembles</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble1&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">1000</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">1000</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble2&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">500</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">500</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p><code>pyerrors</code> identifies multiple replica (independent Markov chains with identical simulation parameters) by the vertical bar <code>|</code> in the name of the data set.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">obs1</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples1</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1|r01&#39;</span><span class=\"p\">])</span>\n<span class=\"n\">obs2</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples2</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1|r02&#39;</span><span class=\"p\">])</span>\n\n<span class=\"o\">&gt;</span> <span class=\"n\">my_sum</span> <span class=\"o\">=</span> <span class=\"n\">obs1</span> <span class=\"o\">+</span> <span class=\"n\">obs2</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">my_sum</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>   <span class=\"mf\">2.00697958e+00</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1500</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble1&#39;</span>\n<span class=\"o\">&gt;</span>     <span class=\"err\">\u00b7</span> <span class=\"n\">Replicum</span> <span class=\"s1\">&#39;r01&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">1000</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">1000</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span>     <span class=\"err\">\u00b7</span> <span class=\"n\">Replicum</span> <span class=\"s1\">&#39;r02&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">500</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">1</span> <span class=\"n\">to</span> <span class=\"mi\">500</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<h3 id=\"error-estimation-for-multiple-ensembles\">Error estimation for multiple ensembles</h3>\n\n<p>In order to keep track of different error analysis parameters for different ensembles one can make use of global dictionaries as detailed in the following example.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"o\">.</span><span class=\"n\">S_dict</span><span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">]</span> <span class=\"o\">=</span> <span class=\"mf\">2.5</span>\n<span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"o\">.</span><span class=\"n\">tau_exp_dict</span><span class=\"p\">[</span><span class=\"s1\">&#39;ensemble2&#39;</span><span class=\"p\">]</span> <span class=\"o\">=</span> <span class=\"mf\">8.0</span>\n<span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"o\">.</span><span class=\"n\">tau_exp_dict</span><span class=\"p\">[</span><span class=\"s1\">&#39;ensemble3&#39;</span><span class=\"p\">]</span> <span class=\"o\">=</span> <span class=\"mf\">2.0</span>\n</code></pre></div>\n\n<p>In case the <code>gamma_method</code> is called without any parameters it will use the values specified in the dictionaries for the respective ensembles.\nPassing arguments to the <code>gamma_method</code> still dominates over the dictionaries.</p>\n\n<h2 id=\"irregular-monte-carlo-chains\">Irregular Monte Carlo chains</h2>\n\n<p><code>Obs</code> objects defined on irregular Monte Carlo chains can be initialized with the parameter <code>idl</code>.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"c1\"># Observable defined on configurations 20 to 519</span>\n<span class=\"n\">obs1</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples1</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">],</span> <span class=\"n\">idl</span><span class=\"o\">=</span><span class=\"p\">[</span><span class=\"nb\">range</span><span class=\"p\">(</span><span class=\"mi\">20</span><span class=\"p\">,</span> <span class=\"mi\">520</span><span class=\"p\">)])</span>\n<span class=\"n\">obs1</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">9.98319881e-01</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">500</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble1&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">500</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">20</span> <span class=\"n\">to</span> <span class=\"mi\">519</span><span class=\"p\">)</span>\n\n<span class=\"c1\"># Observable defined on every second configuration between 5 and 1003</span>\n<span class=\"n\">obs2</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples2</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">],</span> <span class=\"n\">idl</span><span class=\"o\">=</span><span class=\"p\">[</span><span class=\"nb\">range</span><span class=\"p\">(</span><span class=\"mi\">5</span><span class=\"p\">,</span> <span class=\"mi\">1005</span><span class=\"p\">,</span> <span class=\"mi\">2</span><span class=\"p\">)])</span>\n<span class=\"n\">obs2</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">9.99100712e-01</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">500</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble1&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">500</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"kn\">from</span> <span class=\"mi\">5</span> <span class=\"n\">to</span> <span class=\"mi\">1003</span> <span class=\"ow\">in</span> <span class=\"n\">steps</span> <span class=\"n\">of</span> <span class=\"mi\">2</span><span class=\"p\">)</span>\n\n<span class=\"c1\"># Observable defined on configurations 2, 9, 28, 29 and 501</span>\n<span class=\"n\">obs3</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples3</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">],</span> <span class=\"n\">idl</span><span class=\"o\">=</span><span class=\"p\">[[</span><span class=\"mi\">2</span><span class=\"p\">,</span> <span class=\"mi\">9</span><span class=\"p\">,</span> <span class=\"mi\">28</span><span class=\"p\">,</span> <span class=\"mi\">29</span><span class=\"p\">,</span> <span class=\"mi\">501</span><span class=\"p\">]])</span>\n<span class=\"n\">obs3</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">1.01718064e+00</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">5</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Ensemble</span> <span class=\"s1\">&#39;ensemble1&#39;</span> <span class=\"p\">:</span> <span class=\"mi\">5</span> <span class=\"n\">configurations</span> <span class=\"p\">(</span><span class=\"n\">irregular</span> <span class=\"nb\">range</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p><code>Obs</code> objects defined on regular and irregular histories of the same ensemble can be combined with each other and the correct error propagation and estimation is automatically taken care of.</p>\n\n<p><strong>Warning:</strong> Irregular Monte Carlo chains can result in odd patterns in the autocorrelation functions.\nMake sure to check the autocorrelation time with e.g. <code>pyerrors.obs.Obs.plot_rho</code> or <code>pyerrors.obs.Obs.plot_tauint</code>.</p>\n\n<p>For the full API see <code>pyerrors.obs.Obs</code>.</p>\n\n<h1 id=\"correlators\">Correlators</h1>\n\n<p>When one is not interested in single observables but correlation functions, <code>pyerrors</code> offers the <code>Corr</code> class which simplifies the corresponding error propagation and provides the user with a set of standard methods. In order to initialize a <code>Corr</code> objects one needs to arrange the data as a list of <code>Obs</code></p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_corr</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Corr</span><span class=\"p\">([</span><span class=\"n\">obs_0</span><span class=\"p\">,</span> <span class=\"n\">obs_1</span><span class=\"p\">,</span> <span class=\"n\">obs_2</span><span class=\"p\">,</span> <span class=\"n\">obs_3</span><span class=\"p\">])</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_corr</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">x0</span><span class=\"o\">/</span><span class=\"n\">a</span>  <span class=\"n\">Corr</span><span class=\"p\">(</span><span class=\"n\">x0</span><span class=\"o\">/</span><span class=\"n\">a</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"o\">------------------</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">0</span>      <span class=\"mf\">0.7957</span><span class=\"p\">(</span><span class=\"mi\">80</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1</span>      <span class=\"mf\">0.5156</span><span class=\"p\">(</span><span class=\"mi\">51</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">2</span>      <span class=\"mf\">0.3227</span><span class=\"p\">(</span><span class=\"mi\">33</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">3</span>      <span class=\"mf\">0.2041</span><span class=\"p\">(</span><span class=\"mi\">21</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>In case the correlation functions are not defined on the outermost timeslices, for example because of fixed boundary conditions, a padding can be introduced.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_corr</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Corr</span><span class=\"p\">([</span><span class=\"n\">obs_0</span><span class=\"p\">,</span> <span class=\"n\">obs_1</span><span class=\"p\">,</span> <span class=\"n\">obs_2</span><span class=\"p\">,</span> <span class=\"n\">obs_3</span><span class=\"p\">],</span> <span class=\"n\">padding</span><span class=\"o\">=</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">,</span> <span class=\"mi\">1</span><span class=\"p\">])</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_corr</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">x0</span><span class=\"o\">/</span><span class=\"n\">a</span>  <span class=\"n\">Corr</span><span class=\"p\">(</span><span class=\"n\">x0</span><span class=\"o\">/</span><span class=\"n\">a</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"o\">------------------</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">0</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1</span>      <span class=\"mf\">0.7957</span><span class=\"p\">(</span><span class=\"mi\">80</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">2</span>      <span class=\"mf\">0.5156</span><span class=\"p\">(</span><span class=\"mi\">51</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">3</span>      <span class=\"mf\">0.3227</span><span class=\"p\">(</span><span class=\"mi\">33</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">4</span>      <span class=\"mf\">0.2041</span><span class=\"p\">(</span><span class=\"mi\">21</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">5</span>\n</code></pre></div>\n\n<p>The individual entries of a correlator can be accessed via slicing</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_corr</span><span class=\"p\">[</span><span class=\"mi\">3</span><span class=\"p\">])</span>\n<span class=\"o\">&gt;</span> <span class=\"mf\">0.3227</span><span class=\"p\">(</span><span class=\"mi\">33</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>Error propagation with the <code>Corr</code> class works very similar to <code>Obs</code> objects. Mathematical operations are overloaded and <code>Corr</code> objects can be computed together with other <code>Corr</code> objects, <code>Obs</code> objects or real numbers and integers.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_new_corr</span> <span class=\"o\">=</span> <span class=\"mf\">0.3</span> <span class=\"o\">*</span> <span class=\"n\">my_corr</span><span class=\"p\">[</span><span class=\"mi\">2</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">my_corr</span> <span class=\"o\">*</span> <span class=\"n\">my_corr</span> <span class=\"o\">+</span> <span class=\"mi\">12</span> <span class=\"o\">/</span> <span class=\"n\">my_corr</span>\n</code></pre></div>\n\n<p><code>pyerrors</code> provides the user with a set of regularly used methods for the manipulation of correlator objects:</p>\n\n<ul>\n<li><code>Corr.gamma_method</code> applies the gamma method to all entries of the correlator.</li>\n<li><code>Corr.m_eff</code> to construct effective masses. Various variants for periodic and fixed temporal boundary conditions are available.</li>\n<li><code>Corr.deriv</code> returns the first derivative of the correlator as <code>Corr</code>. Different discretizations of the numerical derivative are available.</li>\n<li><code>Corr.second_deriv</code> returns the second derivative of the correlator as <code>Corr</code>. Different discretizations of the numerical derivative are available.</li>\n<li><code>Corr.symmetric</code> symmetrizes parity even correlations functions, assuming periodic boundary conditions.</li>\n<li><code>Corr.anti_symmetric</code> anti-symmetrizes parity odd correlations functions, assuming periodic boundary conditions.</li>\n<li><code>Corr.T_symmetry</code> averages a correlator with its time symmetry partner, assuming fixed boundary conditions.</li>\n<li><code>Corr.plateau</code> extracts a plateau value from the correlator in a given range.</li>\n<li><code>Corr.roll</code> periodically shifts the correlator.</li>\n<li><code>Corr.reverse</code> reverses the time ordering of the correlator.</li>\n<li><code>Corr.correlate</code> constructs a disconnected correlation function from the correlator and another <code>Corr</code> or <code>Obs</code> object.</li>\n<li><code>Corr.reweight</code> reweights the correlator.</li>\n</ul>\n\n<p><code>pyerrors</code> can also handle matrices of correlation functions and extract energy states from these matrices via a generalized eigenvalue problem (see <code>pyerrors.correlators.Corr.GEVP</code>).</p>\n\n<p>For the full API see <code>pyerrors.correlators.Corr</code>.</p>\n\n<h1 id=\"complex-valued-observables\">Complex valued observables</h1>\n\n<p><code>pyerrors</code> can handle complex valued observables via the class <code>pyerrors.obs.CObs</code>.\n<code>CObs</code> are initialized with a real and an imaginary part which both can be <code>Obs</code> valued.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_real_part</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples1</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">])</span>\n<span class=\"n\">my_imag_part</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples2</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s1\">&#39;ensemble1&#39;</span><span class=\"p\">])</span>\n\n<span class=\"n\">my_cobs</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">CObs</span><span class=\"p\">(</span><span class=\"n\">my_real_part</span><span class=\"p\">,</span> <span class=\"n\">my_imag_part</span><span class=\"p\">)</span>\n<span class=\"n\">my_cobs</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">()</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_cobs</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"p\">(</span><span class=\"mf\">0.9959</span><span class=\"p\">(</span><span class=\"mi\">91</span><span class=\"p\">)</span><span class=\"o\">+</span><span class=\"mf\">0.659</span><span class=\"p\">(</span><span class=\"mi\">28</span><span class=\"p\">)</span><span class=\"n\">j</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>Elementary mathematical operations are overloaded and samples are properly propagated as for the <code>Obs</code> class.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_derived_cobs</span> <span class=\"o\">=</span> <span class=\"p\">(</span><span class=\"n\">my_cobs</span> <span class=\"o\">+</span> <span class=\"n\">my_cobs</span><span class=\"o\">.</span><span class=\"n\">conjugate</span><span class=\"p\">())</span> <span class=\"o\">/</span> <span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">abs</span><span class=\"p\">(</span><span class=\"n\">my_cobs</span><span class=\"p\">)</span>\n<span class=\"n\">my_derived_cobs</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">()</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_derived_cobs</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"p\">(</span><span class=\"mf\">1.668</span><span class=\"p\">(</span><span class=\"mi\">23</span><span class=\"p\">)</span><span class=\"o\">+</span><span class=\"mf\">0.0</span><span class=\"n\">j</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<h1 id=\"the-covobs-class\">The <code>Covobs</code> class</h1>\n\n<p>In many projects, auxiliary data that is not based on Monte Carlo chains enters. Examples are experimentally determined mesons masses which are used to set the scale or renormalization constants. These numbers come with an error that has to be propagated through the analysis. The <code>Covobs</code> class allows to define such quantities in <code>pyerrors</code>. Furthermore, external input might consist of correlated quantities. An example are the parameters of an interpolation formula, which are defined via mean values and a covariance matrix between all parameters. The contribution of the interpolation formula to the error of a derived quantity therefore might depend on the complete covariance matrix.</p>\n\n<p>This concept is built into the definition of <code>Covobs</code>. In <code>pyerrors</code>, external input is defined by $M$ mean values, a $M\\times M$ covariance matrix, where $M=1$ is permissible, and a name that uniquely identifies the covariance matrix. Below, we define the pion mass, based on its mean value and error, 134.9768(5). Note, that the square of the error enters <code>cov_Obs</code>, since the second argument of this function is the covariance matrix of the <code>Covobs</code>.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">pyerrors.obs</span> <span class=\"k\">as</span> <span class=\"nn\">pe</span>\n\n<span class=\"n\">mpi</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">cov_Obs</span><span class=\"p\">(</span><span class=\"mf\">134.9768</span><span class=\"p\">,</span> <span class=\"mf\">0.0005</span><span class=\"o\">**</span><span class=\"mi\">2</span><span class=\"p\">,</span> <span class=\"s1\">&#39;pi^0 mass&#39;</span><span class=\"p\">)</span>\n<span class=\"n\">mpi</span><span class=\"o\">.</span><span class=\"n\">gamma_method</span><span class=\"p\">()</span>\n<span class=\"n\">mpi</span><span class=\"o\">.</span><span class=\"n\">details</span><span class=\"p\">()</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Result</span>         <span class=\"mf\">1.34976800e+02</span> <span class=\"o\">+/-</span> <span class=\"mf\">5.00000000e-04</span> <span class=\"o\">+/-</span> <span class=\"mf\">0.00000000e+00</span> <span class=\"p\">(</span><span class=\"mf\">0.000</span><span class=\"o\">%</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span>  <span class=\"n\">pi</span><span class=\"o\">^</span><span class=\"mi\">0</span> <span class=\"n\">mass</span>     <span class=\"mf\">5.00000000e-04</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">0</span> <span class=\"n\">samples</span> <span class=\"ow\">in</span> <span class=\"mi\">1</span> <span class=\"n\">ensemble</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span>   <span class=\"err\">\u00b7</span> <span class=\"n\">Covobs</span>   <span class=\"s1\">&#39;pi^0 mass&#39;</span>\n</code></pre></div>\n\n<p>The resulting object <code>mpi</code> is an <code>Obs</code> that contains a <code>Covobs</code>. In the following, it may be handled as any other <code>Obs</code>. The contribution of the covariance matrix to the error of an <code>Obs</code> is determined from the $M \\times M$ covariance matrix $\\Sigma$ and the gradient of the <code>Obs</code> with respect to the external quantities, which is the $1\\times M$ Jacobian matrix $J$, via\n$$s = \\sqrt{J^T \\Sigma J}\\,,$$\nwhere the Jacobian is computed for each derived quantity via automatic differentiation.</p>\n\n<p>Correlated auxiliary data is defined similarly to above, e.g., via</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">RAP</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">cov_Obs</span><span class=\"p\">([</span><span class=\"mf\">16.7457</span><span class=\"p\">,</span> <span class=\"o\">-</span><span class=\"mf\">19.0475</span><span class=\"p\">],</span> <span class=\"p\">[[</span><span class=\"mf\">3.49591</span><span class=\"p\">,</span> <span class=\"o\">-</span><span class=\"mf\">6.07560</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"o\">-</span><span class=\"mf\">6.07560</span><span class=\"p\">,</span> <span class=\"mf\">10.5834</span><span class=\"p\">]],</span> <span class=\"s1\">&#39;R_AP, 1906.03445, (5.3a)&#39;</span><span class=\"p\">)</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">RAP</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"p\">[</span><span class=\"n\">Obs</span><span class=\"p\">[</span><span class=\"mf\">16.7</span><span class=\"p\">(</span><span class=\"mf\">1.9</span><span class=\"p\">)],</span> <span class=\"n\">Obs</span><span class=\"p\">[</span><span class=\"o\">-</span><span class=\"mf\">19.0</span><span class=\"p\">(</span><span class=\"mf\">3.3</span><span class=\"p\">)]]</span>\n</code></pre></div>\n\n<p>where <code>RAP</code> now is a list of two <code>Obs</code> that contains the two correlated parameters.</p>\n\n<p>Since the gradient of a derived observable with respect to an external covariance matrix is propagated through the entire analysis, the <code>Covobs</code> class allows to quote the derivative of a result with respect to the external quantities. If these derivatives are published together with the result, small shifts in the definition of external quantities, e.g., the definition of the physical point, can be performed a posteriori based on the published information. This may help to compare results of different groups. The gradient of an <code>Obs</code> <code>o</code> with respect to a covariance matrix with the identifying string <code>k</code> may be accessed via</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">o</span><span class=\"o\">.</span><span class=\"n\">covobs</span><span class=\"p\">[</span><span class=\"n\">k</span><span class=\"p\">]</span><span class=\"o\">.</span><span class=\"n\">grad</span>\n</code></pre></div>\n\n<h1 id=\"error-propagation-in-iterative-algorithms\">Error propagation in iterative algorithms</h1>\n\n<p><code>pyerrors</code> supports exact linear error propagation for iterative algorithms like various variants of non-linear least sqaures fits or root finding. The derivatives required for the error propagation are calculated as described in <a href=\"https://arxiv.org/abs/1809.01289\">arXiv:1809.01289</a>.</p>\n\n<h2 id=\"least-squares-fits\">Least squares fits</h2>\n\n<p>Standard non-linear least square fits with errors on the dependent but not the independent variables can be performed with <code>pyerrors.fits.least_squares</code>. As default solver the Levenberg-Marquardt algorithm implemented in <a href=\"https://docs.scipy.org/doc/scipy/reference/generated/scipy.optimize.least_squares.html\">scipy</a> is used.</p>\n\n<p>Fit functions have to be of the following form</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">autograd.numpy</span> <span class=\"k\">as</span> <span class=\"nn\">anp</span>\n\n<span class=\"k\">def</span> <span class=\"nf\">func</span><span class=\"p\">(</span><span class=\"n\">a</span><span class=\"p\">,</span> <span class=\"n\">x</span><span class=\"p\">):</span>\n    <span class=\"k\">return</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">anp</span><span class=\"o\">.</span><span class=\"n\">exp</span><span class=\"p\">(</span><span class=\"o\">-</span><span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">0</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p><strong>It is important that numerical functions refer to <code>autograd.numpy</code> instead of <code>numpy</code> for the automatic differentiation in iterative algorithms to work properly.</strong></p>\n\n<p>Fits can then be performed via</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">fit_result</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">fits</span><span class=\"o\">.</span><span class=\"n\">least_squares</span><span class=\"p\">(</span><span class=\"n\">x</span><span class=\"p\">,</span> <span class=\"n\">y</span><span class=\"p\">,</span> <span class=\"n\">func</span><span class=\"p\">)</span>\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"s2\">&quot;</span><span class=\"se\">\\n</span><span class=\"s2\">&quot;</span><span class=\"p\">,</span> <span class=\"n\">fit_result</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Fit</span> <span class=\"k\">with</span> <span class=\"mi\">2</span> <span class=\"n\">parameters</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Method</span><span class=\"p\">:</span> <span class=\"n\">Levenberg</span><span class=\"o\">-</span><span class=\"n\">Marquardt</span>\n<span class=\"o\">&gt;</span> <span class=\"err\">`</span><span class=\"n\">ftol</span><span class=\"err\">`</span> <span class=\"n\">termination</span> <span class=\"n\">condition</span> <span class=\"ow\">is</span> <span class=\"n\">satisfied</span><span class=\"o\">.</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">chisquare</span><span class=\"o\">/</span><span class=\"n\">d</span><span class=\"o\">.</span><span class=\"n\">o</span><span class=\"o\">.</span><span class=\"n\">f</span><span class=\"o\">.</span><span class=\"p\">:</span> <span class=\"mf\">0.9593035785160936</span>\n\n<span class=\"o\">&gt;</span>  <span class=\"n\">Goodness</span> <span class=\"n\">of</span> <span class=\"n\">fit</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">\u03c7</span><span class=\"err\">\u00b2</span><span class=\"o\">/</span><span class=\"n\">d</span><span class=\"o\">.</span><span class=\"n\">o</span><span class=\"o\">.</span><span class=\"n\">f</span><span class=\"o\">.</span> <span class=\"o\">=</span> <span class=\"mf\">0.959304</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">p</span><span class=\"o\">-</span><span class=\"n\">value</span>   <span class=\"o\">=</span> <span class=\"mf\">0.5673</span>\n<span class=\"o\">&gt;</span> <span class=\"n\">Fit</span> <span class=\"n\">parameters</span><span class=\"p\">:</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">0</span>      <span class=\"mf\">0.0548</span><span class=\"p\">(</span><span class=\"mi\">28</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"mi\">1</span>      <span class=\"mf\">1.933</span><span class=\"p\">(</span><span class=\"mi\">64</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>where x is a <code>list</code> or <code>numpy.array</code> of <code>floats</code> and y is a <code>list</code> or <code>numpy.array</code> of <code>Obs</code>.</p>\n\n<p>Data stored in <code>Corr</code> objects can be fitted directly using the <code>Corr.fit</code> method.</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_corr</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Corr</span><span class=\"p\">(</span><span class=\"n\">y</span><span class=\"p\">)</span>\n<span class=\"n\">fit_result</span> <span class=\"o\">=</span> <span class=\"n\">my_corr</span><span class=\"o\">.</span><span class=\"n\">fit</span><span class=\"p\">(</span><span class=\"n\">func</span><span class=\"p\">,</span> <span class=\"n\">fitrange</span><span class=\"o\">=</span><span class=\"p\">[</span><span class=\"mi\">12</span><span class=\"p\">,</span> <span class=\"mi\">25</span><span class=\"p\">])</span>\n</code></pre></div>\n\n<p>this can simplify working with absolute fit ranges and takes care of gaps in the data automatically.</p>\n\n<p>For fit functions with multiple independent variables the fit function can be of the form</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"k\">def</span> <span class=\"nf\">func</span><span class=\"p\">(</span><span class=\"n\">a</span><span class=\"p\">,</span> <span class=\"n\">x</span><span class=\"p\">):</span>\n    <span class=\"p\">(</span><span class=\"n\">x1</span><span class=\"p\">,</span> <span class=\"n\">x2</span><span class=\"p\">)</span> <span class=\"o\">=</span> <span class=\"n\">x</span>\n    <span class=\"k\">return</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">0</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x1</span> <span class=\"o\">**</span> <span class=\"mi\">2</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x2</span>\n</code></pre></div>\n\n<p><code>pyerrors</code> also supports correlated fits which can be triggered via the parameter <code>correlated_fit=True</code>.\nDetails about how the required covariance matrix is estimated can be found in <code>pyerrors.obs.covariance</code>.</p>\n\n<p>Direct visualizations of the performed fits can be triggered via <code>resplot=True</code> or <code>qqplot=True</code>. For all available options see <code>pyerrors.fits.least_squares</code>.</p>\n\n<h2 id=\"total-least-squares-fits\">Total least squares fits</h2>\n\n<p><code>pyerrors</code> can also fit data with errors on both the dependent and independent variables using the total least squares method also referred to orthogonal distance regression as implemented in <a href=\"https://docs.scipy.org/doc/scipy/reference/odr.html\">scipy</a>, see <code>pyerrors.fits.least_squares</code>. The syntax is identical to the standard least squares case, the only diffrence being that <code>x</code> also has to be a <code>list</code> or <code>numpy.array</code> of <code>Obs</code>.</p>\n\n<p>For the full API see <code>pyerrors.fits</code> for fits and <code>pyerrors.roots</code> for finding roots of functions.</p>\n\n<h1 id=\"matrix-operations\">Matrix operations</h1>\n\n<p><code>pyerrors</code> provides wrappers for <code>Obs</code>- and <code>CObs</code>-valued matrix operations based on <code>numpy.linalg</code>. The supported functions include:</p>\n\n<ul>\n<li><code>inv</code> for the matrix inverse.</li>\n<li><code>cholseky</code> for the Cholesky decomposition.</li>\n<li><code>det</code> for the matrix determinant.</li>\n<li><code>eigh</code> for eigenvalues and eigenvectors of hermitean matrices.</li>\n<li><code>eig</code> for eigenvalues of general matrices.</li>\n<li><code>pinv</code> for the Moore-Penrose pseudoinverse.</li>\n<li><code>svd</code> for the singular-value-decomposition.</li>\n</ul>\n\n<p>For the full API see <code>pyerrors.linalg</code>.</p>\n\n<h1 id=\"export-data\">Export data</h1>\n\n<p>The preferred exported file format within <code>pyerrors</code> is json.gz. Files written to this format are valid JSON files that have been compressed using gzip. The structure of the content is inspired by the dobs format of the ALPHA collaboration. The aim of the format is to facilitate the storage of data in a self-contained way such that, even years after the creation of the file, it is possible to extract all necessary information:</p>\n\n<ul>\n<li>What observables are stored? Possibly: How exactly are they defined.</li>\n<li>How does each single ensemble or external quantity contribute to the error of the observable?</li>\n<li>Who did write the file when and on which machine?</li>\n</ul>\n\n<p>This can be achieved by storing all information in one single file. The export routines of <code>pyerrors</code> are written such that as much information as possible is written automatically as described in the following example</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"n\">my_obs</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">Obs</span><span class=\"p\">([</span><span class=\"n\">samples</span><span class=\"p\">],</span> <span class=\"p\">[</span><span class=\"s2\">&quot;test_ensemble&quot;</span><span class=\"p\">])</span>\n<span class=\"n\">my_obs</span><span class=\"o\">.</span><span class=\"n\">tag</span> <span class=\"o\">=</span> <span class=\"s2\">&quot;My observable&quot;</span>\n\n<span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">input</span><span class=\"o\">.</span><span class=\"n\">json</span><span class=\"o\">.</span><span class=\"n\">dump_to_json</span><span class=\"p\">(</span><span class=\"n\">my_obs</span><span class=\"p\">,</span> <span class=\"s2\">&quot;test_output_file&quot;</span><span class=\"p\">,</span> <span class=\"n\">description</span><span class=\"o\">=</span><span class=\"s2\">&quot;This file contains a test observable&quot;</span><span class=\"p\">)</span>\n<span class=\"c1\"># For a single observable one can equivalently use the class method dump</span>\n<span class=\"n\">my_obs</span><span class=\"o\">.</span><span class=\"n\">dump</span><span class=\"p\">(</span><span class=\"s2\">&quot;test_output_file&quot;</span><span class=\"p\">,</span> <span class=\"n\">description</span><span class=\"o\">=</span><span class=\"s2\">&quot;This file contains a test observable&quot;</span><span class=\"p\">)</span>\n\n<span class=\"n\">check</span> <span class=\"o\">=</span> <span class=\"n\">pe</span><span class=\"o\">.</span><span class=\"n\">input</span><span class=\"o\">.</span><span class=\"n\">json</span><span class=\"o\">.</span><span class=\"n\">load_json</span><span class=\"p\">(</span><span class=\"s2\">&quot;test_output_file&quot;</span><span class=\"p\">)</span>\n\n<span class=\"nb\">print</span><span class=\"p\">(</span><span class=\"n\">my_obs</span> <span class=\"o\">==</span> <span class=\"n\">check</span><span class=\"p\">)</span>\n<span class=\"o\">&gt;</span> <span class=\"kc\">True</span>\n</code></pre></div>\n\n<p>The format also allows to directly write out the content of <code>Corr</code> objects or lists and arrays of <code>Obs</code> objects by passing the desired data to <code>pyerrors.input.json.dump_to_json</code>.</p>\n\n<h2 id=\"jsongz-format-specification\">json.gz format specification</h2>\n\n<p>The first entries of the file provide optional auxiliary information:</p>\n\n<ul>\n<li><code>program</code> is a string that indicates which program was used to write the file.</li>\n<li><code>version</code> is a string that specifies the version of the format.</li>\n<li><code>who</code> is a string that specifies the user name of the creator of the file.</li>\n<li><code>date</code> is a string and contains the creation date of the file.</li>\n<li><code>host</code> is a string and contains the hostname of the machine where the file has been written.</li>\n<li><code>description</code> contains information on the content of the file. This field is not filled automatically in <code>pyerrors</code>. The user is advised to provide as detailed information as possible in this field. Examples are: Input files of measurements or simulations, LaTeX formulae or references to publications to specify how the observables have been computed, details on the analysis strategy, ... This field may be any valid JSON type. Strings, arrays or objects (equivalent to dicts in python) are well suited to provide information.</li>\n</ul>\n\n<p>The only necessary entry of the file is the field\n-<code>obsdata</code>, an array that contains the actual data.</p>\n\n<p>Each entry of the array belongs to a single structure of observables. Currently, these structures can be either of <code>Obs</code>, <code>list</code>, <code>numpy.ndarray</code>, <code>Corr</code>. All <code>Obs</code> inside a structure (with dimension &gt; 0) have to be defined on the same set of configurations. Different structures, that are represented by entries of the array <code>obsdata</code>, are treated independently. Each entry of the array <code>obsdata</code> has the following required entries:</p>\n\n<ul>\n<li><code>type</code> is a string that specifies the type of the structure. This allows to parse the content to the correct form after reading the file. It is always possible to interpret the content as list of Obs.</li>\n<li><code>value</code> is an array that contains the mean values of the Obs inside the structure.\nThe following entries are optional:</li>\n<li><code>layout</code> is a string that specifies the layout of multi-dimensional structures. Examples are \"2, 2\" for a 2x2 dimensional matrix or  \"64, 4, 4\" for a Corr with $T=64$ and 4x4 matrices on each time slices. \"1\" denotes a single Obs. Multi-dimensional structures are stored in row-major format (see below).</li>\n<li><code>tag</code> is any JSON type. It contains additional information concerning the structure. The <code>tag</code> of an <code>Obs</code> in <code>pyerrors</code> is written here.</li>\n<li><code>reweighted</code> is a Bool that may be used to specify, whether the <code>Obs</code> in the structure have been reweighted.</li>\n<li><code>data</code> is an array that contains the data from MC chains. We will define it below.</li>\n<li><code>cdata</code> is an array that contains the data from external quantities with an error (<code>Covobs</code> in <code>pyerrors</code>). We will define it below.</li>\n</ul>\n\n<p>The array <code>data</code> contains the data from MC chains. Each entry of the array corresponds to one ensemble and contains:</p>\n\n<ul>\n<li><code>id</code>, a string that contains the name of the ensemble</li>\n<li><code>replica</code>, an array that contains an entry per replica of the ensemble.</li>\n</ul>\n\n<p>Each entry of <code>replica</code> contains\n<code>name</code>, a string that contains the name of the replica\n<code>deltas</code>, an array that contains the actual data.</p>\n\n<p>Each entry in <code>deltas</code> corresponds to one configuration of the replica and has $1+N$ many entries. The first entry is an integer that specifies the configuration number that, together with ensemble and replica name, may be used to uniquely identify the configuration on which the data has been obtained. The following N entries specify the deltas, i.e., the deviation of the observable from the mean value on this configuration, of each <code>Obs</code> inside the structure. Multi-dimensional structures are stored in a row-major format. For primary observables, such as correlation functions, $value + delta_i$ matches the primary data obtained on the configuration.</p>\n\n<p>The array <code>cdata</code> contains information about the contribution of auxiliary observables, represented by <code>Covobs</code> in <code>pyerrors</code>, to the total error of the observables. Each entry of the array belongs to one auxiliary covariance matrix and contains:</p>\n\n<ul>\n<li><code>id</code>, a string that identifies the covariance matrix</li>\n<li><code>layout</code>, a string that defines the dimensions of the $M\\times M$ covariance matrix (has to be \"M, M\" or \"1\").</li>\n<li><code>cov</code>, an array that contains the $M\\times M$ many entries of the covariance matrix, stored in row-major format.</li>\n<li><code>grad</code>, an array that contains N entries, one for each <code>Obs</code> inside the structure. Each entry itself is an array, that contains the M gradients of the Nth observable  with respect to the quantity that corresponds to the Mth diagonal entry of the covariance matrix.</li>\n</ul>\n\n<p>A JSON schema that may be used to verify the correctness of a file with respect to the format definition is stored in ./examples/json_schema.json. The schema is a self-descriptive format definition and contains an exemplary file.</p>\n\n<p>Julia I/O routines for the json.gz format, compatible with <a href=\"https://gitlab.ift.uam-csic.es/alberto/aderrors.jl\">ADerrors.jl</a>, can be found <a href=\"https://github.com/fjosw/ADjson.jl\">here</a>.</p>\n\n<h1 id=\"citing\">Citing</h1>\n\n<p>If you use <code>pyerrors</code> for research that leads to a publication please consider citing:</p>\n\n<ul>\n<li>Ulli Wolff, <em>Monte Carlo errors with less errors</em>. Comput.Phys.Commun. 156 (2004) 143-153, Comput.Phys.Commun. 176 (2007) 383 (erratum).</li>\n<li>Stefan Schaefer, Rainer Sommer, Francesco Virotta, <em>Critical slowing down and error analysis in lattice QCD simulations</em>. Nucl.Phys.B 845 (2011) 93-119.</li>\n<li>Alberto Ramos, <em>Automatic differentiation for error analysis of Monte Carlo data</em>. Comput.Phys.Commun. 238 (2019) 19-35.</li>\n</ul>\n"}, "pyerrors.correlators": {"fullname": "pyerrors.correlators", "modulename": "pyerrors.correlators", "type": "module", "doc": "<p></p>\n"}, "pyerrors.correlators.Corr": {"fullname": "pyerrors.correlators.Corr", "modulename": "pyerrors.correlators", "qualname": "Corr", "type": "class", "doc": "<p>The class for a correlator (time dependent sequence of pe.Obs).</p>\n\n<p>Everything, this class does, can be achieved using lists or arrays of Obs.\nBut it is simply more convenient to have a dedicated object for correlators.\nOne often wants to add or multiply correlators of the same length at every timeslice and it is inconvenient\nto iterate over all timeslices for every operation. This is especially true, when dealing with matrices.</p>\n\n<p>The correlator can have two types of content: An Obs at every timeslice OR a GEVP\nmatrix at every timeslice. Other dependency (eg. spatial) are not supported.</p>\n"}, "pyerrors.correlators.Corr.__init__": {"fullname": "pyerrors.correlators.Corr.__init__", "modulename": "pyerrors.correlators", "qualname": "Corr.__init__", "type": "function", "doc": "<p>Initialize a Corr object.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>data_input</strong> (list or array):\nlist of Obs or list of arrays of Obs or array of Corrs</li>\n<li><strong>padding</strong> (list, optional):\nList with two entries where the first labels the padding\nat the front of the correlator and the second the padding\nat the back.</li>\n<li><strong>prange</strong> (list, optional):\nList containing the first and last timeslice of the plateau\nregion indentified for this correlator.</li>\n</ul>\n", "signature": "(self, data_input, padding=[0, 0], prange=None)", "funcdef": "def"}, "pyerrors.correlators.Corr.reweighted": {"fullname": "pyerrors.correlators.Corr.reweighted", "modulename": "pyerrors.correlators", "qualname": "Corr.reweighted", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.correlators.Corr.gamma_method": {"fullname": "pyerrors.correlators.Corr.gamma_method", "modulename": "pyerrors.correlators", "qualname": "Corr.gamma_method", "type": "function", "doc": "<p>Apply the gamma method to the content of the Corr.</p>\n", "signature": "(self, **kwargs)", "funcdef": "def"}, "pyerrors.correlators.Corr.projected": {"fullname": "pyerrors.correlators.Corr.projected", "modulename": "pyerrors.correlators", "qualname": "Corr.projected", "type": "function", "doc": "<p>We need to project the Correlator with a Vector to get a single value at each timeslice.</p>\n\n<p>The method can use one or two vectors.\nIf two are specified it returns v1@G@v2 (the order might be very important.)\nBy default it will return the lowest source, which usually means unsmeared-unsmeared (0,0), but it does not have to</p>\n", "signature": "(self, vector_l=None, vector_r=None, normalize=False)", "funcdef": "def"}, "pyerrors.correlators.Corr.item": {"fullname": "pyerrors.correlators.Corr.item", "modulename": "pyerrors.correlators", "qualname": "Corr.item", "type": "function", "doc": "<p>Picks the element [i,j] from every matrix and returns a correlator containing one Obs per timeslice.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>i</strong> (int):\nFirst index to be picked.</li>\n<li><strong>j</strong> (int):\nSecond index to be picked.</li>\n</ul>\n", "signature": "(self, i, j)", "funcdef": "def"}, "pyerrors.correlators.Corr.plottable": {"fullname": "pyerrors.correlators.Corr.plottable", "modulename": "pyerrors.correlators", "qualname": "Corr.plottable", "type": "function", "doc": "<p>Outputs the correlator in a plotable format.</p>\n\n<p>Outputs three lists containing the timeslice index, the value on each\ntimeslice and the error on each timeslice.</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.symmetric": {"fullname": "pyerrors.correlators.Corr.symmetric", "modulename": "pyerrors.correlators", "qualname": "Corr.symmetric", "type": "function", "doc": "<p>Symmetrize the correlator around x0=0.</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.anti_symmetric": {"fullname": "pyerrors.correlators.Corr.anti_symmetric", "modulename": "pyerrors.correlators", "qualname": "Corr.anti_symmetric", "type": "function", "doc": "<p>Anti-symmetrize the correlator around x0=0.</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.matrix_symmetric": {"fullname": "pyerrors.correlators.Corr.matrix_symmetric", "modulename": "pyerrors.correlators", "qualname": "Corr.matrix_symmetric", "type": "function", "doc": "<p>Symmetrizes the correlator matrices on every timeslice.</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.GEVP": {"fullname": "pyerrors.correlators.Corr.GEVP", "modulename": "pyerrors.correlators", "qualname": "Corr.GEVP", "type": "function", "doc": "<p>Solve the general eigenvalue problem on the current correlator</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>t0</strong> (int):\nThe time t0 for G(t)v= lambda G(t_0)v</li>\n<li><strong>ts</strong> (int):\nfixed time G(t_s)v= lambda G(t_0)v  if return_list=False\nIf return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</li>\n<li><strong>state</strong> (int):\nThe state one is interested in, ordered by energy. The lowest state is zero.</li>\n<li><strong>sorted_list</strong> (string):\nif this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.\n\"Eigenvalue\"  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.\n\"Eigenvector\" -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.\n                 The reference state is identified by its eigenvalue at t=ts</li>\n</ul>\n", "signature": "(self, t0, ts=None, state=0, sorted_list='Eigenvalue')", "funcdef": "def"}, "pyerrors.correlators.Corr.Eigenvalue": {"fullname": "pyerrors.correlators.Corr.Eigenvalue", "modulename": "pyerrors.correlators", "qualname": "Corr.Eigenvalue", "type": "function", "doc": "<p>Determines the eigenvalue of the GEVP by solving and projecting the correlator</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>t0</strong> (int):\nThe time t0 for G(t)v= lambda G(t_0)v</li>\n<li><strong>ts</strong> (int):\nfixed time G(t_s)v= lambda G(t_0)v  if return_list=False\nIf return_list=True and sorting=Eigenvector it gives a reference point for the sorting method.</li>\n<li><strong>state</strong> (int):\nThe state one is interested in ordered by energy. The lowest state is zero.</li>\n<li><strong>sorted_list</strong> (string):\nif this argument is set, a list of vectors (len=self.T) is returned. If it is left as None, only one vector is returned.\n\"Eigenvalue\"  -  The eigenvector is chosen according to which eigenvalue it belongs individually on every timeslice.\n\"Eigenvector\" -  Use the method described in arXiv:2004.10472 [hep-lat] to find the set of v(t) belonging to the state.\n                 The reference state is identified by its eigenvalue at t=ts</li>\n</ul>\n", "signature": "(self, t0, ts=None, state=0, sorted_list=None)", "funcdef": "def"}, "pyerrors.correlators.Corr.Hankel": {"fullname": "pyerrors.correlators.Corr.Hankel", "modulename": "pyerrors.correlators", "qualname": "Corr.Hankel", "type": "function", "doc": "<p>Constructs an NxN Hankel matrix</p>\n\n<p>C(t) c(t+1) ... c(t+n-1)\nC(t+1) c(t+2) ... c(t+n)\n.................\nC(t+(n-1)) c(t+n) ... c(t+2(n-1))</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>N</strong> (int):\nDimension of the Hankel matrix</li>\n<li><strong>periodic</strong> (bool, optional):\ndetermines whether the matrix is extended periodically</li>\n</ul>\n", "signature": "(self, N, periodic=False)", "funcdef": "def"}, "pyerrors.correlators.Corr.roll": {"fullname": "pyerrors.correlators.Corr.roll", "modulename": "pyerrors.correlators", "qualname": "Corr.roll", "type": "function", "doc": "<p>Periodically shift the correlator by dt timeslices</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>dt</strong> (int):\nnumber of timeslices</li>\n</ul>\n", "signature": "(self, dt)", "funcdef": "def"}, "pyerrors.correlators.Corr.reverse": {"fullname": "pyerrors.correlators.Corr.reverse", "modulename": "pyerrors.correlators", "qualname": "Corr.reverse", "type": "function", "doc": "<p>Reverse the time ordering of the Corr</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.thin": {"fullname": "pyerrors.correlators.Corr.thin", "modulename": "pyerrors.correlators", "qualname": "Corr.thin", "type": "function", "doc": "<p>Thin out a correlator to suppress correlations</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>spacing</strong> (int):\nKeep only every 'spacing'th entry of the correlator</li>\n<li><strong>offset</strong> (int):\nOffset the equal spacing</li>\n</ul>\n", "signature": "(self, spacing=2, offset=0)", "funcdef": "def"}, "pyerrors.correlators.Corr.correlate": {"fullname": "pyerrors.correlators.Corr.correlate", "modulename": "pyerrors.correlators", "qualname": "Corr.correlate", "type": "function", "doc": "<p>Correlate the correlator with another correlator or Obs</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>partner</strong> (Obs or Corr):\npartner to correlate the correlator with.\nCan either be an Obs which is correlated with all entries of the\ncorrelator or a Corr of same length.</li>\n</ul>\n", "signature": "(self, partner)", "funcdef": "def"}, "pyerrors.correlators.Corr.reweight": {"fullname": "pyerrors.correlators.Corr.reweight", "modulename": "pyerrors.correlators", "qualname": "Corr.reweight", "type": "function", "doc": "<p>Reweight the correlator.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>weight</strong> (Obs):\nReweighting factor. An Observable that has to be defined on a superset of the\nconfigurations in obs[i].idl for all i.</li>\n<li><strong>all_configs</strong> (bool):\nif True, the reweighted observables are normalized by the average of\nthe reweighting factor on all configurations in weight.idl and not\non the configurations in obs[i].idl.</li>\n</ul>\n", "signature": "(self, weight, **kwargs)", "funcdef": "def"}, "pyerrors.correlators.Corr.T_symmetry": {"fullname": "pyerrors.correlators.Corr.T_symmetry", "modulename": "pyerrors.correlators", "qualname": "Corr.T_symmetry", "type": "function", "doc": "<p>Return the time symmetry average of the correlator and its partner</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>partner</strong> (Corr):\nTime symmetry partner of the Corr</li>\n<li><strong>partity</strong> (int):\nParity quantum number of the correlator, can be +1 or -1</li>\n</ul>\n", "signature": "(self, partner, parity=1)", "funcdef": "def"}, "pyerrors.correlators.Corr.deriv": {"fullname": "pyerrors.correlators.Corr.deriv", "modulename": "pyerrors.correlators", "qualname": "Corr.deriv", "type": "function", "doc": "<p>Return the first derivative of the correlator with respect to x0.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>variant</strong> (str):\ndecides which definition of the finite differences derivative is used.\nAvailable choice: symmetric, forward, backward, improved, default: symmetric</li>\n</ul>\n", "signature": "(self, variant='symmetric')", "funcdef": "def"}, "pyerrors.correlators.Corr.second_deriv": {"fullname": "pyerrors.correlators.Corr.second_deriv", "modulename": "pyerrors.correlators", "qualname": "Corr.second_deriv", "type": "function", "doc": "<p>Return the second derivative of the correlator with respect to x0.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>variant</strong> (str):\ndecides which definition of the finite differences derivative is used.\nAvailable choice: symmetric, improved, default: symmetric</li>\n</ul>\n", "signature": "(self, variant='symmetric')", "funcdef": "def"}, "pyerrors.correlators.Corr.m_eff": {"fullname": "pyerrors.correlators.Corr.m_eff", "modulename": "pyerrors.correlators", "qualname": "Corr.m_eff", "type": "function", "doc": "<p>Returns the effective mass of the correlator as correlator object</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>variant</strong> (str):\nlog : uses the standard effective mass log(C(t) / C(t+1))\ncosh, periodic : Use periodicitiy of the correlator by solving C(t) / C(t+1) = cosh(m * (t - T/2)) / cosh(m * (t + 1 - T/2)) for m.\nsinh : Use anti-periodicitiy of the correlator by solving C(t) / C(t+1) = sinh(m * (t - T/2)) / sinh(m * (t + 1 - T/2)) for m.\nSee, e.g., arXiv:1205.5380\narccosh : Uses the explicit form of the symmetrized correlator (not recommended)</li>\n<li><strong>guess</strong> (float):\nguess for the root finder, only relevant for the root variant</li>\n</ul>\n", "signature": "(self, variant='log', guess=1.0)", "funcdef": "def"}, "pyerrors.correlators.Corr.fit": {"fullname": "pyerrors.correlators.Corr.fit", "modulename": "pyerrors.correlators", "qualname": "Corr.fit", "type": "function", "doc": "<p>Fits function to the data</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>function</strong> (obj):\nfunction to fit to the data. See fits.least_squares for details.</li>\n<li><strong>fitrange</strong> (list):\nTwo element list containing the timeslices on which the fit is supposed to start and stop.\nCaution: This range is inclusive as opposed to standard python indexing.\n<code>fitrange=[4, 6]</code> corresponds to the three entries 4, 5 and 6.\nIf not specified, self.prange or all timeslices are used.</li>\n<li><strong>silent</strong> (bool):\nDecides whether output is printed to the standard output.</li>\n</ul>\n", "signature": "(self, function, fitrange=None, silent=False, **kwargs)", "funcdef": "def"}, "pyerrors.correlators.Corr.plateau": {"fullname": "pyerrors.correlators.Corr.plateau", "modulename": "pyerrors.correlators", "qualname": "Corr.plateau", "type": "function", "doc": "<p>Extract a plateau value from a Corr object</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>plateau_range</strong> (list):\nlist with two entries, indicating the first and the last timeslice\nof the plateau region.</li>\n<li><strong>method</strong> (str):\nmethod to extract the plateau.\n   'fit' fits a constant to the plateau region\n   'avg', 'average' or 'mean' just average over the given timeslices.</li>\n<li><strong>auto_gamma</strong> (bool):\napply gamma_method with default parameters to the Corr. Defaults to None</li>\n</ul>\n", "signature": "(self, plateau_range=None, method='fit', auto_gamma=False)", "funcdef": "def"}, "pyerrors.correlators.Corr.set_prange": {"fullname": "pyerrors.correlators.Corr.set_prange", "modulename": "pyerrors.correlators", "qualname": "Corr.set_prange", "type": "function", "doc": "<p>Sets the attribute prange of the Corr object.</p>\n", "signature": "(self, prange)", "funcdef": "def"}, "pyerrors.correlators.Corr.show": {"fullname": "pyerrors.correlators.Corr.show", "modulename": "pyerrors.correlators", "qualname": "Corr.show", "type": "function", "doc": "<p>Plots the correlator using the tag of the correlator as label if available.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>x_range</strong> (list):\nlist of two values, determining the range of the x-axis e.g. [4, 8]</li>\n<li><strong>comp</strong> (Corr or list of Corr):\nCorrelator or list of correlators which are plotted for comparison.\nThe tags of these correlators are used as labels if available.</li>\n<li><strong>logscale</strong> (bool):\nSets y-axis to logscale</li>\n<li><strong>plateau</strong> (Obs):\nPlateau value to be visualized in the figure</li>\n<li><strong>fit_res</strong> (Fit_result):\nFit_result object to be visualized</li>\n<li><strong>ylabel</strong> (str):\nLabel for the y-axis</li>\n<li><strong>save</strong> (str):\npath to file in which the figure should be saved</li>\n<li><strong>auto_gamma</strong> (bool):\nApply the gamma method with standard parameters to all correlators and plateau values before plotting.</li>\n<li><strong>hide_sigma</strong> (float):\nHides data points from the first value on which is consistent with zero within 'hide_sigma' standard errors.</li>\n<li><strong>references</strong> (list):\nList of floating point values that are displayed as horizontal lines for reference.</li>\n</ul>\n", "signature": "(\n    self,\n    x_range=None,\n    comp=None,\n    y_range=None,\n    logscale=False,\n    plateau=None,\n    fit_res=None,\n    ylabel=None,\n    save=None,\n    auto_gamma=False,\n    hide_sigma=None,\n    references=None\n)", "funcdef": "def"}, "pyerrors.correlators.Corr.spaghetti_plot": {"fullname": "pyerrors.correlators.Corr.spaghetti_plot", "modulename": "pyerrors.correlators", "qualname": "Corr.spaghetti_plot", "type": "function", "doc": "<p>Produces a spaghetti plot of the correlator suited to monitor exceptional configurations.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>logscale</strong> (bool):\nDetermines whether the scale of the y-axis is logarithmic or standard.</li>\n</ul>\n", "signature": "(self, logscale=True)", "funcdef": "def"}, "pyerrors.correlators.Corr.dump": {"fullname": "pyerrors.correlators.Corr.dump", "modulename": "pyerrors.correlators", "qualname": "Corr.dump", "type": "function", "doc": "<p>Dumps the Corr into a file of chosen type</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>filename</strong> (str):\nName of the file to be saved.</li>\n<li><strong>datatype</strong> (str):\nFormat of the exported file. Supported formats include\n\"json.gz\" and \"pickle\"</li>\n<li><strong>path</strong> (str):\nspecifies a custom path for the file (default '.')</li>\n</ul>\n", "signature": "(self, filename, datatype='json.gz', **kwargs)", "funcdef": "def"}, "pyerrors.correlators.Corr.print": {"fullname": "pyerrors.correlators.Corr.print", "modulename": "pyerrors.correlators", "qualname": "Corr.print", "type": "function", "doc": "<p></p>\n", "signature": "(self, range=[0, None])", "funcdef": "def"}, "pyerrors.correlators.Corr.sqrt": {"fullname": "pyerrors.correlators.Corr.sqrt", "modulename": "pyerrors.correlators", "qualname": "Corr.sqrt", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.log": {"fullname": "pyerrors.correlators.Corr.log", "modulename": "pyerrors.correlators", "qualname": "Corr.log", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.exp": {"fullname": "pyerrors.correlators.Corr.exp", "modulename": "pyerrors.correlators", "qualname": "Corr.exp", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.sin": {"fullname": "pyerrors.correlators.Corr.sin", "modulename": "pyerrors.correlators", "qualname": "Corr.sin", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.cos": {"fullname": "pyerrors.correlators.Corr.cos", "modulename": "pyerrors.correlators", "qualname": "Corr.cos", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.tan": {"fullname": "pyerrors.correlators.Corr.tan", "modulename": "pyerrors.correlators", "qualname": "Corr.tan", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.sinh": {"fullname": "pyerrors.correlators.Corr.sinh", "modulename": "pyerrors.correlators", "qualname": "Corr.sinh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.cosh": {"fullname": "pyerrors.correlators.Corr.cosh", "modulename": "pyerrors.correlators", "qualname": "Corr.cosh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.tanh": {"fullname": "pyerrors.correlators.Corr.tanh", "modulename": "pyerrors.correlators", "qualname": "Corr.tanh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.arcsin": {"fullname": "pyerrors.correlators.Corr.arcsin", "modulename": "pyerrors.correlators", "qualname": "Corr.arcsin", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.arccos": {"fullname": "pyerrors.correlators.Corr.arccos", "modulename": "pyerrors.correlators", "qualname": "Corr.arccos", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.arctan": {"fullname": "pyerrors.correlators.Corr.arctan", "modulename": "pyerrors.correlators", "qualname": "Corr.arctan", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.arcsinh": {"fullname": "pyerrors.correlators.Corr.arcsinh", "modulename": "pyerrors.correlators", "qualname": "Corr.arcsinh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.arccosh": {"fullname": "pyerrors.correlators.Corr.arccosh", "modulename": "pyerrors.correlators", "qualname": "Corr.arccosh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.arctanh": {"fullname": "pyerrors.correlators.Corr.arctanh", "modulename": "pyerrors.correlators", "qualname": "Corr.arctanh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.correlators.Corr.real": {"fullname": "pyerrors.correlators.Corr.real", "modulename": "pyerrors.correlators", "qualname": "Corr.real", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.correlators.Corr.imag": {"fullname": "pyerrors.correlators.Corr.imag", "modulename": "pyerrors.correlators", "qualname": "Corr.imag", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.correlators.Corr.prune": {"fullname": "pyerrors.correlators.Corr.prune", "modulename": "pyerrors.correlators", "qualname": "Corr.prune", "type": "function", "doc": "<p>Project large correlation matrix to lowest states</p>\n\n<p>This method can be used to reduce the size of an (N x N) correlation matrix\nto (Ntrunc x Ntrunc) by solving a GEVP at very early times where the noise\nis still small.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>Ntrunc</strong> (int):\nRank of the target matrix.</li>\n<li><strong>tproj</strong> (int):\nTime where the eigenvectors are evaluated, corresponds to ts in the GEVP method.\nThe default value is 3.</li>\n<li><strong>t0proj</strong> (int):\nTime where the correlation matrix is inverted. Choosing t0proj=1 is strongly\ndiscouraged for O(a) improved theories, since the correctness of the procedure\ncannot be granted in this case. The default value is 2.</li>\n<li><strong>basematrix</strong> (Corr):\nCorrelation matrix that is used to determine the eigenvectors of the\nlowest states based on a GEVP. basematrix is taken to be the Corr itself if\nis is not specified.</li>\n</ul>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>We have the basematrix $C(t)$ and the target matrix $G(t)$. We start by solving\nthe GEVP $$C(t) v_n(t, t_0) = \\lambda_n(t, t_0) C(t_0) v_n(t, t_0)$$ where $t \\equiv t_\\mathrm{proj}$\nand $t_0 \\equiv t_{0, \\mathrm{proj}}$. The target matrix is projected onto the subspace of the\nresulting eigenvectors $v_n, n=1,\\dots,N_\\mathrm{trunc}$ via\n$$G^\\prime_{i, j}(t) = (v_i, G(t) v_j)$$. This allows to reduce the size of a large\ncorrelation matrix and to remove some noise that is added by irrelevant operators.\nThis may allow to use the GEVP on $G(t)$ at late times such that the theoretically motivated\nbound $t_0 \\leq t/2$ holds, since the condition number of $G(t)$ is decreased, compared to $C(t)$.</p>\n", "signature": "(self, Ntrunc, tproj=3, t0proj=2, basematrix=None)", "funcdef": "def"}, "pyerrors.covobs": {"fullname": "pyerrors.covobs", "modulename": "pyerrors.covobs", "type": "module", "doc": "<p></p>\n"}, "pyerrors.covobs.Covobs": {"fullname": "pyerrors.covobs.Covobs", "modulename": "pyerrors.covobs", "qualname": "Covobs", "type": "class", "doc": "<p></p>\n"}, "pyerrors.covobs.Covobs.__init__": {"fullname": "pyerrors.covobs.Covobs.__init__", "modulename": "pyerrors.covobs", "qualname": "Covobs.__init__", "type": "function", "doc": "<p>Initialize Covobs object.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>mean</strong> (float):\nMean value of the new Obs</li>\n<li><strong>cov</strong> (list or array):\n2d Covariance matrix or 1d diagonal entries</li>\n<li><strong>name</strong> (str):\nidentifier for the covariance matrix</li>\n<li><strong>pos</strong> (int):\nPosition of the variance belonging to mean in cov.\nIs taken to be 1 if cov is 0-dimensional</li>\n<li><strong>grad</strong> (list or array):\nGradient of the Covobs wrt. the means belonging to cov.</li>\n</ul>\n", "signature": "(self, mean, cov, name, pos=None, grad=None)", "funcdef": "def"}, "pyerrors.covobs.Covobs.errsq": {"fullname": "pyerrors.covobs.Covobs.errsq", "modulename": "pyerrors.covobs", "qualname": "Covobs.errsq", "type": "function", "doc": "<p>Return the variance (= square of the error) of the Covobs</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.covobs.Covobs.cov": {"fullname": "pyerrors.covobs.Covobs.cov", "modulename": "pyerrors.covobs", "qualname": "Covobs.cov", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.covobs.Covobs.grad": {"fullname": "pyerrors.covobs.Covobs.grad", "modulename": "pyerrors.covobs", "qualname": "Covobs.grad", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.dirac": {"fullname": "pyerrors.dirac", "modulename": "pyerrors.dirac", "type": "module", "doc": "<p></p>\n"}, "pyerrors.dirac.epsilon_tensor": {"fullname": "pyerrors.dirac.epsilon_tensor", "modulename": "pyerrors.dirac", "qualname": "epsilon_tensor", "type": "function", "doc": "<p>Rank-3 epsilon tensor</p>\n\n<p>Based on https://codegolf.stackexchange.com/a/160375</p>\n", "signature": "(i, j, k)", "funcdef": "def"}, "pyerrors.dirac.epsilon_tensor_rank4": {"fullname": "pyerrors.dirac.epsilon_tensor_rank4", "modulename": "pyerrors.dirac", "qualname": "epsilon_tensor_rank4", "type": "function", "doc": "<p>Rank-4 epsilon tensor</p>\n\n<p>Extension of https://codegolf.stackexchange.com/a/160375</p>\n", "signature": "(i, j, k, o)", "funcdef": "def"}, "pyerrors.dirac.Grid_gamma": {"fullname": "pyerrors.dirac.Grid_gamma", "modulename": "pyerrors.dirac", "qualname": "Grid_gamma", "type": "function", "doc": "<p>Returns gamma matrix in Grid labeling.</p>\n", "signature": "(gamma_tag)", "funcdef": "def"}, "pyerrors.fits": {"fullname": "pyerrors.fits", "modulename": "pyerrors.fits", "type": "module", "doc": "<p></p>\n"}, "pyerrors.fits.Fit_result": {"fullname": "pyerrors.fits.Fit_result", "modulename": "pyerrors.fits", "qualname": "Fit_result", "type": "class", "doc": "<p>Represents fit results.</p>\n\n<h6 id=\"attributes\">Attributes</h6>\n\n<ul>\n<li><strong>fit_parameters</strong> (list):\nresults for the individual fit parameters,\nalso accessible via indices.</li>\n</ul>\n", "bases": "collections.abc.Sequence"}, "pyerrors.fits.Fit_result.__init__": {"fullname": "pyerrors.fits.Fit_result.__init__", "modulename": "pyerrors.fits", "qualname": "Fit_result.__init__", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.fits.Fit_result.gamma_method": {"fullname": "pyerrors.fits.Fit_result.gamma_method", "modulename": "pyerrors.fits", "qualname": "Fit_result.gamma_method", "type": "function", "doc": "<p>Apply the gamma method to all fit parameters</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.fits.least_squares": {"fullname": "pyerrors.fits.least_squares", "modulename": "pyerrors.fits", "qualname": "least_squares", "type": "function", "doc": "<p>Performs a non-linear fit to y = func(x).</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>x</strong> (list):\nlist of floats.</li>\n<li><strong>y</strong> (list):\nlist of Obs.</li>\n<li><p><strong>func</strong> (object):\nfit function, has to be of the form</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">autograd.numpy</span> <span class=\"k\">as</span> <span class=\"nn\">anp</span>\n\n<span class=\"k\">def</span> <span class=\"nf\">func</span><span class=\"p\">(</span><span class=\"n\">a</span><span class=\"p\">,</span> <span class=\"n\">x</span><span class=\"p\">):</span>\n   <span class=\"k\">return</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">0</span><span class=\"p\">]</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">2</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">anp</span><span class=\"o\">.</span><span class=\"n\">sinh</span><span class=\"p\">(</span><span class=\"n\">x</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>For multiple x values func can be of the form</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"k\">def</span> <span class=\"nf\">func</span><span class=\"p\">(</span><span class=\"n\">a</span><span class=\"p\">,</span> <span class=\"n\">x</span><span class=\"p\">):</span>\n   <span class=\"p\">(</span><span class=\"n\">x1</span><span class=\"p\">,</span> <span class=\"n\">x2</span><span class=\"p\">)</span> <span class=\"o\">=</span> <span class=\"n\">x</span>\n   <span class=\"k\">return</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">0</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x1</span> <span class=\"o\">**</span> <span class=\"mi\">2</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x2</span>\n</code></pre></div>\n\n<p>It is important that all numpy functions refer to autograd.numpy, otherwise the differentiation\nwill not work.</p></li>\n<li><strong>priors</strong> (list, optional):\npriors has to be a list with an entry for every parameter in the fit. The entries can either be\nObs (e.g. results from a previous fit) or strings containing a value and an error formatted like\n0.548(23), 500(40) or 0.5(0.4)</li>\n<li><strong>silent</strong> (bool, optional):\nIf true all output to the console is omitted (default False).</li>\n<li><strong>initial_guess</strong> (list):\ncan provide an initial guess for the input parameters. Relevant for\nnon-linear fits with many parameters.</li>\n<li><strong>method</strong> (str, optional):\ncan be used to choose an alternative method for the minimization of chisquare.\nThe possible methods are the ones which can be used for scipy.optimize.minimize and\nmigrad of iminuit. If no method is specified, Levenberg-Marquard is used.\nReliable alternatives are migrad, Powell and Nelder-Mead.</li>\n<li><strong>correlated_fit</strong> (bool):\nIf True, use the full inverse covariance matrix in the definition of the chisquare cost function.\nFor details about how the covariance matrix is estimated see <code>pyerrors.obs.covariance</code>.\nIn practice the correlation matrix is Cholesky decomposed and inverted (instead of the covariance matrix).\nThis procedure should be numerically more stable as the correlation matrix is typically better conditioned (Jacobi preconditioning).\nAt the moment this option only works for <code>prior==None</code> and when no <code>method</code> is given.</li>\n<li><strong>expected_chisquare</strong> (bool):\nIf True estimates the expected chisquare which is\ncorrected by effects caused by correlated input data (default False).</li>\n<li><strong>resplot</strong> (bool):\nIf True, a plot which displays fit, data and residuals is generated (default False).</li>\n<li><strong>qqplot</strong> (bool):\nIf True, a quantile-quantile plot of the fit result is generated (default False).</li>\n</ul>\n", "signature": "(x, y, func, priors=None, silent=False, **kwargs)", "funcdef": "def"}, "pyerrors.fits.total_least_squares": {"fullname": "pyerrors.fits.total_least_squares", "modulename": "pyerrors.fits", "qualname": "total_least_squares", "type": "function", "doc": "<p>Performs a non-linear fit to y = func(x) and returns a list of Obs corresponding to the fit parameters.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>x</strong> (list):\nlist of Obs, or a tuple of lists of Obs</li>\n<li><strong>y</strong> (list):\nlist of Obs. The dvalues of the Obs are used as x- and yerror for the fit.</li>\n<li><p><strong>func</strong> (object):\nfunc has to be of the form</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"kn\">import</span> <span class=\"nn\">autograd.numpy</span> <span class=\"k\">as</span> <span class=\"nn\">anp</span>\n\n<span class=\"k\">def</span> <span class=\"nf\">func</span><span class=\"p\">(</span><span class=\"n\">a</span><span class=\"p\">,</span> <span class=\"n\">x</span><span class=\"p\">):</span>\n   <span class=\"k\">return</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">0</span><span class=\"p\">]</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">2</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">anp</span><span class=\"o\">.</span><span class=\"n\">sinh</span><span class=\"p\">(</span><span class=\"n\">x</span><span class=\"p\">)</span>\n</code></pre></div>\n\n<p>For multiple x values func can be of the form</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"k\">def</span> <span class=\"nf\">func</span><span class=\"p\">(</span><span class=\"n\">a</span><span class=\"p\">,</span> <span class=\"n\">x</span><span class=\"p\">):</span>\n   <span class=\"p\">(</span><span class=\"n\">x1</span><span class=\"p\">,</span> <span class=\"n\">x2</span><span class=\"p\">)</span> <span class=\"o\">=</span> <span class=\"n\">x</span>\n   <span class=\"k\">return</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">0</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x1</span> <span class=\"o\">**</span> <span class=\"mi\">2</span> <span class=\"o\">+</span> <span class=\"n\">a</span><span class=\"p\">[</span><span class=\"mi\">1</span><span class=\"p\">]</span> <span class=\"o\">*</span> <span class=\"n\">x2</span>\n</code></pre></div>\n\n<p>It is important that all numpy functions refer to autograd.numpy, otherwise the differentiation\nwill not work.</p></li>\n<li><strong>silent</strong> (bool, optional):\nIf true all output to the console is omitted (default False).</li>\n<li><strong>initial_guess</strong> (list):\ncan provide an initial guess for the input parameters. Relevant for non-linear\nfits with many parameters.</li>\n<li><strong>expected_chisquare</strong> (bool):\nIf true prints the expected chisquare which is\ncorrected by effects caused by correlated input data.\nThis can take a while as the full correlation matrix\nhas to be calculated (default False).</li>\n</ul>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>Based on the orthogonal distance regression module of scipy</p>\n", "signature": "(x, y, func, silent=False, **kwargs)", "funcdef": "def"}, "pyerrors.fits.fit_lin": {"fullname": "pyerrors.fits.fit_lin", "modulename": "pyerrors.fits", "qualname": "fit_lin", "type": "function", "doc": "<p>Performs a linear fit to y = n + m * x and returns two Obs n, m.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>x</strong> (list):\nCan either be a list of floats in which case no xerror is assumed, or\na list of Obs, where the dvalues of the Obs are used as xerror for the fit.</li>\n<li><strong>y</strong> (list):\nList of Obs, the dvalues of the Obs are used as yerror for the fit.</li>\n</ul>\n", "signature": "(x, y, **kwargs)", "funcdef": "def"}, "pyerrors.fits.qqplot": {"fullname": "pyerrors.fits.qqplot", "modulename": "pyerrors.fits", "qualname": "qqplot", "type": "function", "doc": "<p>Generates a quantile-quantile plot of the fit result which can be used to\ncheck if the residuals of the fit are gaussian distributed.</p>\n", "signature": "(x, o_y, func, p)", "funcdef": "def"}, "pyerrors.fits.residual_plot": {"fullname": "pyerrors.fits.residual_plot", "modulename": "pyerrors.fits", "qualname": "residual_plot", "type": "function", "doc": "<p>Generates a plot which compares the fit to the data and displays the corresponding residuals</p>\n", "signature": "(x, y, func, fit_res)", "funcdef": "def"}, "pyerrors.fits.error_band": {"fullname": "pyerrors.fits.error_band", "modulename": "pyerrors.fits", "qualname": "error_band", "type": "function", "doc": "<p>Returns the error band for an array of sample values x, for given fit function func with optimized parameters beta.</p>\n", "signature": "(x, func, beta)", "funcdef": "def"}, "pyerrors.fits.ks_test": {"fullname": "pyerrors.fits.ks_test", "modulename": "pyerrors.fits", "qualname": "ks_test", "type": "function", "doc": "<p>Performs a Kolmogorov\u2013Smirnov test for the p-values of all fit object.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>objects</strong> (list):\nList of fit results to include in the analysis (optional).</li>\n</ul>\n", "signature": "(objects=None)", "funcdef": "def"}, "pyerrors.input": {"fullname": "pyerrors.input", "modulename": "pyerrors.input", "type": "module", "doc": "<p><code>pyerrors</code> includes an <code>input</code> submodule in which input routines and parsers for the output of various numerical programs are contained.</p>\n\n<h1 id=\"jackknife-samples\">Jackknife samples</h1>\n\n<p>For comparison with other analysis workflows <code>pyerrors</code> can also generate jackknife samples from an <code>Obs</code> object or import jackknife samples into an <code>Obs</code> object.\nSee <code>pyerrors.obs.Obs.export_jackknife</code> and <code>pyerrors.obs.import_jackknife</code> for details.</p>\n"}, "pyerrors.input.bdio": {"fullname": "pyerrors.input.bdio", "modulename": "pyerrors.input.bdio", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.bdio.read_ADerrors": {"fullname": "pyerrors.input.bdio.read_ADerrors", "modulename": "pyerrors.input.bdio", "qualname": "read_ADerrors", "type": "function", "doc": "<p>Extract generic MCMC data from a bdio file</p>\n\n<p>read_ADerrors requires bdio to be compiled into a shared library. This can be achieved by\nadding the flag -fPIC to CC and changing the all target to</p>\n\n<p>all:                bdio.o $(LIBDIR)\n            gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o\n            cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>file_path -- path to the bdio file</strong></li>\n<li><strong>bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)</strong></li>\n</ul>\n", "signature": "(file_path, bdio_path='./libbdio.so', **kwargs)", "funcdef": "def"}, "pyerrors.input.bdio.write_ADerrors": {"fullname": "pyerrors.input.bdio.write_ADerrors", "modulename": "pyerrors.input.bdio", "qualname": "write_ADerrors", "type": "function", "doc": "<p>Write Obs to a bdio file according to ADerrors conventions</p>\n\n<p>read_mesons requires bdio to be compiled into a shared library. This can be achieved by\nadding the flag -fPIC to CC and changing the all target to</p>\n\n<p>all:                bdio.o $(LIBDIR)\n            gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o\n            cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>file_path -- path to the bdio file</strong></li>\n<li><strong>bdio_path -- path to the shared bdio library libbdio.so (default ./libbdio.so)</strong></li>\n</ul>\n", "signature": "(obs_list, file_path, bdio_path='./libbdio.so', **kwargs)", "funcdef": "def"}, "pyerrors.input.bdio.read_mesons": {"fullname": "pyerrors.input.bdio.read_mesons", "modulename": "pyerrors.input.bdio", "qualname": "read_mesons", "type": "function", "doc": "<p>Extract mesons data from a bdio file and return it as a dictionary</p>\n\n<p>The dictionary can be accessed with a tuple consisting of (type, source_position, kappa1, kappa2)</p>\n\n<p>read_mesons requires bdio to be compiled into a shared library. This can be achieved by\nadding the flag -fPIC to CC and changing the all target to</p>\n\n<p>all:                bdio.o $(LIBDIR)\n            gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o\n            cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>file_path</strong> (str):\npath to the bdio file</li>\n<li><strong>bdio_path</strong> (str):\npath to the shared bdio library libbdio.so (default ./libbdio.so)</li>\n<li><strong>start</strong> (int):\nThe first configuration to be read (default 1)</li>\n<li><strong>stop</strong> (int):\nThe last configuration to be read (default None)</li>\n<li><strong>step</strong> (int):\nFixed step size between two measurements (default 1)</li>\n<li><strong>alternative_ensemble_name</strong> (str):\nManually overwrite ensemble name</li>\n</ul>\n", "signature": "(file_path, bdio_path='./libbdio.so', **kwargs)", "funcdef": "def"}, "pyerrors.input.bdio.read_dSdm": {"fullname": "pyerrors.input.bdio.read_dSdm", "modulename": "pyerrors.input.bdio", "qualname": "read_dSdm", "type": "function", "doc": "<p>Extract dSdm data from a bdio file and return it as a dictionary</p>\n\n<p>The dictionary can be accessed with a tuple consisting of (type, kappa)</p>\n\n<p>read_dSdm requires bdio to be compiled into a shared library. This can be achieved by\nadding the flag -fPIC to CC and changing the all target to</p>\n\n<p>all:                bdio.o $(LIBDIR)\n            gcc -shared -Wl,-soname,libbdio.so -o $(BUILDDIR)/libbdio.so $(BUILDDIR)/bdio.o\n            cp $(BUILDDIR)/libbdio.so $(LIBDIR)/</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>file_path</strong> (str):\npath to the bdio file</li>\n<li><strong>bdio_path</strong> (str):\npath to the shared bdio library libbdio.so (default ./libbdio.so)</li>\n<li><strong>start</strong> (int):\nThe first configuration to be read (default 1)</li>\n<li><strong>stop</strong> (int):\nThe last configuration to be read (default None)</li>\n<li><strong>step</strong> (int):\nFixed step size between two measurements (default 1)</li>\n<li><strong>alternative_ensemble_name</strong> (str):\nManually overwrite ensemble name</li>\n</ul>\n", "signature": "(file_path, bdio_path='./libbdio.so', **kwargs)", "funcdef": "def"}, "pyerrors.input.dobs": {"fullname": "pyerrors.input.dobs", "modulename": "pyerrors.input.dobs", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.dobs.create_pobs_string": {"fullname": "pyerrors.input.dobs.create_pobs_string", "modulename": "pyerrors.input.dobs", "qualname": "create_pobs_string", "type": "function", "doc": "<p>Export a list of Obs or structures containing Obs to an xml string\naccording to the Zeuthen pobs format.</p>\n\n<p>Tags are not written or recovered automatically. The separator | is removed from the replica names.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obsl</strong> (list):\nList of Obs that will be exported.\nThe Obs inside a structure have to be defined on the same ensemble.</li>\n<li><strong>name</strong> (str):\nThe name of the observable.</li>\n<li><strong>spec</strong> (str):\nOptional string that describes the contents of the file.</li>\n<li><strong>origin</strong> (str):\nSpecify where the data has its origin.</li>\n<li><strong>symbol</strong> (list):\nA list of symbols that describe the observables to be written. May be empty.</li>\n<li><strong>enstag</strong> (str):\nEnstag that is written to pobs. If None, the ensemble name is used.</li>\n</ul>\n", "signature": "(obsl, name, spec='', origin='', symbol=[], enstag=None)", "funcdef": "def"}, "pyerrors.input.dobs.write_pobs": {"fullname": "pyerrors.input.dobs.write_pobs", "modulename": "pyerrors.input.dobs", "qualname": "write_pobs", "type": "function", "doc": "<p>Export a list of Obs or structures containing Obs to a .xml.gz file\naccording to the Zeuthen pobs format.</p>\n\n<p>Tags are not written or recovered automatically. The separator | is removed from the replica names.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obsl</strong> (list):\nList of Obs that will be exported.\nThe Obs inside a structure have to be defined on the same ensemble.</li>\n<li><strong>fname</strong> (str):\nFilename of the output file.</li>\n<li><strong>name</strong> (str):\nThe name of the observable.</li>\n<li><strong>spec</strong> (str):\nOptional string that describes the contents of the file.</li>\n<li><strong>origin</strong> (str):\nSpecify where the data has its origin.</li>\n<li><strong>symbol</strong> (list):\nA list of symbols that describe the observables to be written. May be empty.</li>\n<li><strong>enstag</strong> (str):\nEnstag that is written to pobs. If None, the ensemble name is used.</li>\n<li><strong>gz</strong> (bool):\nIf True, the output is a gzipped xml. If False, the output is an xml file.</li>\n</ul>\n", "signature": "(\n    obsl,\n    fname,\n    name,\n    spec='',\n    origin='',\n    symbol=[],\n    enstag=None,\n    gz=True\n)", "funcdef": "def"}, "pyerrors.input.dobs.read_pobs": {"fullname": "pyerrors.input.dobs.read_pobs", "modulename": "pyerrors.input.dobs", "qualname": "read_pobs", "type": "function", "doc": "<p>Import a list of Obs from an xml.gz file in the Zeuthen pobs format.</p>\n\n<p>Tags are not written or recovered automatically.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>fname</strong> (str):\nFilename of the input file.</li>\n<li><strong>full_output</strong> (bool):\nIf True, a dict containing auxiliary information and the data is returned.\nIf False, only the data is returned as list.</li>\n<li><strong>separatior_insertion</strong> (str or int):\nstr: replace all occurences of \"separator_insertion\" within the replica names\nby \"|%s\" % (separator_insertion) when constructing the names of the replica.\nint: Insert the separator \"|\" at the position given by separator_insertion.\nNone (default): Replica names remain unchanged.</li>\n</ul>\n", "signature": "(fname, full_output=False, gz=True, separator_insertion=None)", "funcdef": "def"}, "pyerrors.input.dobs.import_dobs_string": {"fullname": "pyerrors.input.dobs.import_dobs_string", "modulename": "pyerrors.input.dobs", "qualname": "import_dobs_string", "type": "function", "doc": "<p>Import a list of Obs from a string in the Zeuthen dobs format.</p>\n\n<p>Tags are not written or recovered automatically.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>content</strong> (str):\nXML string containing the data</li>\n<li><strong>noemtpy</strong> (bool):\nIf True, ensembles with no contribution to the Obs are not included.\nIf False, ensembles are included as written in the file, possibly with vanishing entries.</li>\n<li><strong>full_output</strong> (bool):\nIf True, a dict containing auxiliary information and the data is returned.\nIf False, only the data is returned as list.</li>\n<li><strong>separatior_insertion</strong> (str, int or bool):\nstr: replace all occurences of \"separator_insertion\" within the replica names\nby \"|%s\" % (separator_insertion) when constructing the names of the replica.\nint: Insert the separator \"|\" at the position given by separator_insertion.\nTrue (default): separator \"|\" is inserted after len(ensname), assuming that the\nensemble name is a prefix to the replica name.\nNone or False: No separator is inserted.</li>\n</ul>\n", "signature": "(content, noempty=False, full_output=False, separator_insertion=True)", "funcdef": "def"}, "pyerrors.input.dobs.read_dobs": {"fullname": "pyerrors.input.dobs.read_dobs", "modulename": "pyerrors.input.dobs", "qualname": "read_dobs", "type": "function", "doc": "<p>Import a list of Obs from an xml.gz file in the Zeuthen dobs format.</p>\n\n<p>Tags are not written or recovered automatically.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>fname</strong> (str):\nFilename of the input file.</li>\n<li><strong>noemtpy</strong> (bool):\nIf True, ensembles with no contribution to the Obs are not included.\nIf False, ensembles are included as written in the file.</li>\n<li><strong>full_output</strong> (bool):\nIf True, a dict containing auxiliary information and the data is returned.\nIf False, only the data is returned as list.</li>\n<li><strong>gz</strong> (bool):\nIf True, assumes that data is gzipped. If False, assumes XML file.</li>\n<li><strong>separatior_insertion</strong> (str, int or bool):\nstr: replace all occurences of \"separator_insertion\" within the replica names\nby \"|%s\" % (separator_insertion) when constructing the names of the replica.\nint: Insert the separator \"|\" at the position given by separator_insertion.\nTrue (default): separator \"|\" is inserted after len(ensname), assuming that the\nensemble name is a prefix to the replica name.\nNone or False: No separator is inserted.</li>\n</ul>\n", "signature": "(\n    fname,\n    noempty=False,\n    full_output=False,\n    gz=True,\n    separator_insertion=True\n)", "funcdef": "def"}, "pyerrors.input.dobs.create_dobs_string": {"fullname": "pyerrors.input.dobs.create_dobs_string", "modulename": "pyerrors.input.dobs", "qualname": "create_dobs_string", "type": "function", "doc": "<p>Generate the string for the export of a list of Obs or structures containing Obs\nto a .xml.gz file according to the Zeuthen dobs format.</p>\n\n<p>Tags are not written or recovered automatically. The separator |is removed from the replica names.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obsl</strong> (list):\nList of Obs that will be exported.\nThe Obs inside a structure do not have to be defined on the same set of configurations,\nbut the storage requirement is increased, if this is not the case.</li>\n<li><strong>name</strong> (str):\nThe name of the observable.</li>\n<li><strong>spec</strong> (str):\nOptional string that describes the contents of the file.</li>\n<li><strong>origin</strong> (str):\nSpecify where the data has its origin.</li>\n<li><strong>symbol</strong> (list):\nA list of symbols that describe the observables to be written. May be empty.</li>\n<li><strong>who</strong> (str):\nProvide the name of the person that exports the data.</li>\n<li><strong>enstags</strong> (dict):\nProvide alternative enstag for ensembles in the form enstags = {ename: enstag}\nOtherwise, the ensemble name is used.</li>\n</ul>\n", "signature": "(\n    obsl,\n    name,\n    spec='dobs v1.0',\n    origin='',\n    symbol=[],\n    who=None,\n    enstags={}\n)", "funcdef": "def"}, "pyerrors.input.dobs.write_dobs": {"fullname": "pyerrors.input.dobs.write_dobs", "modulename": "pyerrors.input.dobs", "qualname": "write_dobs", "type": "function", "doc": "<p>Export a list of Obs or structures containing Obs to a .xml.gz file\naccording to the Zeuthen dobs format.</p>\n\n<p>Tags are not written or recovered automatically. The separator | is removed from the replica names.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obsl</strong> (list):\nList of Obs that will be exported.\nThe Obs inside a structure do not have to be defined on the same set of configurations,\nbut the storage requirement is increased, if this is not the case.</li>\n<li><strong>fname</strong> (str):\nFilename of the output file.</li>\n<li><strong>name</strong> (str):\nThe name of the observable.</li>\n<li><strong>spec</strong> (str):\nOptional string that describes the contents of the file.</li>\n<li><strong>origin</strong> (str):\nSpecify where the data has its origin.</li>\n<li><strong>symbol</strong> (list):\nA list of symbols that describe the observables to be written. May be empty.</li>\n<li><strong>who</strong> (str):\nProvide the name of the person that exports the data.</li>\n<li><strong>enstags</strong> (dict):\nProvide alternative enstag for ensembles in the form enstags = {ename: enstag}\nOtherwise, the ensemble name is used.</li>\n<li><strong>gz</strong> (bool):\nIf True, the output is a gzipped XML. If False, the output is a XML file.</li>\n</ul>\n", "signature": "(\n    obsl,\n    fname,\n    name,\n    spec='dobs v1.0',\n    origin='',\n    symbol=[],\n    who=None,\n    enstags={},\n    gz=True\n)", "funcdef": "def"}, "pyerrors.input.hadrons": {"fullname": "pyerrors.input.hadrons", "modulename": "pyerrors.input.hadrons", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.hadrons.read_meson_hd5": {"fullname": "pyerrors.input.hadrons.read_meson_hd5", "modulename": "pyerrors.input.hadrons", "qualname": "read_meson_hd5", "type": "function", "doc": "<p>Read hadrons meson hdf5 file and extract the meson labeled 'meson'</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath to the files to read</li>\n<li><strong>filestem</strong> (str):\nnamestem of the files to read</li>\n<li><strong>ens_id</strong> (str):\nname of the ensemble, required for internal bookkeeping</li>\n<li><strong>meson</strong> (str):\nlabel of the meson to be extracted, standard value meson_0 which\ncorresponds to the pseudoscalar pseudoscalar two-point function.</li>\n<li><strong>idl</strong> (range):\nIf specified only configurations in the given range are read in.</li>\n</ul>\n", "signature": "(path, filestem, ens_id, meson='meson_0', idl=None)", "funcdef": "def"}, "pyerrors.input.hadrons.Npr_matrix": {"fullname": "pyerrors.input.hadrons.Npr_matrix", "modulename": "pyerrors.input.hadrons", "qualname": "Npr_matrix", "type": "class", "doc": "<p>ndarray(shape, dtype=float, buffer=None, offset=0,\n        strides=None, order=None)</p>\n\n<p>An array object represents a multidimensional, homogeneous array\nof fixed-size items.  An associated data-type object describes the\nformat of each element in the array (its byte-order, how many bytes it\noccupies in memory, whether it is an integer, a floating point number,\nor something else, etc.)</p>\n\n<p>Arrays should be constructed using <code>array</code>, <code>zeros</code> or <code>empty</code> (refer\nto the See Also section below).  The parameters given here refer to\na low-level method (<code>ndarray(...)</code>) for instantiating an array.</p>\n\n<p>For more information, refer to the <code>numpy</code> module and examine the\nmethods and attributes of an array.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>(for the __new__ method; see Notes below)</strong></li>\n<li><strong>shape</strong> (tuple of ints):\nShape of created array.</li>\n<li><strong>dtype</strong> (data-type, optional):\nAny object that can be interpreted as a numpy data type.</li>\n<li><strong>buffer</strong> (object exposing buffer interface, optional):\nUsed to fill the array with data.</li>\n<li><strong>offset</strong> (int, optional):\nOffset of array data in buffer.</li>\n<li><strong>strides</strong> (tuple of ints, optional):\nStrides of data in memory.</li>\n<li><strong>order</strong> ({'C', 'F'}, optional):\nRow-major (C-style) or column-major (Fortran-style) order.</li>\n</ul>\n\n<h6 id=\"attributes\">Attributes</h6>\n\n<ul>\n<li><strong>T</strong> (ndarray):\nTranspose of the array.</li>\n<li><strong>data</strong> (buffer):\nThe array's elements, in memory.</li>\n<li><strong>dtype</strong> (dtype object):\nDescribes the format of the elements in the array.</li>\n<li><strong>flags</strong> (dict):\nDictionary containing information related to memory use, e.g.,\n'C_CONTIGUOUS', 'OWNDATA', 'WRITEABLE', etc.</li>\n<li><strong>flat</strong> (numpy.flatiter object):\nFlattened version of the array as an iterator.  The iterator\nallows assignments, e.g., <code>x.flat = 3</code> (See <code>ndarray.flat</code> for\nassignment examples; TODO).</li>\n<li><strong>imag</strong> (ndarray):\nImaginary part of the array.</li>\n<li><strong>real</strong> (ndarray):\nReal part of the array.</li>\n<li><strong>size</strong> (int):\nNumber of elements in the array.</li>\n<li><strong>itemsize</strong> (int):\nThe memory use of each array element in bytes.</li>\n<li><strong>nbytes</strong> (int):\nThe total number of bytes required to store the array data,\ni.e., <code>itemsize * size</code>.</li>\n<li><strong>ndim</strong> (int):\nThe array's number of dimensions.</li>\n<li><strong>shape</strong> (tuple of ints):\nShape of the array.</li>\n<li><strong>strides</strong> (tuple of ints):\nThe step-size required to move from one element to the next in\nmemory. For example, a contiguous <code>(3, 4)</code> array of type\n<code>int16</code> in C-order has strides <code>(8, 2)</code>.  This implies that\nto move from element to element in memory requires jumps of 2 bytes.\nTo move from row-to-row, one needs to jump 8 bytes at a time\n(<code>2 * 4</code>).</li>\n<li><strong>ctypes</strong> (ctypes object):\nClass containing properties of the array needed for interaction\nwith ctypes.</li>\n<li><strong>base</strong> (ndarray):\nIf the array is a view into another array, that array is its <code>base</code>\n(unless that array is also a view).  The <code>base</code> array is where the\narray data is actually stored.</li>\n</ul>\n\n<h6 id=\"see-also\">See Also</h6>\n\n<p><code>array</code>:  Construct an array. <br />\n<code>zeros</code>:  Create an array, each element of which is zero. <br />\n<code>empty</code>:  Create an array, but leave its allocated memory unchanged (i.e.,\nit contains \"garbage\"). <br />\n<code>dtype</code>:  Create a data-type. <br />\n<code>numpy.typing.NDArray</code>:  An ndarray alias :term:<code>generic &lt;generic type&gt;</code>\nw.r.t. its <code>dtype.type &lt;numpy.dtype.type&gt;</code>.  </p>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>There are two modes of creating an array using <code>__new__</code>:</p>\n\n<ol>\n<li>If <code>buffer</code> is None, then only <code>shape</code>, <code>dtype</code>, and <code>order</code>\nare used.</li>\n<li>If <code>buffer</code> is an object exposing the buffer interface, then\nall keywords are interpreted.</li>\n</ol>\n\n<p>No <code>__init__</code> method is needed because the array is fully initialized\nafter the <code>__new__</code> method.</p>\n\n<h6 id=\"examples\">Examples</h6>\n\n<p>These examples illustrate the low-level <code>ndarray</code> constructor.  Refer\nto the <code>See Also</code> section above for easier ways of constructing an\nndarray.</p>\n\n<p>First mode, <code>buffer</code> is None:</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"gp\">&gt;&gt;&gt; </span><span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">ndarray</span><span class=\"p\">(</span><span class=\"n\">shape</span><span class=\"o\">=</span><span class=\"p\">(</span><span class=\"mi\">2</span><span class=\"p\">,</span><span class=\"mi\">2</span><span class=\"p\">),</span> <span class=\"n\">dtype</span><span class=\"o\">=</span><span class=\"nb\">float</span><span class=\"p\">,</span> <span class=\"n\">order</span><span class=\"o\">=</span><span class=\"s1\">&#39;F&#39;</span><span class=\"p\">)</span>\n<span class=\"go\">array([[0.0e+000, 0.0e+000], # random</span>\n<span class=\"go\">       [     nan, 2.5e-323]])</span>\n</code></pre></div>\n\n<p>Second mode:</p>\n\n<div class=\"pdoc-code codehilite\"><pre><span></span><code><span class=\"gp\">&gt;&gt;&gt; </span><span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">ndarray</span><span class=\"p\">((</span><span class=\"mi\">2</span><span class=\"p\">,),</span> <span class=\"n\">buffer</span><span class=\"o\">=</span><span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">array</span><span class=\"p\">([</span><span class=\"mi\">1</span><span class=\"p\">,</span><span class=\"mi\">2</span><span class=\"p\">,</span><span class=\"mi\">3</span><span class=\"p\">]),</span>\n<span class=\"gp\">... </span>           <span class=\"n\">offset</span><span class=\"o\">=</span><span class=\"n\">np</span><span class=\"o\">.</span><span class=\"n\">int_</span><span class=\"p\">()</span><span class=\"o\">.</span><span class=\"n\">itemsize</span><span class=\"p\">,</span>\n<span class=\"gp\">... </span>           <span class=\"n\">dtype</span><span class=\"o\">=</span><span class=\"nb\">int</span><span class=\"p\">)</span> <span class=\"c1\"># offset = 1*itemsize, i.e. skip first element</span>\n<span class=\"go\">array([2, 3])</span>\n</code></pre></div>\n", "bases": "numpy.ndarray"}, "pyerrors.input.hadrons.Npr_matrix.__init__": {"fullname": "pyerrors.input.hadrons.Npr_matrix.__init__", "modulename": "pyerrors.input.hadrons", "qualname": "Npr_matrix.__init__", "type": "function", "doc": "<p></p>\n", "signature": "()", "funcdef": "def"}, "pyerrors.input.hadrons.Npr_matrix.g5H": {"fullname": "pyerrors.input.hadrons.Npr_matrix.g5H", "modulename": "pyerrors.input.hadrons", "qualname": "Npr_matrix.g5H", "type": "variable", "doc": "<p>Gamma_5 hermitean conjugate</p>\n\n<p>Uses the fact that the propagator is gamma5 hermitean, so just the\nin and out momenta of the propagator are exchanged.</p>\n"}, "pyerrors.input.hadrons.read_ExternalLeg_hd5": {"fullname": "pyerrors.input.hadrons.read_ExternalLeg_hd5", "modulename": "pyerrors.input.hadrons", "qualname": "read_ExternalLeg_hd5", "type": "function", "doc": "<p>Read hadrons ExternalLeg hdf5 file and output an array of CObs</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath to the files to read</li>\n<li><strong>filestem</strong> (str):\nnamestem of the files to read</li>\n<li><strong>ens_id</strong> (str):\nname of the ensemble, required for internal bookkeeping</li>\n<li><strong>idl</strong> (range):\nIf specified only configurations in the given range are read in.</li>\n</ul>\n", "signature": "(path, filestem, ens_id, idl=None)", "funcdef": "def"}, "pyerrors.input.hadrons.read_Bilinear_hd5": {"fullname": "pyerrors.input.hadrons.read_Bilinear_hd5", "modulename": "pyerrors.input.hadrons", "qualname": "read_Bilinear_hd5", "type": "function", "doc": "<p>Read hadrons Bilinear hdf5 file and output an array of CObs</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath to the files to read</li>\n<li><strong>filestem</strong> (str):\nnamestem of the files to read</li>\n<li><strong>ens_id</strong> (str):\nname of the ensemble, required for internal bookkeeping</li>\n<li><strong>idl</strong> (range):\nIf specified only configurations in the given range are read in.</li>\n</ul>\n", "signature": "(path, filestem, ens_id, idl=None)", "funcdef": "def"}, "pyerrors.input.hadrons.read_Fourquark_hd5": {"fullname": "pyerrors.input.hadrons.read_Fourquark_hd5", "modulename": "pyerrors.input.hadrons", "qualname": "read_Fourquark_hd5", "type": "function", "doc": "<p>Read hadrons FourquarkFullyConnected hdf5 file and output an array of CObs</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath to the files to read</li>\n<li><strong>filestem</strong> (str):\nnamestem of the files to read</li>\n<li><strong>ens_id</strong> (str):\nname of the ensemble, required for internal bookkeeping</li>\n<li><strong>idl</strong> (range):\nIf specified only configurations in the given range are read in.</li>\n<li><strong>vertices</strong> (list):\nVertex functions to be extracted.</li>\n</ul>\n", "signature": "(path, filestem, ens_id, idl=None, vertices=['VA', 'AV'])", "funcdef": "def"}, "pyerrors.input.json": {"fullname": "pyerrors.input.json", "modulename": "pyerrors.input.json", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.json.create_json_string": {"fullname": "pyerrors.input.json.create_json_string", "modulename": "pyerrors.input.json", "qualname": "create_json_string", "type": "function", "doc": "<p>Generate the string for the export of a list of Obs or structures containing Obs\nto a .json(.gz) file</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>ol</strong> (list):\nList of objects that will be exported. At the moment, these objects can be\neither of: Obs, list, numpy.ndarray, Corr.\nAll Obs inside a structure have to be defined on the same set of configurations.</li>\n<li><strong>description</strong> (str):\nOptional string that describes the contents of the json file.</li>\n<li><strong>indent</strong> (int):\nSpecify the indentation level of the json file. None or 0 is permissible and\nsaves disk space.</li>\n</ul>\n", "signature": "(ol, description='', indent=1)", "funcdef": "def"}, "pyerrors.input.json.dump_to_json": {"fullname": "pyerrors.input.json.dump_to_json", "modulename": "pyerrors.input.json", "qualname": "dump_to_json", "type": "function", "doc": "<p>Export a list of Obs or structures containing Obs to a .json(.gz) file</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>ol</strong> (list):\nList of objects that will be exported. At the moment, these objects can be\neither of: Obs, list, numpy.ndarray, Corr.\nAll Obs inside a structure have to be defined on the same set of configurations.</li>\n<li><strong>fname</strong> (str):\nFilename of the output file.</li>\n<li><strong>description</strong> (str):\nOptional string that describes the contents of the json file.</li>\n<li><strong>indent</strong> (int):\nSpecify the indentation level of the json file. None or 0 is permissible and\nsaves disk space.</li>\n<li><strong>gz</strong> (bool):\nIf True, the output is a gzipped json. If False, the output is a json file.</li>\n</ul>\n", "signature": "(ol, fname, description='', indent=1, gz=True)", "funcdef": "def"}, "pyerrors.input.json.import_json_string": {"fullname": "pyerrors.input.json.import_json_string", "modulename": "pyerrors.input.json", "qualname": "import_json_string", "type": "function", "doc": "<p>Reconstruct a list of Obs or structures containing Obs from a json string.</p>\n\n<p>The following structures are supported: Obs, list, numpy.ndarray, Corr\nIf the list contains only one element, it is unpacked from the list.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>json_string</strong> (str):\njson string containing the data.</li>\n<li><strong>verbose</strong> (bool):\nPrint additional information that was written to the file.</li>\n<li><strong>full_output</strong> (bool):\nIf True, a dict containing auxiliary information and the data is returned.\nIf False, only the data is returned.</li>\n</ul>\n", "signature": "(json_string, verbose=True, full_output=False)", "funcdef": "def"}, "pyerrors.input.json.load_json": {"fullname": "pyerrors.input.json.load_json", "modulename": "pyerrors.input.json", "qualname": "load_json", "type": "function", "doc": "<p>Import a list of Obs or structures containing Obs from a .json(.gz) file.</p>\n\n<p>The following structures are supported: Obs, list, numpy.ndarray, Corr\nIf the list contains only one element, it is unpacked from the list.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>fname</strong> (str):\nFilename of the input file.</li>\n<li><strong>verbose</strong> (bool):\nPrint additional information that was written to the file.</li>\n<li><strong>gz</strong> (bool):\nIf True, assumes that data is gzipped. If False, assumes JSON file.</li>\n<li><strong>full_output</strong> (bool):\nIf True, a dict containing auxiliary information and the data is returned.\nIf False, only the data is returned.</li>\n</ul>\n", "signature": "(fname, verbose=True, gz=True, full_output=False)", "funcdef": "def"}, "pyerrors.input.json.dump_dict_to_json": {"fullname": "pyerrors.input.json.dump_dict_to_json", "modulename": "pyerrors.input.json", "qualname": "dump_dict_to_json", "type": "function", "doc": "<p>Export a dict of Obs or structures containing Obs to a .json(.gz) file</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>od</strong> (dict):\nDict of JSON valid structures and objects that will be exported.\nAt the moment, these objects can be either of: Obs, list, numpy.ndarray, Corr.\nAll Obs inside a structure have to be defined on the same set of configurations.</li>\n<li><strong>fname</strong> (str):\nFilename of the output file.</li>\n<li><strong>description</strong> (str):\nOptional string that describes the contents of the json file.</li>\n<li><strong>indent</strong> (int):\nSpecify the indentation level of the json file. None or 0 is permissible and\nsaves disk space.</li>\n<li><strong>reps</strong> (str):\nSpecify the structure of the placeholder in exported dict to be reps[0-9]+.</li>\n<li><strong>gz</strong> (bool):\nIf True, the output is a gzipped json. If False, the output is a json file.</li>\n</ul>\n", "signature": "(od, fname, description='', indent=1, reps='DICTOBS', gz=True)", "funcdef": "def"}, "pyerrors.input.json.load_json_dict": {"fullname": "pyerrors.input.json.load_json_dict", "modulename": "pyerrors.input.json", "qualname": "load_json_dict", "type": "function", "doc": "<p>Import a dict of Obs or structures containing Obs from a .json(.gz) file.</p>\n\n<p>The following structures are supported: Obs, list, numpy.ndarray, Corr</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>fname</strong> (str):\nFilename of the input file.</li>\n<li><strong>verbose</strong> (bool):\nPrint additional information that was written to the file.</li>\n<li><strong>gz</strong> (bool):\nIf True, assumes that data is gzipped. If False, assumes JSON file.</li>\n<li><strong>full_output</strong> (bool):\nIf True, a dict containing auxiliary information and the data is returned.\nIf False, only the data is returned.</li>\n<li><strong>reps</strong> (str):\nSpecify the structure of the placeholder in imported dict to be reps[0-9]+.</li>\n</ul>\n", "signature": "(fname, verbose=True, gz=True, full_output=False, reps='DICTOBS')", "funcdef": "def"}, "pyerrors.input.misc": {"fullname": "pyerrors.input.misc", "modulename": "pyerrors.input.misc", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.misc.read_pbp": {"fullname": "pyerrors.input.misc.read_pbp", "modulename": "pyerrors.input.misc", "qualname": "read_pbp", "type": "function", "doc": "<p>Read pbp format from given folder structure. Returns a list of length nrw</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>r_start</strong> (list):\nlist which contains the first config to be read for each replicum</li>\n<li><strong>r_stop</strong> (list):\nlist which contains the last config to be read for each replicum</li>\n</ul>\n", "signature": "(path, prefix, **kwargs)", "funcdef": "def"}, "pyerrors.input.openQCD": {"fullname": "pyerrors.input.openQCD", "modulename": "pyerrors.input.openQCD", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.openQCD.read_rwms": {"fullname": "pyerrors.input.openQCD.read_rwms", "modulename": "pyerrors.input.openQCD", "qualname": "read_rwms", "type": "function", "doc": "<p>Read rwms format from given folder structure. Returns a list of length nrw</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath that contains the data files</li>\n<li><strong>prefix</strong> (str):\nall files in path that start with prefix are considered as input files.\nMay be used together postfix to consider only special file endings.\nPrefix is ignored, if the keyword 'files' is used.</li>\n<li><strong>version</strong> (str):\nversion of openQCD, default 2.0</li>\n<li><strong>names</strong> (list):\nlist of names that is assigned to the data according according\nto the order in the file list. Use careful, if you do not provide file names!</li>\n<li><strong>r_start</strong> (list):\nlist which contains the first config to be read for each replicum</li>\n<li><strong>r_stop</strong> (list):\nlist which contains the last config to be read for each replicum</li>\n<li><strong>r_step</strong> (int):\ninteger that defines a fixed step size between two measurements (in units of configs)\nIf not given, r_step=1 is assumed.</li>\n<li><strong>postfix</strong> (str):\npostfix of the file to read, e.g. '.ms1' for openQCD-files</li>\n<li><strong>files</strong> (list):\nlist which contains the filenames to be read. No automatic detection of\nfiles performed if given.</li>\n<li><strong>print_err</strong> (bool):\nPrint additional information that is useful for debugging.</li>\n</ul>\n", "signature": "(path, prefix, version='2.0', names=None, **kwargs)", "funcdef": "def"}, "pyerrors.input.openQCD.extract_t0": {"fullname": "pyerrors.input.openQCD.extract_t0", "modulename": "pyerrors.input.openQCD", "qualname": "extract_t0", "type": "function", "doc": "<p>Extract t0 from given .ms.dat files. Returns t0 as Obs.</p>\n\n<p>It is assumed that all boundary effects have\nsufficiently decayed at x0=xmin.\nThe data around the zero crossing of t^2<E> - 0.3\nis fitted with a linear function\nfrom which the exact root is extracted.</p>\n\n<p>It is assumed that one measurement is performed for each config.\nIf this is not the case, the resulting idl, as well as the handling\nof r_start, r_stop and r_step is wrong and the user has to correct\nthis in the resulting observable.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\nPath to .ms.dat files</li>\n<li><strong>prefix</strong> (str):\nEnsemble prefix</li>\n<li><strong>dtr_read</strong> (int):\nDetermines how many trajectories should be skipped\nwhen reading the ms.dat files.\nCorresponds to dtr_cnfg / dtr_ms in the openQCD input file.</li>\n<li><strong>xmin</strong> (int):\nFirst timeslice where the boundary\neffects have sufficiently decayed.</li>\n<li><strong>spatial_extent</strong> (int):\nspatial extent of the lattice, required for normalization.</li>\n<li><strong>fit_range</strong> (int):\nNumber of data points left and right of the zero\ncrossing to be included in the linear fit. (Default: 5)</li>\n<li><strong>r_start</strong> (list):\nlist which contains the first config to be read for each replicum.</li>\n<li><strong>r_stop</strong> (list):\nlist which contains the last config to be read for each replicum.</li>\n<li><strong>r_step</strong> (int):\ninteger that defines a fixed step size between two measurements (in units of configs)\nIf not given, r_step=1 is assumed.</li>\n<li><strong>plaquette</strong> (bool):\nIf true extract the plaquette estimate of t0 instead.</li>\n<li><strong>names</strong> (list):\nlist of names that is assigned to the data according according\nto the order in the file list. Use careful, if you do not provide file names!</li>\n<li><strong>files</strong> (list):\nlist which contains the filenames to be read. No automatic detection of\nfiles performed if given.</li>\n<li><strong>plot_fit</strong> (bool):\nIf true, the fit for the extraction of t0 is shown together with the data.</li>\n<li><strong>assume_thermalization</strong> (bool):\nIf True: If the first record divided by the distance between two measurements is larger than\n1, it is assumed that this is due to thermalization and the first measurement belongs\nto the first config (default).\nIf False: The config numbers are assumed to be traj_number // difference</li>\n</ul>\n", "signature": "(path, prefix, dtr_read, xmin, spatial_extent, fit_range=5, **kwargs)", "funcdef": "def"}, "pyerrors.input.openQCD.read_qtop": {"fullname": "pyerrors.input.openQCD.read_qtop", "modulename": "pyerrors.input.openQCD", "qualname": "read_qtop", "type": "function", "doc": "<p>Read the topologial charge based on openQCD gradient flow measurements.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath of the measurement files</li>\n<li><strong>prefix</strong> (str):\nprefix of the measurement files, e.g. <prefix>_id0_r0.ms.dat.\nIgnored if file names are passed explicitly via keyword files.</li>\n<li><strong>c</strong> (double):\nSmearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</li>\n<li><strong>dtr_cnfg</strong> (int):\n(optional) parameter that specifies the number of measurements\nbetween two configs.\nIf it is not set, the distance between two measurements\nin the file is assumed to be the distance between two configurations.</li>\n<li><strong>steps</strong> (int):\n(optional) Distance between two configurations in units of trajectories /\ncycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</li>\n<li><strong>version</strong> (str):\nEither openQCD or sfqcd, depending on the data.</li>\n<li><strong>L</strong> (int):\nspatial length of the lattice in L/a.\nHAS to be set if version != sfqcd, since openQCD does not provide\nthis in the header</li>\n<li><strong>r_start</strong> (list):\nlist which contains the first config to be read for each replicum.</li>\n<li><strong>r_stop</strong> (list):\nlist which contains the last config to be read for each replicum.</li>\n<li><strong>files</strong> (list):\nspecify the exact files that need to be read\nfrom path, practical if e.g. only one replicum is needed</li>\n<li><strong>names</strong> (list):\nAlternative labeling for replicas/ensembles.\nHas to have the appropriate length.</li>\n<li><strong>Zeuthen_flow</strong> (bool):\n(optional) If True, the Zeuthen flow is used for Qtop. Only possible\nfor version=='sfqcd' If False, the Wilson flow is used.</li>\n<li><strong>integer_charge</strong> (bool):\nIf True, the charge is rounded towards the nearest integer on each config.</li>\n</ul>\n", "signature": "(path, prefix, c, dtr_cnfg=1, version='openQCD', **kwargs)", "funcdef": "def"}, "pyerrors.input.openQCD.qtop_projection": {"fullname": "pyerrors.input.openQCD.qtop_projection", "modulename": "pyerrors.input.openQCD", "qualname": "qtop_projection", "type": "function", "doc": "<p>Returns the projection to the topological charge sector defined by target.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (Obs):\nTopological charge.</li>\n<li><strong>target</strong> (int):\nSpecifies the topological sector to be reweighted to (default 0)</li>\n</ul>\n", "signature": "(qtop, target=0)", "funcdef": "def"}, "pyerrors.input.openQCD.read_qtop_sector": {"fullname": "pyerrors.input.openQCD.read_qtop_sector", "modulename": "pyerrors.input.openQCD", "qualname": "read_qtop_sector", "type": "function", "doc": "<p>Constructs reweighting factors to a specified topological sector.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath of the measurement files</li>\n<li><strong>prefix</strong> (str):\nprefix of the measurement files, e.g. <prefix>_id0_r0.ms.dat</li>\n<li><strong>c</strong> (double):\nSmearing radius in units of the lattice extent, c = sqrt(8 t0) / L</li>\n<li><strong>target</strong> (int):\nSpecifies the topological sector to be reweighted to (default 0)</li>\n<li><strong>dtr_cnfg</strong> (int):\n(optional) parameter that specifies the number of trajectories\nbetween two configs.\nif it is not set, the distance between two measurements\nin the file is assumed to be the distance between two configurations.</li>\n<li><strong>steps</strong> (int):\n(optional) Distance between two configurations in units of trajectories /\ncycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</li>\n<li><strong>version</strong> (str):\nversion string of the openQCD (sfqcd) version used to create\nthe ensemble. Default is 2.0. May also be set to sfqcd.</li>\n<li><strong>L</strong> (int):\nspatial length of the lattice in L/a.\nHAS to be set if version != sfqcd, since openQCD does not provide\nthis in the header</li>\n<li><strong>r_start</strong> (list):\noffset of the first ensemble, making it easier to match\nlater on with other Obs</li>\n<li><strong>r_stop</strong> (list):\nlast configurations that need to be read (per replicum)</li>\n<li><strong>files</strong> (list):\nspecify the exact files that need to be read\nfrom path, practical if e.g. only one replicum is needed</li>\n<li><strong>names</strong> (list):\nAlternative labeling for replicas/ensembles.\nHas to have the appropriate length</li>\n<li><strong>Zeuthen_flow</strong> (bool):\n(optional) If True, the Zeuthen flow is used for Qtop. Only possible\nfor version=='sfqcd' If False, the Wilson flow is used.</li>\n</ul>\n", "signature": "(path, prefix, c, target=0, **kwargs)", "funcdef": "def"}, "pyerrors.input.sfcf": {"fullname": "pyerrors.input.sfcf", "modulename": "pyerrors.input.sfcf", "type": "module", "doc": "<p></p>\n"}, "pyerrors.input.sfcf.read_sfcf": {"fullname": "pyerrors.input.sfcf.read_sfcf", "modulename": "pyerrors.input.sfcf", "qualname": "read_sfcf", "type": "function", "doc": "<p>Read sfcf c format from given folder structure.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>quarks</strong> (str):\nLabel of the quarks used in the sfcf input file. e.g. \"quark quark\"\nfor version 0.0 this does NOT need to be given with the typical \" - \"\nthat is present in the output file,\nthis is done automatically for this version</li>\n<li><strong>noffset</strong> (int):\nOffset of the source (only relevant when wavefunctions are used)</li>\n<li><strong>wf</strong> (int):\nID of wave function</li>\n<li><strong>wf2</strong> (int):\nID of the second wavefunction\n(only relevant for boundary-to-boundary correlation functions)</li>\n<li><strong>im</strong> (bool):\nif True, read imaginary instead of real part\nof the correlation function.</li>\n<li><strong>corr_type</strong> (str):\nchange between bi (boundary - inner) (default) bib (boundary - inner - boundary) and bb (boundary - boundary)\ncorrelator types</li>\n<li><strong>names</strong> (list):\nAlternative labeling for replicas/ensembles.\nHas to have the appropriate length</li>\n<li><strong>ens_name</strong> (str):\nreplaces the name of the ensemble</li>\n<li><strong>version</strong> (str):\nversion of SFCF, with which the measurement was done.\nif the compact output option (-c) was specified,\nappend a \"c\" to the version (e.g. \"1.0c\")\nif the append output option (-a) was specified,\nappend an \"a\" to the version</li>\n<li><strong>cfg_separator</strong> (str):\nString that separates the ensemble identifier from the configuration number (default 'n').</li>\n<li><strong>replica</strong> (list):\nlist of replica to be read, default is all</li>\n<li><strong>files</strong> (list):\nlist of files to be read per replica, default is all.\nfor non-compact output format, hand the folders to be read here.</li>\n<li><strong>check_configs:</strong>: list of list of supposed configs, eg. [range(1,1000)]\nfor one replicum with 1000 configs</li>\n</ul>\n", "signature": "(\n    path,\n    prefix,\n    name,\n    quarks='.*',\n    corr_type='bi',\n    noffset=0,\n    wf=0,\n    wf2=0,\n    version='1.0c',\n    cfg_separator='n',\n    **kwargs\n)", "funcdef": "def"}, "pyerrors.input.utils": {"fullname": "pyerrors.input.utils", "modulename": "pyerrors.input.utils", "type": "module", "doc": "<p>Utilities for the input</p>\n"}, "pyerrors.input.utils.check_idl": {"fullname": "pyerrors.input.utils.check_idl", "modulename": "pyerrors.input.utils", "qualname": "check_idl", "type": "function", "doc": "<p>Checks if list of configurations is contained in an idl</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>idl</strong> (range or list):\nidl of the current replicum</li>\n<li><strong>che</strong> (list):\nlist of configurations to be checked against</li>\n</ul>\n", "signature": "(idl, che)", "funcdef": "def"}, "pyerrors.linalg": {"fullname": "pyerrors.linalg", "modulename": "pyerrors.linalg", "type": "module", "doc": "<p></p>\n"}, "pyerrors.linalg.matmul": {"fullname": "pyerrors.linalg.matmul", "modulename": "pyerrors.linalg", "qualname": "matmul", "type": "function", "doc": "<p>Matrix multiply all operands.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>operands</strong> (numpy.ndarray):\nArbitrary number of 2d-numpy arrays which can be real or complex\nObs valued.</li>\n<li><strong>This implementation is faster compared to standard multiplication via the @ operator.</strong></li>\n</ul>\n", "signature": "(*operands)", "funcdef": "def"}, "pyerrors.linalg.jack_matmul": {"fullname": "pyerrors.linalg.jack_matmul", "modulename": "pyerrors.linalg", "qualname": "jack_matmul", "type": "function", "doc": "<p>Matrix multiply both operands making use of the jackknife approximation.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>operands</strong> (numpy.ndarray):\nArbitrary number of 2d-numpy arrays which can be real or complex\nObs valued.</li>\n<li><strong>For large matrices this is considerably faster compared to matmul.</strong></li>\n</ul>\n", "signature": "(*operands)", "funcdef": "def"}, "pyerrors.linalg.einsum": {"fullname": "pyerrors.linalg.einsum", "modulename": "pyerrors.linalg", "qualname": "einsum", "type": "function", "doc": "<p>Wrapper for numpy.einsum</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>subscripts</strong> (str):\nSubscripts for summation (see numpy documentation for details)</li>\n<li><strong>operands</strong> (numpy.ndarray):\nArbitrary number of 2d-numpy arrays which can be real or complex\nObs valued.</li>\n</ul>\n", "signature": "(subscripts, *operands)", "funcdef": "def"}, "pyerrors.linalg.inv": {"fullname": "pyerrors.linalg.inv", "modulename": "pyerrors.linalg", "qualname": "inv", "type": "function", "doc": "<p>Inverse of Obs or CObs valued matrices.</p>\n", "signature": "(x)", "funcdef": "def"}, "pyerrors.linalg.cholesky": {"fullname": "pyerrors.linalg.cholesky", "modulename": "pyerrors.linalg", "qualname": "cholesky", "type": "function", "doc": "<p>Cholesky decomposition of Obs valued matrices.</p>\n", "signature": "(x)", "funcdef": "def"}, "pyerrors.linalg.det": {"fullname": "pyerrors.linalg.det", "modulename": "pyerrors.linalg", "qualname": "det", "type": "function", "doc": "<p>Determinant of Obs valued matrices.</p>\n", "signature": "(x)", "funcdef": "def"}, "pyerrors.linalg.eigh": {"fullname": "pyerrors.linalg.eigh", "modulename": "pyerrors.linalg", "qualname": "eigh", "type": "function", "doc": "<p>Computes the eigenvalues and eigenvectors of a given hermitian matrix of Obs according to np.linalg.eigh.</p>\n", "signature": "(obs, **kwargs)", "funcdef": "def"}, "pyerrors.linalg.eig": {"fullname": "pyerrors.linalg.eig", "modulename": "pyerrors.linalg", "qualname": "eig", "type": "function", "doc": "<p>Computes the eigenvalues of a given matrix of Obs according to np.linalg.eig.</p>\n", "signature": "(obs, **kwargs)", "funcdef": "def"}, "pyerrors.linalg.pinv": {"fullname": "pyerrors.linalg.pinv", "modulename": "pyerrors.linalg", "qualname": "pinv", "type": "function", "doc": "<p>Computes the Moore-Penrose pseudoinverse of a matrix of Obs.</p>\n", "signature": "(obs, **kwargs)", "funcdef": "def"}, "pyerrors.linalg.svd": {"fullname": "pyerrors.linalg.svd", "modulename": "pyerrors.linalg", "qualname": "svd", "type": "function", "doc": "<p>Computes the singular value decomposition of a matrix of Obs.</p>\n", "signature": "(obs, **kwargs)", "funcdef": "def"}, "pyerrors.misc": {"fullname": "pyerrors.misc", "modulename": "pyerrors.misc", "type": "module", "doc": "<p></p>\n"}, "pyerrors.misc.dump_object": {"fullname": "pyerrors.misc.dump_object", "modulename": "pyerrors.misc", "qualname": "dump_object", "type": "function", "doc": "<p>Dump object into pickle file.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obj</strong> (object):\nobject to be saved in the pickle file</li>\n<li><strong>name</strong> (str):\nname of the file</li>\n<li><strong>path</strong> (str):\nspecifies a custom path for the file (default '.')</li>\n</ul>\n", "signature": "(obj, name, **kwargs)", "funcdef": "def"}, "pyerrors.misc.load_object": {"fullname": "pyerrors.misc.load_object", "modulename": "pyerrors.misc", "qualname": "load_object", "type": "function", "doc": "<p>Load object from pickle file.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>path</strong> (str):\npath to the file</li>\n</ul>\n", "signature": "(path)", "funcdef": "def"}, "pyerrors.misc.pseudo_Obs": {"fullname": "pyerrors.misc.pseudo_Obs", "modulename": "pyerrors.misc", "qualname": "pseudo_Obs", "type": "function", "doc": "<p>Generate an Obs object with given value, dvalue and name for test purposes</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>value</strong> (float):\ncentral value of the Obs to be generated.</li>\n<li><strong>dvalue</strong> (float):\nerror of the Obs to be generated.</li>\n<li><strong>name</strong> (str):\nname of the ensemble for which the Obs is to be generated.</li>\n<li><strong>samples</strong> (int):\nnumber of samples for the Obs (default 1000).</li>\n</ul>\n", "signature": "(value, dvalue, name, samples=1000)", "funcdef": "def"}, "pyerrors.misc.gen_correlated_data": {"fullname": "pyerrors.misc.gen_correlated_data", "modulename": "pyerrors.misc", "qualname": "gen_correlated_data", "type": "function", "doc": "<p>Generate observables with given covariance and autocorrelation times.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>means</strong> (list):\nlist containing the mean value of each observable.</li>\n<li><strong>cov</strong> (numpy.ndarray):\ncovariance matrix for the data to be generated.</li>\n<li><strong>name</strong> (str):\nensemble name for the data to be geneated.</li>\n<li><strong>tau</strong> (float or list):\ncan either be a real number or a list with an entry for\nevery dataset.</li>\n<li><strong>samples</strong> (int):\nnumber of samples to be generated for each observable.</li>\n</ul>\n", "signature": "(means, cov, name, tau=0.5, samples=1000)", "funcdef": "def"}, "pyerrors.mpm": {"fullname": "pyerrors.mpm", "modulename": "pyerrors.mpm", "type": "module", "doc": "<p></p>\n"}, "pyerrors.mpm.matrix_pencil_method": {"fullname": "pyerrors.mpm.matrix_pencil_method", "modulename": "pyerrors.mpm", "qualname": "matrix_pencil_method", "type": "function", "doc": "<p>Matrix pencil method to extract k energy levels from data</p>\n\n<p>Implementation of the matrix pencil method based on\neq. (2.17) of Y. Hua, T. K. Sarkar, IEEE Trans. Acoust. 38, 814-824 (1990)</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>data</strong> (list):\ncan be a list of Obs for the analysis of a single correlator, or a list of lists\nof Obs if several correlators are to analyzed at once.</li>\n<li><strong>k</strong> (int):\nNumber of states to extract (default 1).</li>\n<li><strong>p</strong> (int):\nmatrix pencil parameter which filters noise. The optimal value is expected between\nlen(data)/3 and 2*len(data)/3. The computation is more expensive the closer p is\nto len(data)/2 but could possibly suppress more noise (default len(data)//2).</li>\n</ul>\n", "signature": "(corrs, k=1, p=None, **kwargs)", "funcdef": "def"}, "pyerrors.obs": {"fullname": "pyerrors.obs", "modulename": "pyerrors.obs", "type": "module", "doc": "<p></p>\n"}, "pyerrors.obs.Obs": {"fullname": "pyerrors.obs.Obs", "modulename": "pyerrors.obs", "qualname": "Obs", "type": "class", "doc": "<p>Class for a general observable.</p>\n\n<p>Instances of Obs are the basic objects of a pyerrors error analysis.\nThey are initialized with a list which contains arrays of samples for\ndifferent ensembles/replica and another list of same length which contains\nthe names of the ensembles/replica. Mathematical operations can be\nperformed on instances. The result is another instance of Obs. The error of\nan instance can be computed with the gamma_method. Also contains additional\nmethods for output and visualization of the error calculation.</p>\n\n<h6 id=\"attributes\">Attributes</h6>\n\n<ul>\n<li><strong>S_global</strong> (float):\nStandard value for S (default 2.0)</li>\n<li><strong>S_dict</strong> (dict):\nDictionary for S values. If an entry for a given ensemble\nexists this overwrites the standard value for that ensemble.</li>\n<li><strong>tau_exp_global</strong> (float):\nStandard value for tau_exp (default 0.0)</li>\n<li><strong>tau_exp_dict</strong> (dict):\nDictionary for tau_exp values. If an entry for a given ensemble exists\nthis overwrites the standard value for that ensemble.</li>\n<li><strong>N_sigma_global</strong> (float):\nStandard value for N_sigma (default 1.0)</li>\n<li><strong>N_sigma_dict</strong> (dict):\nDictionary for N_sigma values. If an entry for a given ensemble exists\nthis overwrites the standard value for that ensemble.</li>\n</ul>\n"}, "pyerrors.obs.Obs.__init__": {"fullname": "pyerrors.obs.Obs.__init__", "modulename": "pyerrors.obs", "qualname": "Obs.__init__", "type": "function", "doc": "<p>Initialize Obs object.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>samples</strong> (list):\nlist of numpy arrays containing the Monte Carlo samples</li>\n<li><strong>names</strong> (list):\nlist of strings labeling the individual samples</li>\n<li><strong>idl</strong> (list, optional):\nlist of ranges or lists on which the samples are defined</li>\n</ul>\n", "signature": "(self, samples, names, idl=None, **kwargs)", "funcdef": "def"}, "pyerrors.obs.Obs.S_global": {"fullname": "pyerrors.obs.Obs.S_global", "modulename": "pyerrors.obs", "qualname": "Obs.S_global", "type": "variable", "doc": "<p></p>\n", "default_value": " = 2.0"}, "pyerrors.obs.Obs.S_dict": {"fullname": "pyerrors.obs.Obs.S_dict", "modulename": "pyerrors.obs", "qualname": "Obs.S_dict", "type": "variable", "doc": "<p></p>\n", "default_value": " = {}"}, "pyerrors.obs.Obs.tau_exp_global": {"fullname": "pyerrors.obs.Obs.tau_exp_global", "modulename": "pyerrors.obs", "qualname": "Obs.tau_exp_global", "type": "variable", "doc": "<p></p>\n", "default_value": " = 0.0"}, "pyerrors.obs.Obs.tau_exp_dict": {"fullname": "pyerrors.obs.Obs.tau_exp_dict", "modulename": "pyerrors.obs", "qualname": "Obs.tau_exp_dict", "type": "variable", "doc": "<p></p>\n", "default_value": " = {}"}, "pyerrors.obs.Obs.N_sigma_global": {"fullname": "pyerrors.obs.Obs.N_sigma_global", "modulename": "pyerrors.obs", "qualname": "Obs.N_sigma_global", "type": "variable", "doc": "<p></p>\n", "default_value": " = 1.0"}, "pyerrors.obs.Obs.N_sigma_dict": {"fullname": "pyerrors.obs.Obs.N_sigma_dict", "modulename": "pyerrors.obs", "qualname": "Obs.N_sigma_dict", "type": "variable", "doc": "<p></p>\n", "default_value": " = {}"}, "pyerrors.obs.Obs.filter_eps": {"fullname": "pyerrors.obs.Obs.filter_eps", "modulename": "pyerrors.obs", "qualname": "Obs.filter_eps", "type": "variable", "doc": "<p></p>\n", "default_value": " = 1e-10"}, "pyerrors.obs.Obs.names": {"fullname": "pyerrors.obs.Obs.names", "modulename": "pyerrors.obs", "qualname": "Obs.names", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.shape": {"fullname": "pyerrors.obs.Obs.shape", "modulename": "pyerrors.obs", "qualname": "Obs.shape", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.r_values": {"fullname": "pyerrors.obs.Obs.r_values", "modulename": "pyerrors.obs", "qualname": "Obs.r_values", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.deltas": {"fullname": "pyerrors.obs.Obs.deltas", "modulename": "pyerrors.obs", "qualname": "Obs.deltas", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.N": {"fullname": "pyerrors.obs.Obs.N", "modulename": "pyerrors.obs", "qualname": "Obs.N", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.is_merged": {"fullname": "pyerrors.obs.Obs.is_merged", "modulename": "pyerrors.obs", "qualname": "Obs.is_merged", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.idl": {"fullname": "pyerrors.obs.Obs.idl", "modulename": "pyerrors.obs", "qualname": "Obs.idl", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.ddvalue": {"fullname": "pyerrors.obs.Obs.ddvalue", "modulename": "pyerrors.obs", "qualname": "Obs.ddvalue", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.reweighted": {"fullname": "pyerrors.obs.Obs.reweighted", "modulename": "pyerrors.obs", "qualname": "Obs.reweighted", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.tag": {"fullname": "pyerrors.obs.Obs.tag", "modulename": "pyerrors.obs", "qualname": "Obs.tag", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.value": {"fullname": "pyerrors.obs.Obs.value", "modulename": "pyerrors.obs", "qualname": "Obs.value", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.dvalue": {"fullname": "pyerrors.obs.Obs.dvalue", "modulename": "pyerrors.obs", "qualname": "Obs.dvalue", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_names": {"fullname": "pyerrors.obs.Obs.e_names", "modulename": "pyerrors.obs", "qualname": "Obs.e_names", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.cov_names": {"fullname": "pyerrors.obs.Obs.cov_names", "modulename": "pyerrors.obs", "qualname": "Obs.cov_names", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.mc_names": {"fullname": "pyerrors.obs.Obs.mc_names", "modulename": "pyerrors.obs", "qualname": "Obs.mc_names", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_content": {"fullname": "pyerrors.obs.Obs.e_content", "modulename": "pyerrors.obs", "qualname": "Obs.e_content", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.covobs": {"fullname": "pyerrors.obs.Obs.covobs", "modulename": "pyerrors.obs", "qualname": "Obs.covobs", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.gamma_method": {"fullname": "pyerrors.obs.Obs.gamma_method", "modulename": "pyerrors.obs", "qualname": "Obs.gamma_method", "type": "function", "doc": "<p>Estimate the error and related properties of the Obs.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>S</strong> (float):\nspecifies a custom value for the parameter S (default 2.0).\nIf set to 0 it is assumed that the data exhibits no\nautocorrelation. In this case the error estimates coincides\nwith the sample standard error.</li>\n<li><strong>tau_exp</strong> (float):\npositive value triggers the critical slowing down analysis\n(default 0.0).</li>\n<li><strong>N_sigma</strong> (float):\nnumber of standard deviations from zero until the tail is\nattached to the autocorrelation function (default 1).</li>\n<li><strong>fft</strong> (bool):\ndetermines whether the fft algorithm is used for the computation\nof the autocorrelation function (default True)</li>\n</ul>\n", "signature": "(self, **kwargs)", "funcdef": "def"}, "pyerrors.obs.Obs.details": {"fullname": "pyerrors.obs.Obs.details", "modulename": "pyerrors.obs", "qualname": "Obs.details", "type": "function", "doc": "<p>Output detailed properties of the Obs.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>ens_content</strong> (bool):\nprint details about the ensembles and replica if true.</li>\n</ul>\n", "signature": "(self, ens_content=True)", "funcdef": "def"}, "pyerrors.obs.Obs.is_zero_within_error": {"fullname": "pyerrors.obs.Obs.is_zero_within_error", "modulename": "pyerrors.obs", "qualname": "Obs.is_zero_within_error", "type": "function", "doc": "<p>Checks whether the observable is zero within 'sigma' standard errors.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>sigma</strong> (int):\nNumber of standard errors used for the check.</li>\n<li><strong>Works only properly when the gamma method was run.</strong></li>\n</ul>\n", "signature": "(self, sigma=1)", "funcdef": "def"}, "pyerrors.obs.Obs.is_zero": {"fullname": "pyerrors.obs.Obs.is_zero", "modulename": "pyerrors.obs", "qualname": "Obs.is_zero", "type": "function", "doc": "<p>Checks whether the observable is zero within a given tolerance.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>atol</strong> (float):\nAbsolute tolerance (for details see numpy documentation).</li>\n</ul>\n", "signature": "(self, atol=1e-10)", "funcdef": "def"}, "pyerrors.obs.Obs.plot_tauint": {"fullname": "pyerrors.obs.Obs.plot_tauint", "modulename": "pyerrors.obs", "qualname": "Obs.plot_tauint", "type": "function", "doc": "<p>Plot integrated autocorrelation time for each ensemble.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>save</strong> (str):\nsaves the figure to a file named 'save' if.</li>\n</ul>\n", "signature": "(self, save=None)", "funcdef": "def"}, "pyerrors.obs.Obs.plot_rho": {"fullname": "pyerrors.obs.Obs.plot_rho", "modulename": "pyerrors.obs", "qualname": "Obs.plot_rho", "type": "function", "doc": "<p>Plot normalized autocorrelation function time for each ensemble.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>save</strong> (str):\nsaves the figure to a file named 'save' if.</li>\n</ul>\n", "signature": "(self, save=None)", "funcdef": "def"}, "pyerrors.obs.Obs.plot_rep_dist": {"fullname": "pyerrors.obs.Obs.plot_rep_dist", "modulename": "pyerrors.obs", "qualname": "Obs.plot_rep_dist", "type": "function", "doc": "<p>Plot replica distribution for each ensemble with more than one replicum.</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.plot_history": {"fullname": "pyerrors.obs.Obs.plot_history", "modulename": "pyerrors.obs", "qualname": "Obs.plot_history", "type": "function", "doc": "<p>Plot derived Monte Carlo history for each ensemble</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>expand</strong> (bool):\nshow expanded history for irregular Monte Carlo chains (default: True).</li>\n</ul>\n", "signature": "(self, expand=True)", "funcdef": "def"}, "pyerrors.obs.Obs.plot_piechart": {"fullname": "pyerrors.obs.Obs.plot_piechart", "modulename": "pyerrors.obs", "qualname": "Obs.plot_piechart", "type": "function", "doc": "<p>Plot piechart which shows the fractional contribution of each\nensemble to the error and returns a dictionary containing the fractions.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>save</strong> (str):\nsaves the figure to a file named 'save' if.</li>\n</ul>\n", "signature": "(self, save=None)", "funcdef": "def"}, "pyerrors.obs.Obs.dump": {"fullname": "pyerrors.obs.Obs.dump", "modulename": "pyerrors.obs", "qualname": "Obs.dump", "type": "function", "doc": "<p>Dump the Obs to a file 'name' of chosen format.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>filename</strong> (str):\nname of the file to be saved.</li>\n<li><strong>datatype</strong> (str):\nFormat of the exported file. Supported formats include\n\"json.gz\" and \"pickle\"</li>\n<li><strong>description</strong> (str):\nDescription for output file, only relevant for json.gz format.</li>\n<li><strong>path</strong> (str):\nspecifies a custom path for the file (default '.')</li>\n</ul>\n", "signature": "(self, filename, datatype='json.gz', description='', **kwargs)", "funcdef": "def"}, "pyerrors.obs.Obs.export_jackknife": {"fullname": "pyerrors.obs.Obs.export_jackknife", "modulename": "pyerrors.obs", "qualname": "Obs.export_jackknife", "type": "function", "doc": "<p>Export jackknife samples from the Obs</p>\n\n<h6 id=\"returns\">Returns</h6>\n\n<ul>\n<li><strong>numpy.ndarray</strong>: Returns a numpy array of length N + 1 where N is the number of samples\nfor the given ensemble and replicum. The zeroth entry of the array contains\nthe mean value of the Obs, entries 1 to N contain the N jackknife samples\nderived from the Obs. The current implementation only works for observables\ndefined on exactly one ensemble and replicum. The derived jackknife samples\nshould agree with samples from a full jackknife analysis up to O(1/N).</li>\n</ul>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.sqrt": {"fullname": "pyerrors.obs.Obs.sqrt", "modulename": "pyerrors.obs", "qualname": "Obs.sqrt", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.log": {"fullname": "pyerrors.obs.Obs.log", "modulename": "pyerrors.obs", "qualname": "Obs.log", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.exp": {"fullname": "pyerrors.obs.Obs.exp", "modulename": "pyerrors.obs", "qualname": "Obs.exp", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.sin": {"fullname": "pyerrors.obs.Obs.sin", "modulename": "pyerrors.obs", "qualname": "Obs.sin", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.cos": {"fullname": "pyerrors.obs.Obs.cos", "modulename": "pyerrors.obs", "qualname": "Obs.cos", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.tan": {"fullname": "pyerrors.obs.Obs.tan", "modulename": "pyerrors.obs", "qualname": "Obs.tan", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.arcsin": {"fullname": "pyerrors.obs.Obs.arcsin", "modulename": "pyerrors.obs", "qualname": "Obs.arcsin", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.arccos": {"fullname": "pyerrors.obs.Obs.arccos", "modulename": "pyerrors.obs", "qualname": "Obs.arccos", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.arctan": {"fullname": "pyerrors.obs.Obs.arctan", "modulename": "pyerrors.obs", "qualname": "Obs.arctan", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.sinh": {"fullname": "pyerrors.obs.Obs.sinh", "modulename": "pyerrors.obs", "qualname": "Obs.sinh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.cosh": {"fullname": "pyerrors.obs.Obs.cosh", "modulename": "pyerrors.obs", "qualname": "Obs.cosh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.tanh": {"fullname": "pyerrors.obs.Obs.tanh", "modulename": "pyerrors.obs", "qualname": "Obs.tanh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.arcsinh": {"fullname": "pyerrors.obs.Obs.arcsinh", "modulename": "pyerrors.obs", "qualname": "Obs.arcsinh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.arccosh": {"fullname": "pyerrors.obs.Obs.arccosh", "modulename": "pyerrors.obs", "qualname": "Obs.arccosh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.arctanh": {"fullname": "pyerrors.obs.Obs.arctanh", "modulename": "pyerrors.obs", "qualname": "Obs.arctanh", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.Obs.N_sigma": {"fullname": "pyerrors.obs.Obs.N_sigma", "modulename": "pyerrors.obs", "qualname": "Obs.N_sigma", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.S": {"fullname": "pyerrors.obs.Obs.S", "modulename": "pyerrors.obs", "qualname": "Obs.S", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_ddvalue": {"fullname": "pyerrors.obs.Obs.e_ddvalue", "modulename": "pyerrors.obs", "qualname": "Obs.e_ddvalue", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_drho": {"fullname": "pyerrors.obs.Obs.e_drho", "modulename": "pyerrors.obs", "qualname": "Obs.e_drho", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_dtauint": {"fullname": "pyerrors.obs.Obs.e_dtauint", "modulename": "pyerrors.obs", "qualname": "Obs.e_dtauint", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_dvalue": {"fullname": "pyerrors.obs.Obs.e_dvalue", "modulename": "pyerrors.obs", "qualname": "Obs.e_dvalue", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_n_dtauint": {"fullname": "pyerrors.obs.Obs.e_n_dtauint", "modulename": "pyerrors.obs", "qualname": "Obs.e_n_dtauint", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_n_tauint": {"fullname": "pyerrors.obs.Obs.e_n_tauint", "modulename": "pyerrors.obs", "qualname": "Obs.e_n_tauint", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_rho": {"fullname": "pyerrors.obs.Obs.e_rho", "modulename": "pyerrors.obs", "qualname": "Obs.e_rho", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_tauint": {"fullname": "pyerrors.obs.Obs.e_tauint", "modulename": "pyerrors.obs", "qualname": "Obs.e_tauint", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.e_windowsize": {"fullname": "pyerrors.obs.Obs.e_windowsize", "modulename": "pyerrors.obs", "qualname": "Obs.e_windowsize", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.Obs.tau_exp": {"fullname": "pyerrors.obs.Obs.tau_exp", "modulename": "pyerrors.obs", "qualname": "Obs.tau_exp", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.CObs": {"fullname": "pyerrors.obs.CObs", "modulename": "pyerrors.obs", "qualname": "CObs", "type": "class", "doc": "<p>Class for a complex valued observable.</p>\n"}, "pyerrors.obs.CObs.__init__": {"fullname": "pyerrors.obs.CObs.__init__", "modulename": "pyerrors.obs", "qualname": "CObs.__init__", "type": "function", "doc": "<p></p>\n", "signature": "(self, real, imag=0.0)", "funcdef": "def"}, "pyerrors.obs.CObs.tag": {"fullname": "pyerrors.obs.CObs.tag", "modulename": "pyerrors.obs", "qualname": "CObs.tag", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.CObs.real": {"fullname": "pyerrors.obs.CObs.real", "modulename": "pyerrors.obs", "qualname": "CObs.real", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.CObs.imag": {"fullname": "pyerrors.obs.CObs.imag", "modulename": "pyerrors.obs", "qualname": "CObs.imag", "type": "variable", "doc": "<p></p>\n"}, "pyerrors.obs.CObs.gamma_method": {"fullname": "pyerrors.obs.CObs.gamma_method", "modulename": "pyerrors.obs", "qualname": "CObs.gamma_method", "type": "function", "doc": "<p>Executes the gamma_method for the real and the imaginary part.</p>\n", "signature": "(self, **kwargs)", "funcdef": "def"}, "pyerrors.obs.CObs.is_zero": {"fullname": "pyerrors.obs.CObs.is_zero", "modulename": "pyerrors.obs", "qualname": "CObs.is_zero", "type": "function", "doc": "<p>Checks whether both real and imaginary part are zero within machine precision.</p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.CObs.conjugate": {"fullname": "pyerrors.obs.CObs.conjugate", "modulename": "pyerrors.obs", "qualname": "CObs.conjugate", "type": "function", "doc": "<p></p>\n", "signature": "(self)", "funcdef": "def"}, "pyerrors.obs.derived_observable": {"fullname": "pyerrors.obs.derived_observable", "modulename": "pyerrors.obs", "qualname": "derived_observable", "type": "function", "doc": "<p>Construct a derived Obs according to func(data, **kwargs) using automatic differentiation.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>func</strong> (object):\narbitrary function of the form func(data, **kwargs). For the\nautomatic differentiation to work, all numpy functions have to have\nthe autograd wrapper (use 'import autograd.numpy as anp').</li>\n<li><strong>data</strong> (list):\nlist of Obs, e.g. [obs1, obs2, obs3].</li>\n<li><strong>num_grad</strong> (bool):\nif True, numerical derivatives are used instead of autograd\n(default False). To control the numerical differentiation the\nkwargs of numdifftools.step_generators.MaxStepGenerator\ncan be used.</li>\n<li><strong>man_grad</strong> (list):\nmanually supply a list or an array which contains the jacobian\nof func. Use cautiously, supplying the wrong derivative will\nnot be intercepted.</li>\n</ul>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>For simple mathematical operations it can be practical to use anonymous\nfunctions. For the ratio of two observables one can e.g. use</p>\n\n<p>new_obs = derived_observable(lambda x: x[0] / x[1], [obs1, obs2])</p>\n", "signature": "(func, data, array_mode=False, **kwargs)", "funcdef": "def"}, "pyerrors.obs.reweight": {"fullname": "pyerrors.obs.reweight", "modulename": "pyerrors.obs", "qualname": "reweight", "type": "function", "doc": "<p>Reweight a list of observables.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>weight</strong> (Obs):\nReweighting factor. An Observable that has to be defined on a superset of the\nconfigurations in obs[i].idl for all i.</li>\n<li><strong>obs</strong> (list):\nlist of Obs, e.g. [obs1, obs2, obs3].</li>\n<li><strong>all_configs</strong> (bool):\nif True, the reweighted observables are normalized by the average of\nthe reweighting factor on all configurations in weight.idl and not\non the configurations in obs[i].idl.</li>\n</ul>\n", "signature": "(weight, obs, **kwargs)", "funcdef": "def"}, "pyerrors.obs.correlate": {"fullname": "pyerrors.obs.correlate", "modulename": "pyerrors.obs", "qualname": "correlate", "type": "function", "doc": "<p>Correlate two observables.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obs_a</strong> (Obs):\nFirst observable</li>\n<li><strong>obs_b</strong> (Obs):\nSecond observable</li>\n</ul>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>Keep in mind to only correlate primary observables which have not been reweighted\nyet. The reweighting has to be applied after correlating the observables.\nCurrently only works if ensembles are identical (this is not strictly necessary).</p>\n", "signature": "(obs_a, obs_b)", "funcdef": "def"}, "pyerrors.obs.covariance": {"fullname": "pyerrors.obs.covariance", "modulename": "pyerrors.obs", "qualname": "covariance", "type": "function", "doc": "<p>Calculates the error covariance matrix of a set of observables.</p>\n\n<p>The gamma method has to be applied first to all observables.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>obs</strong> (list or numpy.ndarray):\nList or one dimensional array of Obs</li>\n<li><strong>visualize</strong> (bool):\nIf True plots the corresponding normalized correlation matrix (default False).</li>\n<li><strong>correlation</strong> (bool):\nIf True the correlation matrix instead of the error covariance matrix is returned (default False).</li>\n<li><strong>smooth</strong> (None or int):\nIf smooth is an integer 'E' between 2 and the dimension of the matrix minus 1 the eigenvalue\nsmoothing procedure of hep-lat/9412087 is applied to the correlation matrix which leaves the\nlargest E eigenvalues essentially unchanged and smoothes the smaller eigenvalues to avoid extremely\nsmall ones.</li>\n</ul>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>The error covariance is defined such that it agrees with the squared standard error for two identical observables\n$$\\operatorname{cov}(a,a)=\\sum_{s=1}^N\\delta_a^s\\delta_a^s/N^2=\\Gamma_{aa}(0)/N=\\operatorname{var}(a)/N=\\sigma_a^2$$\nin the absence of autocorrelation.\nThe error covariance is estimated by calculating the correlation matrix assuming no autocorrelation and then rescaling the correlation matrix by the full errors including the previous gamma method estimate for the autocorrelation of the observables. The covariance at windowsize 0 is guaranteed to be positive semi-definite\n$$\\sum_{i,j}v_i\\Gamma_{ij}(0)v_j=\\frac{1}{N}\\sum_{s=1}^N\\sum_{i,j}v_i\\delta_i^s\\delta_j^s v_j=\\frac{1}{N}\\sum_{s=1}^N\\sum_{i}|v_i\\delta_i^s|^2\\geq 0\\,,$$ for every $v\\in\\mathbb{R}^M$, while such an identity does not hold for larger windows/lags.\nFor observables defined on a single ensemble our approximation is equivalent to assuming that the integrated autocorrelation time of an off-diagonal element is equal to the geometric mean of the integrated autocorrelation times of the corresponding diagonal elements.\n$$\\tau_{\\mathrm{int}, ij}=\\sqrt{\\tau_{\\mathrm{int}, i}\\times \\tau_{\\mathrm{int}, j}}$$\nThis construction ensures that the estimated covariance matrix is positive semi-definite (up to numerical rounding errors).</p>\n", "signature": "(obs, visualize=False, correlation=False, smooth=None, **kwargs)", "funcdef": "def"}, "pyerrors.obs.import_jackknife": {"fullname": "pyerrors.obs.import_jackknife", "modulename": "pyerrors.obs", "qualname": "import_jackknife", "type": "function", "doc": "<p>Imports jackknife samples and returns an Obs</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>jacks</strong> (numpy.ndarray):\nnumpy array containing the mean value as zeroth entry and\nthe N jackknife samples as first to Nth entry.</li>\n<li><strong>name</strong> (str):\nname of the ensemble the samples are defined on.</li>\n</ul>\n", "signature": "(jacks, name, idl=None)", "funcdef": "def"}, "pyerrors.obs.merge_obs": {"fullname": "pyerrors.obs.merge_obs", "modulename": "pyerrors.obs", "qualname": "merge_obs", "type": "function", "doc": "<p>Combine all observables in list_of_obs into one new observable</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>list_of_obs</strong> (list):\nlist of the Obs object to be combined</li>\n</ul>\n\n<h6 id=\"notes\">Notes</h6>\n\n<p>It is not possible to combine obs which are based on the same replicum</p>\n", "signature": "(list_of_obs)", "funcdef": "def"}, "pyerrors.obs.cov_Obs": {"fullname": "pyerrors.obs.cov_Obs", "modulename": "pyerrors.obs", "qualname": "cov_Obs", "type": "function", "doc": "<p>Create an Obs based on mean(s) and a covariance matrix</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>mean</strong> (list of floats or float):\nN mean value(s) of the new Obs</li>\n<li><strong>cov</strong> (list or array):\n2d (NxN) Covariance matrix, 1d diagonal entries or 0d covariance</li>\n<li><strong>name</strong> (str):\nidentifier for the covariance matrix</li>\n<li><strong>grad</strong> (list or array):\nGradient of the Covobs wrt. the means belonging to cov.</li>\n</ul>\n", "signature": "(means, cov, name, grad=None)", "funcdef": "def"}, "pyerrors.roots": {"fullname": "pyerrors.roots", "modulename": "pyerrors.roots", "type": "module", "doc": "<p></p>\n"}, "pyerrors.roots.find_root": {"fullname": "pyerrors.roots.find_root", "modulename": "pyerrors.roots", "qualname": "find_root", "type": "function", "doc": "<p>Finds the root of the function func(x, d) where d is an <code>Obs</code>.</p>\n\n<h6 id=\"parameters\">Parameters</h6>\n\n<ul>\n<li><strong>d</strong> (Obs):\nObs passed to the function.</li>\n<li><strong>func</strong> (object):\nFunction to be minimized. Any numpy functions have to use the autograd.numpy wrapper.\nExample:\n<code>python\nimport autograd.numpy as anp\ndef root_func(x, d):\n   return anp.exp(-x ** 2) - d\n</code></li>\n<li><strong>guess</strong> (float):\nInitial guess for the minimization.</li>\n</ul>\n\n<h6 id=\"returns\">Returns</h6>\n\n<ul>\n<li><strong>Obs</strong>: <code>Obs</code> valued root of the function.</li>\n</ul>\n", "signature": "(d, func, guess=1.0, **kwargs)", "funcdef": "def"}, "pyerrors.version": {"fullname": "pyerrors.version", "modulename": "pyerrors.version", "type": "module", "doc": "<p></p>\n"}}, "docInfo": {"pyerrors": {"qualname": 0, "fullname": 1, "annotation": 0, "default_value": 0, "signature": 0, "bases": 0, "doc": 7902}, "pyerrors.correlators": {"qualname": 0, "fullname": 2, "annotation": 0, "default_value": 0, "signature": 0, "bases": 0, "doc": 3}, "pyerrors.correlators.Corr": {"qualname": 1, "fullname": 3, "annotation": 0, "default_value": 0, "signature": 0, "bases": 0, "doc": 108}, 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